The role of planktonic Flavobacteria in processing algal organicFor matter Peer in coastal Review East Antarctica Only revealed using metagenomics and metaproteomics
Journal: Environmental Microbiology and Environmental Microbiology Reports
Manuscript ID: EMI-2012-0714.R1
Manuscript Type: EMI - Research article
Journal: Environmental Microbiology
Date Submitted by the Author: n/a
Complete List of Authors: Cavicchioli, Ricardo
ecophysiology, environmental genomics, functional diversity, Keywords: genomics/functional genomics/comparative genomics, bacteria, metagenomics/community genomics, microbial ecology, archaea
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The role of planktonic Flavobacteria in processing algal
organic matter in coastal East Antarctica revealed using
metagenomics and metaproteomics For Peer Review Only Timothy J. Williams 1, David Wilkins 1, Emilie Long 1,2 , Flavia Evans 1, Mathew Z.
DeMaere 1, Mark J. Raftery 3, and Ricardo Cavicchioli 1†
1 School of Biotechnology and Biomolecular Sciences, The University of New South
Wales, Sydney, New South Wales, 2052, Australia.
2 UFR 927, Université Pierre et Marie Curie (UPMC) Paris VI, 4 place Jussieu 75532,
Paris, France
3 Bioanalytical Mass Spectrometry Facility, The University of New South Wales, Sydney,
New South Wales, 2052, Australia.
† To whom correspondence should be addressed. E mail: [email protected]
Running head: Metaproteomics of marine Antarctic Flavobacteria
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1 Summary
2
3 Heterotrophic marine bacteria play key roles in remineralizing organic matter
4 generated from primary production. However, far more is known about which 5 groups areFor dominant Peerthan about the Review cellular processes they Only perform in order to 6 become dominant. In the Southern Ocean, eukaryotic phytoplankton are the
7 dominant primary producers. In this study we used metagenomics and
8 metaproteomics to determine how the dominant bacterial and archaeal plankton
9 processed bloom material. We examined the microbial community composition in
10 fourteen metagenomes and found that the relative abundance of Flavobacteria
11 (dominated by Polaribacter ) was positively correlated with chlorophyll a
12 fluorescence, and the relative abundance of SAR11 was inversely correlated with
13 both fluorescence and Flavobacteria abundance. By performing metaproteomics on
14 the sample with the highest relative abundance of Flavobacteria (Newcomb Bay,
15 East Antarctica) we defined how Flavobacteria attach to and degrade diverse
16 complex organic material, how they make labile compounds available to
17 Alphaproteobacteria (especially SAR11) and Gammaproteobacteria , and how these
18 heterotrophic Proteobacteria target and utilize these nutrients. The presence of
19 methylotrophic proteins for archaea and bacteria also indicated the importance of
20 metabolic specialists. Overall, the study provides functional data for the microbial
21 mechanisms of nutrient cycling at the surface of the coastal Southern Ocean.
22
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23 Introduction
24
25 Bacterioplankton populations in the world’s oceans are typically dominated by three
26 bacterial clades: Alphaproteobacteria , Gammaproteobacteria , and Bacteroidetes 27 (Glöckner Foret al. , 1999; Peer Kirchman, 2002; Review Kirchman et al. , 2003; Only O’Sullivan et al. , 2004; 28 Abell and Bowman, 2005a). They also dominate Southern Ocean bacterioplankton
29 populations in the austral summer (Abell and Bowman, 2005a,b; Murray and Grzymski,
30 2007; Jamieson et al. , 2012; Grzymski et al., 2012).
31 Flavobacteria , the major clade of Bacteroidetes in the marine environment, are
32 heterotrophs that target complex organic matter, and specialize in the degradation of
33 biopolymers (Pinhassi et al. , 1999; Cottrell and Kirchman. 2000; Kirchman, 2002; Abell
34 and Bowman, 2005a,b; González et al. , 2008; Teeling et al. , 2012). Flavobacteria target
35 high molecular weight compounds and tend to be abundant during phytoplankton blooms
36 (DeLong et al., 1993; Glöckner et al. , 1999; Pinhassi, 2004; West et al. , 2008; Teeling et
37 al. , 2012). Increased Flavobacteria abundance has been linked to enhanced primary
38 production (Brown and Bowman, 2001; Kirchman, 2002; Horner Devine et al. , 2003;
39 Abell and Bowman, 2005a; Murray and Grzymski, 2007), consistent with their role as
40 major mineralizers of organic matter (Cottrell and Kirchman, 2000). Flavobacteria are
41 especially important as the “first responders” to phytoplankton blooms, and by breaking
42 down complex organic matter by direct attachment and exoenzymatic attack of algal cells
43 and algal derived detrital particles (Kirchman, 2002; Gómez Pereira et al. , 2012; Teeling
44 et al. , 2012). Consistent with this, Flavobacteria tend to be abundant in the Southern
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45 Ocean where the waters are enriched in nutrients and phytoplankton (Abell and Bowman
46 2005a), particularly in summer (Grzymski et al., 2012; Williams et al., 2012).
47 Marine Alphaproteobacteria populations are dominated by the SAR11 and
48 Roseobacter clades, which favor labile substrates, including byproducts from the growth 49 of algae andFor Flavobacteria Peer (Mou et al.Review, 2008; Teeling et al. , 2012).Only Members of the 50 SAR11 clade are obligately planktonic, scavenge low concentrations of nutrients from
51 seawater (Morris et al. , 2002; Giovannoni et al. , 2005), and are most abundant where
52 phytoplankton biomass and primary production are low (Morris et al. , 2002; Sowell et
53 al. , 2009). Members of the Roseobacter clade of the Rhodobacterales are metabolically
54 diverse, targeting a wider range of substrates than SAR11 (Wagner Döbler and Biebl,
55 2006; Moran et al. , 2007), and are often found in close association with phytoplankton
56 (Pinhassi et al. , 2004; West et al. , 2008). SAR116 is a clade of Alphaproteobacteria that
57 has also been detected in a range of marine environments, and has been regarded as a
58 metabolic generalist (Oh et al. , 2010). Gammaproteobacteria also comprise a major
59 component of marine bacterioplankton, and are represented by phylogenetically diverse
60 clades. Marine members of Oceanospirillales and Alteromonadales include heterotrophs
61 with broad substrate preferences, with cold adapted genera such as Colwellia ,
62 Pseudoalteromonas , Marinobacter and Psychromonas recorded in Southern Ocean
63 seawater and sea ice off Antarctica (Bowman et al. , 1997; Piquet et al. , 2011). The
64 Oligotrophic Marine Gammaproteobacteria (OMG) group are physiologically diverse
65 marine heterotrophs that have been shown to be obligately oligotrophic when grown in
66 culture (Cho and Giovannoni, 2004).
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67 In addition to these groups, Antarctic surface waters include putative
68 chemolithoautotrophs, notably sulfur oxidizing Gammaproteobacteria and ammonia
69 oxidizing Marine Group I Crenarchaeota (MGI), as major components of the
70 picoplankton (Murray and Grzymski, 2007; Gzymski et al. , 2012; Williams et al. , 2012). 71 Bacteria ofFor the gammaproteobacterial Peer Reviewsulfur oxidizer EOSA 1 Only (GSO EOSA 1) complex 72 have been reported in global mesopelagic waters (Swan et al., 2011) and oxygen
73 minimum zones (Walsh et al., 2009; Canfield et al., 2010), and their ecological role in
74 surface waters is yet to be determined (Grzymski et al. , 2012; Williams et al. , 2012).
75 MGI (also called Thaumarchaeota ) appear to play an important role performing ‘dark’
76 chemolithotrophic carbon fixation and nitrification in the bulk ocean (Konneke et al. ,
77 2005; Wuchter et al., 2006; Berg et al. , 2007), as well as in Antarctic surface waters in
78 winter (Grzymski et al. , 2012; Williams et al. , 2012).
79 In the North Sea, specific populations of Alphaproteobacteria ,
80 Gammaproteobacteria and Bacteroidetes have been shown to successively exploit
81 organic matter in response to diatom blooms (Teeling et al. , 2012). During the decline in
82 chlorophyll a levels that followed a bloom (marked by a rapid increase in chlorophyll a
83 levels from essentially zero to ~25 g L 1), the relative abundances of specific
84 Flavobacteria (Ulvibacter spp., Formosa spp., and Polaribacter spp.) and
85 Gammaproteobacteria (Reinekea spp. and SAR92 clade) were found to peak, while
86 specific groups of Alphaproteobacteria (SAR11 and Roseobacter clade) remained
87 comparatively constant (Teeling et al. , 2012).
88 The Southern Ocean is dominated by eukaryotic phytoplankton (rather than
89 Cyanobacteria ), and consists mainly of diatoms, dinoflagellates, and haptophytes (Wright
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90 et al. , 2010). Antarctic surface blooms occur as a result of release of nutrients
91 (particularly iron) upwelled over winter or through other nutrient incursions (Boyd and
92 Ellwood, 2010). For much of the Southern Ocean, surface concentrations of <0.3 – 0.4 g
93 L 1 are typical, while higher chlorophyll concentrations (>1 g L 1) are associated with 94 the major SouthernFor Ocean Peer fronts, ice edgeReview blooms during sea ice Only retreat in summer, and 95 coastal/shelf waters (Moore and Abbott, 2000). However to date, metagenome or
96 metaproteome based studies of the bacterial and archaeal communities associated with
97 high chlorophyll a blooms in the Southern Ocean have not been reported.
98 In the current study we analyzed metagenomic data from 14 surface locations in the
99 Southern Ocean of East Antarctica, including coastal sites, to examine the comparative
100 diversity of community composition, and determine the abundance of Flavobacteria
101 relative to community composition and chlorophyll a levels. We then targeted for
102 metaproteomic analysis a sample from Newcomb Bay that was highly enriched in
103 Flavobacteria , in order to elucidate the processes by which these heterotrophs procured
104 and processed substrates, and contributed toward remineralization of organic matter. In
105 association with metaproteomic data for Alphaproteobacteria and Gammaproteobacteria
106 we gained insights into how coastal Antarctic bacterioplankton target substrates,
107 particularly those that could be linked to algal turnover, and what the major microbial
108 pathways were that were operating at the ocean surface.
109
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110 Results and discussion
111
112 Phylogenetic diversity and influence of environmental factors on the community
113 composition of 14 Southern Ocean metagenomes 114 For Peer Review Only 115 To evaluate the representation of major taxonomic groups in the 14 Southern Ocean
116 metagenomes, the operational taxonomic unit (OTUs) from Genome Abundance and
117 Average Size (GAAS) analysis were manually sorted into Flavobacteria , SAR11,
118 Rhodobacterales , GSO EOSA 1 complex, OMG, Oceanospirillales +Alteromonadales ,
119 SAR116, and MGI (Table 1, Fig. 1). OTUs pertaining to Oceanospirillales or
120 Alteromonadales were combined into one group due to the difficulty of resolving
121 relationships between members of these two Gammaproteobacteria orders (Williams et
122 al. , 2010). All the OTUs for phylum Bacteroidetes were members of the class
123 Flavobacteria .
124 OTUs with best matches to Bacteroidetes made up 3.2 to 50.4% of the metagenome
125 across the 14 samples (Table 1). The relative abundance of Flavobacteria was strongly
126 positively correlated with chlorophyll a fluorescence (Pearson's correlation coefficient r =
127 +0.81, p < 0.01) (Fig. 2). The wide range of chlorophyll a concentrations (0.14 to 12.1 g
128 L 1) examined represent numerous stages of Southern Ocean algal blooms (Fig. 1 and 2).
129 By comparison, using DGGE 16S rRNA gene sequencing and fluorescent in situ
130 hybridization, no correlation was previously found between chlorophyll a fluorescence
131 and the abundance of planktonic Flavobacteria (size range 0.2 – 0.8 m) (Abell and
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132 Bowman, 2005a). However, notably in this study the chlorophyll a fluorescence in the
133 Southern Ocean samples only ranged from ~ 0.30 to 0.55 g L 1.
134 Our metagenome samples also resolved specific Flavobacteria OTUs, with
135 Polaribacter spp. and Psychroflexus torquis exhibiting significant correlations with 136 fluorescenceFor ( r = +0.82, Peer p < 0.01 and Reviewr = +0.69, p < 0.01, respectively). Only For all 14 137 samples, GAAS analysis showed Polaribacter spp. to be the dominant constituent of total
138 Bacteroidetes (67.8 – 97.6%). Other OTUs for Bacteroidetes that comprised at least
139 0.02% of metagenome data in at least one of the 14 samples included those with best
140 matches to Ps. torquis, Zunongwangia profunda, Flavobacterium spp ., Gramella forsetii
141 and the insect endosymbiont Ca. “Sulcia muelleri”. This is consistent with the significant
142 phylogenetic diversity for Bacteroidetes observed previously for Southern Ocean
143 Flavobacteria (Abell and Bowman, 2005a).
144 Members of the SAR11 clade (class Alphaproteobacteria ) were highly abundant
145 with OTUs ranging from 36.9 to 50.4% across the 14 samples (Table 1). The OTUs
146 represented Ca. “Pelagibacter ubique” HTCC1062, Ca. “P. ubique” HTCC1002, and Ca .
147 “Pelagibacter” sp. HTCC7211. The relative abundance of SAR11 was weakly inversely
148 correlated with fluorescence ( r = 0.56, p < 0.05), but strongly inversely correlated with
149 the relative abundance of Flavobacteria (r = 0.80, p < 0.01) (Fig. 2). A negative
150 correlation between SAR11 and phytoplankton blooms was previously observed in
151 Antarctic Peninsula and Kerguelen Island waters (Ghiglioni and Murray, 2012).
152 OTUs with the best matches to order Rhodobacterales (class Alphaproteobacteria )
153 comprised 0.4 to 7.7% of relative abundances in the metagenome (Table 1), including
154 OTUs with best matches to Roseobacter denitrificans, Ruegeria sp. TM1040, and the
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155 proteorhodopsin containing Roseobacter clade strain HTCC2255. However, no
156 relationship was found between Rhodobacterales and fluorescence, despite a reported
157 association of certain members of the Roseobacter clade with phytoplankton (Buchan et
158 al. , 2005; Moran et al. , 2007). 159 The SAR116For clade Peer (class Alphaproteobacteria Review) was represented Only by a single OTU 160 with the best match to Ca. “Puniceispirillum marinum” IMCC1322 (Oh et al. , 2010),
161 which made up < 0.2% of the metagenome data (Table 1). Relative abundances of
162 SAR116 and Oceanospirillales +Alteromonadales (class Gammaproteobacteria ) were
163 strongly correlated ( r = +0.86, p < 0.01). This was unrelated to fluorescence, water
164 column depth, or distance from the coastline. The Oceanospirillales +Alteromonadales
165 group was represented in the metagenome by OTUs with best matches to the genera
166 Colwellia, Marinobacter, Marinomonas, Neptuniibacter, Pseudoalteromonas,
167 Psychromonas, Saccharophagus, and Shewanella . When combined, the
168 Oceanospirillales +Alteromonadales group made up 0.08 to 2.2% of the total
169 metagenome data (Table 1). A strong correlation was also observed between the relative
170 abundances of OMG (represented by uncultivated strain NOR5 3) and
171 Alteromonadales +Oceanospirillales (r = +0.89, p < 0.01), and between OMG and
172 SAR116 ( r = +0.92, p < 0.01).
173 The detection of GSO EOSA 1 (order Thiotrichales , class Gammaproteobacteria;
174 Williams et al. , 2010) is indicative of the presence of free living pelagic members of this
175 complex, including the gammaproteobacterial SUP05/Arctic96BD 19 clade (Walsh et al. ,
176 2009; Swan et al. , 2011). The GSO EOSA 1 OTUs had best matches to Ca. “Ruthia
177 magnifica” and Ca. “Vesicomyosocius okutanii”, endosymbionts of deep sea bivalves
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178 (Newton et al. , 2007; Kuwahara et al. , 2011), and comprised up to 7.9% of the
179 metagenome across the 14 samples (Table 1). It is likely these OTUs attracted sequences
180 originating from planktonic GSO EOSA 1 bacteria. Ca. “R. magnifica” and Ca. “V.
181 okutanii” are chemolithoautotrophs (Newton et al. , 2007; Kuwahara et al. , 2011), 182 although a Forrecently isolated Peer member ofReview the SUP05/Arctic96BD 19 Only clade from the North 183 Pacific gyre was inferred to be an aerobic, sulfur oxidizing heterotroph (Marshall and
184 Morris, 2012). Other members of Thiotrichales also found matches in the NB
185 metagenome (e.g., Thiomicrospira crunogena ). Our study found no correlation between
186 relative abundance of GSO EOSA 1 OTUs and water column depth, meaning that their
187 presence in surface waters is unlikely to be due solely to deep mixing.
188 MGI had the closest genomic match to the ammonia oxidizing species Ca.
189 “Nitrosopumilus maritimus” (Table 1). MGI showed the greatest range of contributions
190 across the 14 metagenomic samples, with OTUs with best matches to Ca. “N. maritimus”
191 making up to 10.2% of the total metagenome (Table 1). After logarithmic transformation,
192 the relative abundance of MGI was found to be inversely correlated with both the depth
193 of the water column and the distance from the Antarctic landmass ( r = 0.80, p < 0.01 and
194 r = 0.78, p < 0.01, respectively).
195
196
197 Newcomb Bay metaproteogenomic overview
198
199 The Newcomb Bay metagenome (NB metagenome) and Newcomb Bay metaproteome
200 (NB metaproteome) were defined by matches to Bacteria, Archaea and viruses (see
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201 Experimental procedures) enabling the data to be directly compared. The Newcomb Bay
202 sample (#235; Fig. 1) was chosen because it contained the highest proportion of
203 Flavobacteria (Table 1, Fig. 2 and 3). A total of 548 proteins were identified (Table S1),
204 of which 446 proteins were identified using the AntComb database, 102 using NR, and 5 205 were commonFor to both. Peer A list of all proteins Review detected in the NB Only metaproteome that are 206 discussed in the main text is provided in Table 2. Of the 102 proteins identified using NR,
207 43 matched eukaryotic taxa, with 21 of these matching proteins of the diatom genus
208 Thalassiosira . Overall, protein sequence data was far better represented in fosmids and
209 shotgun metagenomic data than in microbial genomes contained in NR. Nevertheless, it
210 was only through NR that proteins pertaining to methanogenic Euryarchaeota were
211 detected (see Methylotrophy below); this clade was not detected in the metagenome.
212 Counts of unique peptides and assigned spectra are shown in Table S2.
213 A total of 472 proteins had highest sequence identity to bacterial proteins, 12 to
214 archaeal proteins, 61 to eukaryotic proteins, and three to virus (phage) proteins. Within
215 the bacterial subset, the majority had the best match (highest sequence identity) to
216 proteins from members of the Bacteroidetes (221), Gammaproteobacteria (174), and
217 Alphaproteobacteria (69). Protein matches to the Bacteroidetes clade were mainly to
218 Flavobacteria (216). Within the Gammaproteobacteria , most of the proteins had the best
219 match to Oceanospirillales +Alteromonadales (107), OMG (27), Pseudomonadales (17),
220 and GSO EOSA 1 (13). For the Alphaproteobacteria , nearly half (34) of the matches had
221 highest identity to proteins from the Rhodobacterales; other proteins had best matches to
222 members of the oligotrophic SAR11 cluster (including Ca. “Pelagibacter ubique”; 23),
223 Rhizobiales (6), and uncultivated SAR116 cluster (5). Proteins from Alphaproteobacteria
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224 were mostly from ATP binding cassette (ABC) transporters or other active transport
225 systems that involve solute binding (48) (see Uptake of labile solutes below).
226 Bacteroidetes and SAR11 comprised 50.5% and 36.9% of the NB metagenome, and
227 45.4 and 4.7% of the NB metaproteome, respectively (Table 1, Fig. 3). In the NB 228 metaproteome,For all but Peerfive of the 221 ReviewBacteroidetes proteins hadOnly best matches to 229 Flavobacteria , and 183 had best matches to Polaribacter spp. (Table S1), consistent with
230 their dominance in the metaproteome sampled from the decay phase of a North Sea algal
231 bloom (Teeling et al. , 2012). The much higher relative abundance of protein matches to
232 Flavobacteria compared to SAR11 likely reflects their particular trophic strategies.
233 Marine Flavobacteria are copiotrophs that specialize in the exploitation of organic matter
234 that results from algal blooms (Kirchman, 2002; Gómez Pereira et al. , 2012; Teeling et
235 al. , 2012), and therefore exhibit increased protein synthesis levels to maximize capture
236 and processing of available complex substrates. SAR11 are non motile oligotrophs that
237 are reliant on dilute concentrations of labile nutrients (Giovannoni et al ., 2005), and the
238 synthesis of cellular proteins by SAR11 is likely to be relatively unresponsive to
239 increases in nutrient load. Also, whereas diverse Flavobacteria target multiple polymeric
240 substrates that require extracytoplasmic processing prior to import, SAR11 expresses
241 extracytoplasmic proteins that target labile solutes (such as amino acids) which are
242 processed cytoplasmically (see Uptake of labile solutes , below). High expression levels
243 of these extracytoplasmic proteins are needed to enhance the frequency of substrate
244 binding and initial degradation ( Flavobacteria ) or solute capture (SAR11), whereas
245 subsequent conversion of the imported substrates requires a relatively lower level of
246 expression of cytoplasmic enzymes (Sowell et al ., 2009).
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247 Similar to SAR11, some other microbial groups exhibited large differences between
248 their representation in the NB metagenome and NB metaproteome (Fig. 3). For example,
249 Oceanospirillales +Alteromonadales represented 0.6% of the NB metagenome but 22.2%
250 of the NB metaproteome, and Rhodobacterales represented 0.23% and 7%, respectively. 251 Certain microorganismsFor Peer that comprise Review numerically minor components Only of a community 252 have been shown to be major contributors to nutrient cycling (Musat et al. , 2008). The
253 NB metaproteome includes proteins consistent with chemoorganotrophic growth in
254 Antarctic surface waters (see Biopolymer utilization and Uptake of labile solutes , below).
255 For Oceanospirillales +Alteromonadales , the detection of Krebs cycle and
256 gluconeogenesis enzymes (Table S1) could indicate that a higher proportion of carbon is
257 being diverted to storage rather than to growth. By contrast, the central metabolic
258 pathways evident for Flavobacteria indicate both biomass production and carbon storage
259 pathways are active (Table S1).
260 GSO EOSA 1 represented 1.7% of the NB metagenome and 2.7% of the NB
261 metaproteome, but the identities of the detected proteins offered few clues as to the
262 ecophysiology of this group at the surface, aside from expression of housekeeping genes
263 (Table S1). In an environment dominated by algal driven primary production and
264 exposed to around the clock solar illumination, the NB metaproteome shows no evidence
265 for light independent (‘dark’) carbon fixation at the surface by chemolithoautotrophic
266 bacteria or archaea.
267 MGI proteins were not detected in the NB metaproteome despite MGI having a
268 relative NB metagenome abundance of 4.4% (Table 1). In a study of Southern Ocean
269 surface waters near the Antarctic Peninsula, MGI proteins were not detected in the
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270 summer metaproteome, whereas MGI proteins were abundant in winter (Williams et al. ,
271 2012). The presence of MGI in surface waters in the NB metagenome (Table 1) may be
272 due to the upwelling of cells from bottom sediments of the relatively shallow waters of
273 Newcomb Bay. MGI have been detected at the surface of the Arctic Ocean, although no 274 seasonal patternFor was identifiedPeer (Galand Review et al ., 2009), and numbers Only were found to be 275 depressed by riverine input in coastal Arctic waters (Galand et al ., 2008). MGI were not
276 detected in the picoplankton metagenome from the Southern Ocean near the Antarctic
277 Peninsula (Grzymski et al ., 2012), although they were a dominant component in the
278 winter where they made up 12% of the metagenome and 30% of the metaproteome
279 (Grzymski et al ., 2012; Williams et al ., 2012). MGI have been detected in benthic
280 sediments along the Antarctic continental shelf (Bowman and McCuaig, 2003). The
281 current data are consistent with MGI being adventitiously brought to the surface of the
282 Southern Ocean from local sediment or deeper waters (and hence are less likely to reach
283 the surface in water columns of increasing depth), but have minimal metabolic activity at
284 the surface in the austral summer. This may be due to factors that suppress growth and
285 activity of MGI, such as extensive illumination (photoinhibition; Kalanetra et al., 2009;
286 Merbt et al. , 2011).
287 Protein matches to eukaryotic phytoplankton were predominantly from various
288 diatom species (45/61), principally Thalassiosira spp. (34; Table S1). Macroplankton
289 would be expected to be captured by the 20 m prefilter or 3 m filter (see Materials and
290 Methods ). The eukaryotic proteins present on the 0.1 m filters are therefore likely to
291 originate from phytoplankton turnover, or from unicellular microalgae such as
292 Ostreococcus tauri . The presence of diatom proteins is consistent with the association of
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293 Flavobacteria with diatoms (Pinhassi et al. , 2004; Fandino et al. , 2005; Grossart et al. ,
294 2005; Piquet et al. , 2011; Teeling et al. , 2012).
295
296 Ecophysiological processes performed by Flavobacteria and other members of the 297 Newcomb BayFor community Peer Review Only 298
299 Biopolymer utilization: Predicted outer membrane proteins were a major component of
300 the NB metaproteome, especially components of TonB dependent transporter (TBDT)
301 systems, with receptors representing 6.6% of the NB metaproteome and 1.8% of the NB
302 metagenome (the highest abundance of all identified genes in the dataset) (Table 3).
303 TBDTs are outer membrane transporters involved in the uptake of macromolecules that
304 are too large to diffuse via porins. TBDTs that target biopolymers (e.g., polysaccharides,
305 proteins, proteoglycan) act in concert with outer membrane substrate binding proteins
306 and degradative enzymes (e.g., glycosyl hydrolases, peptidases) to facilitate the use of
307 these complex substrates (Reeves et al. , 1997; Gilbert, 2008).The majority of TBDTs in
308 the NB metaproteome had the best matches to Flavobacteria , although some were to the
309 OMG (Tables 3 and S1); similar transporter expression profiles to these have been
310 described for the North Sea for Flavobacteria and OMG (Teeling et al. , 2012). Other
311 marine metaproteomic studies have reported TBDT components to represent 7% (before)
312 and 13% (during) a diatom associated bacterioplankton bloom in North Sea surface
313 waters (Teeling et al. , 2012), and to be very abundant in nutrient enriched coastal marine
314 systems (Morris et al. , 2010; Teeling et al. , 2012). TBDT proteins most closely related to
315 Bacteroidetes and Gammaproteobacteria were the dominant membrane protein class in
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316 coastal seawater of the South Atlantic Ocean (Morris et al. , 2010) and of the Southern
317 Ocean off the Antarctic Peninsula in the austral summer (Williams et al. , 2012).
318 Several secreted glycosyl hydrolases, including beta glucanases, were detected in the
319 NB metaproteome (Tables 3 and S1), which indicates that the Newcomb Bay population 320 of FlavobacteriaFor were Peertargeting storage Review polysaccharides from Only algae as substrates. Also 321 detected were predicted secreted and cytoplasmic aminopeptidases with best matches to
322 Flavobacteria (Tables 3 and S1). These findings are consistent with Polaribacter sp.
323 MED152 encoding large numbers of genes encoding peptidases, glycosyl hydrolases, and
324 TBDTs (González et al. , 2008), and Flavobacteria showing increased glycosyl hydrolase
325 and aminopeptidase activities associated with the utilization of carbohydrates and
326 proteins in seawater microcosm experiments (Pinhassi et al. , 2004). In addition to
327 targeting polysaccharides and proteins, predicted secreted enzymes with lipolytic or
328 phosphohydrolase domains (Table S1) were identified, indicating that a diversity of non
329 labile substrates were being utilized. Gliding motility proteins were detected (Tables 3
330 and S1), which allow exploration of solid surfaces by Flavobacteria (McBride, 2001).
331 Also detected were predicted secreted flavobacterial proteins with domains associated
332 with protein protein interactions (TPR, PKD) or cell adhesion (fasciclin) (Table S1);
333 these hypothetical proteins might play roles in the adhesion of Flavobacteria to algal
334 surfaces or detrital particles (Woyke et al. , 2009; Gómez Pereira et al. , 2012). Overall,
335 the findings indicate that TBDT systems, biopolymer degrading enzymes, and proteins
336 involved in attachment and colonization of cell and detrital surfaces are functionally very
337 important for the growth of Flavobacteria associated with phytoplankton in Newcomb
338 Bay, which is consistent with their inferred lifestyle in other cold and temperate marine
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339 waters (e.g ., Pinhassi et al. , 1999; Cottrell and Kirchman. 2000; Kirchman, 2002; Abell
340 and Bowman, 2005a,b; González et al. , 2008; Morris et al. , 2010; Williams et al. , 2012).
341 Glycolysis enzymes were detected with best matches to Flavobacteria and
342 Gammaproteobacteria (Table S1), suggesting that the degradation of complex 343 carbohydratesFor by the FlavobacteriaPeer increasesReview the availability Only and utilization of less 344 complex carbohydrates by other heterotrophs, as has been reported for bacterioplankton
345 communities in the North Sea (Teeling et al. , 2012). Based on amino acid catabolic
346 enzymes with closest matches to flavobacterial proteins (Table S1), glutamate and
347 aspartate appear to be the preferred amino acids for the Newcomb Bay Flavobacteria , as
348 found for the human oral commensal Bacteroidetes Porphyromonas gingivalis
349 (Takahashi et al. , 2000). Both amino acids can be converted into Krebs cycle
350 intermediates: glutamate is deaminated to 2 oxoglutarate by glutamate dehydrogenase,
351 and decarboxylated and activated to succinyl CoA by 2 oxoglutarate oxidoreductase, and
352 aspartate is transaminated to 2 oxoglutarate and glutamate by aspartate aminotransferase.
353 All three enzymes were detected in the metaproteome. Aspartate can also be deaminated
354 to fumarate, and then oxidized to acetate, or reduced to butyrate via succinyl CoA
355 (Takahashi et al. , 2000). The detection of proteins pertaining to both pathways (malate
356 dehydrogenase, butyryl CoA dehydrogenase) indicates that both oxidative and reductive
357 degradation was occurring, enabling redox balance to be maintained inside the cell.
358 Acetate generated from amino acid degradation by Flavobacteria is one potential source
359 of this substrate for SAR11; a predicted acetate/sodium symporter was detected for
360 SAR11 (Table S1).
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361 Although only one glutamine synthetase protein was detected in the metaproteome,
362 the gene for glutamine synthetase was the second most abundant type of gene identified
363 in the Newcomb Bay metagenome (Table 3). The deamination steps of amino acid
364 catabolism liberate ammonia, which implies, by virtue of their abundance, that the 365 FlavobacteriaFor perform Peer a potentially importantReview function in nitrog Onlyen cycling in the 366 Southern Ocean by generating ammonia from organic nitrogen. Certain marine
367 Flavobacteria have been shown to be unable to utilize ammonia as a nitrogen source
368 (Suzuki et al. , 2001), allowing this byproduct to be scavenged by other marine
369 microorganisms.
370
371 Uptake of labile solutes: ABC transporters were detected in the NB metaproteome for
372 multiple groups of Proteobacteria , including SAR11, Rhodobacterales , SAR116, and
373 various Gammaproteobacteria . Those with best matches to SAR11 had predicted
374 specificities for amino acids (especially branched chain amino acids), taurine,
375 polyamines, and carbohydrates (including glycerol 3 phosphate), although the majority
376 of the latter showed the best matches to Rhodobacterales (Tables 3 and S1). The ability
377 of Rhodobacterales to target common constituents of algal exudates such as taurine,
378 polyamines, and glycolate, and form commensal associations with phytoplankton
379 (Buchan et al. , 2005), is consistent with growth in Newcomb Bay using a broad range of
380 substrates (Brinkhoff et al. , 2008). This is in contrast to Polaribacter , which cannot
381 utilize these algal exudates (Gonzalez et al. , 2008). As a metabolite released by
382 phytoplankton during photorespiration, glycolate could be an important substrate for
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383 marine heterotrophic bacteria, particularly during the long period of solar radiation that
384 occurs at the surface of the Southern Ocean during the austral summer.
385 Other identified solute binding proteins belong to secondary uptake systems with
386 best matches to SAR11: tripartite ATP independent periplasmic (TRAP) transporters and 387 tripartite tricarboxylateFor Peer transporters (TTT)Review (Tables 3 and S1). Only In Gram negative bacteria, 388 the solute binding proteins accumulate in the periplasm and capture solutes that are
389 subsequently imported into the cytoplasm (Forward et al. , 1997; Winnen et al ., 2003).
390 These active uptake systems scavenge low concentrations of nutrients present in the
391 environment, and have been identified as abundant components of marine
392 metaproteomes, particularly for members of the Alphaproteobacteria (Sowell et al. ,
393 2009, 2011; Morris et al ., 2010; Williams et al. , 2012; Teeling et al. , 2012).
394 The NB metaproteome data indicates that at the time of sampling in Newcomb Bay
395 SAR116 targeted similar substrates to SAR11 using ABC and TRAP transporters (amino
396 acids, taurine, dicarboxylates). The NB metaproteome data also indicate that certain
397 members of Oceanospirillales +Alteromonadales use ABC transporters to target different
398 labile substrates to SAR11 and SAR116, with a preference for carbohydrates (including
399 glycerol 3 phosphate) (Tables 3 and S1). In addition, two ABC transporter proteins for
400 amino acids had best matches to Ant4D3 (Tables 3 and S1). Ant4D3 is an uncultured
401 Gammaproteobacteria lineage that was identified from fosmid data (Grzymski et al. ,
402 2006) and has been reported to be abundant in Antarctic Peninsula coastal waters (up to
403 10% of bacterioplankton) and actively incorporate amino acids (Grzymski et al. , 2006;
404 Straza et al. , 2010). Our data indicate that Ant4D3 is distributed, and likely active, in
405 Antarctic waters well beyond the Antarctic Peninsula.
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406
407
408 Responses to light and oxidative stress: The NB metaproteome included two
409 proteorhodopsins (Tables 3 and S1), photoactive cell membrane proteins from bacteria 410 and archaeaFor (Béjà et al.,Peer 2000, 2001; DeLongReview and Béjà, 2010). Only These had highest 411 sequence identities to proteorhodopsins from Polaribacter sp. MED52 and OMG. Both
412 had leucine at position 105 in the proteorhodopsin sequence, indicating spectral tuning to
413 an absorption maxima near 530nm (green light), consistent with responses to illumination
414 at or near the ocean surface (Gómez Consarnau et al. , 2007). The ability of
415 proteorhodopsin to function as a light driven proton pump for the generation of energy
416 for cell growth and maintenance (Gómez Consarnau et al. , 2007; Kimura et al. , 2011)
417 and enhanced utilization of organic matter for biosynthesis (Gonzalez et al. , 2008) should
418 enable the exploitation of light for photoheterotrophic growth during the Antarctic austral
419 summer.
420 High solar irradiance in aerobic surface waters can lead to oxidative stress, and
421 proteins involved in protection against damage caused by reactive oxygen species
422 (superoxide dismutase, peroxidase, thioredoxin, thioredoxin reductase,
423 alkylhydroperoxidase) were abundant, with most having best matches to Flavobacteria
424 (Table S1). The requirement for these enzymes may be exacerbated by the affinity that
425 Flavobacteria have for phytoplankton derived matter, which would be most abundant at
426 the ocean surface, and possibly also by exposure to regions of reduced salinity resulting
427 from the input of glacial and sea ice meltwater.
428
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429 Methylotrophy: Twelve proteins in the NB metaproteome were assigned to the
430 methanogenic archaeon Methanococcoides burtonii . These proteins were only able to be
431 identified because the complete genome of M. burtonii was available in the NR database.
432 In view of the absence of this taxon in the NB metagenome data, and the fact that there 433 were no peptideFor matches Peer in the AntComb Review database (Table S1 Only and S2), our data suggests 434 that this methanogen played only a minor role in the picoplankton community of
435 Newcomb Bay. Nevertheless, the presence of M. burtonii in surface waters of the
436 Southern Ocean is consistent with the identification of a methanogen affiliated with
437 Methanococcoides methylutens (a species that is phylogenetically closely related to M.
438 burtonii ; Thomas and Cavicchioli, 1998) in surface waters of the eastern Pacific Ocean,
439 which was proposed to survive in anoxic micro zones within detritus (Cynar and
440 Yayanos, 1991). M. burtonii is an anaerobic obligate methylotroph that was originally
441 isolated from anoxic sediments in a marine derived Antarctic lake (Franzmann et al. ,
442 1992). M. burtonii proteins detected from the Newcomb Bay sample include those
443 directly involved in the dismutation of the methylated substrates methanol and
444 trimethylamine to methane and CO 2 (Table S1). Methanol and trimethylamine (substrates
445 utilized by M. burtonii and M. methylutens ) have been implicated as important substrates
446 for bacterioplankton (Giovannoni et al., 2008; Chen et al. , 2011; Sowell et al. , 2011). In
447 addition to the methyltransferases assigned to M. burtonii , others (including a putative
448 trimethylamine methyltransferase) had best matches to OMG (Tables 3 and S1),
449 indicating possible methylotrophic behavior by this group of bacteria in Newcomb Bay.
450 The presence of these methyltransferases for methanogens and aerobic bacteria indicates
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451 that sufficient levels of substrate are present, presumably in particles, to permit both
452 anaerobic and aerobic methylotrophic growth.
453
454 455 ConclusionsFor Peer Review Only 456
457 The metagenomic survey of surface waters from 14 Southern Ocean sites confirms the
458 dominance of Flavobacteria , Alphaproteobacteria , and Gammaproteobacteria in these
459 waters, alongside groups that are not characteristic of picoplankton in more temperate
460 parts of the World Ocean, such as MGI and GSO EOSA 1. The abundance of
461 Flavobacteria positively correlated with chlorophyll a fluorescence, confirming a
462 relationship between primary productivity and Flavobacteria in polar waters.
463 Metaproteomic analysis of the Newcomb Bay site determined that Flavobacteria actively
464 deployed systems for the binding and exploitation of polymeric substrates, including
465 carbohydrates, polypeptides, and lipids; the dominant biopolymers within aggregates that
466 are derived from marine detritus (Alldredge, 1979). Algal derived polymers are utilized
467 by these heterotrophs, which in turn release simpler compounds (simple sugars, acetate,
468 ammonia) as byproducts that can be exploited by other microorganisms. The current
469 metaproteomic data corroborates the view that scavenging of nutrients by high affinity
470 uptake systems is a determining factor in microbial competition and survival, even in
471 relatively nutrient replete coastal ecosystems (Sowell et al. , 2011; Teeling et al. , 2012).
472 Having established the functional properties of these planktonic communities, we are
473 now in a position to analyze larger size fractions and examine the taxonomic and
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474 functional distinctions of particle associated and larger cell size communities associated
475 with algal blooms.
476
477 478 ExperimentalFor procedures Peer Review Only 479
480 Sample collection and GAAS analysis
481
482 Seawater samples from 14 sites in the Southern Ocean (Table 1, Fig. 1), representing
483 three East Antarctica sampling seasons, and including coastal samples, were collected
484 from surface waters (depths of 1 2 m). The microbial biomass from 200 L (samples from
485 January 2007) or 500 L (samples from December 2007, January 2008, October 2008 and
486 December 2008) of seawater was collected by sequential size fractionation through a 20
487 m prefilter on to filters (3.0, 0.8 and 0.1 m pore sized, 293 mm polyethersulfone
488 membrane filters), and filters placed into tubes containing storage buffer and
489 cryogenically preserved as described previously (Rusch et al., 2007; Ng et al. , 2010). In
490 this study, we present data for microorganisms that passed through the 0.8 µm filter and
491 were captured on the 0.1 µm filter. The sampling site characteristics for the Newcomb
492 Bay, sample (#235; Table 1, Fig. 1) were: 400 m from shore, water column depth 60 m
493 deep, mid day, clear skies, water temperature 0.65°C, air temperature 0.8°C, salinity
494 33.9%, fluorescence 8.6 g L 1, air pressure 737.7 mmHg.
495 To determine the OTU composition and relative abundances within each seawater
496 sample of archaea, bacteria and viruses (excluding eukaryotes), a database of genomes
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497 was prepared from the RefSeq microbial (bacteria and archaea) and viral databases
498 (release 41, retrieved May 31 2010 from ftp://ftp.ncbi.nih.gov/refseq/release/). Sequences
499 with the words “shotgun”, “contig”, “partial”, “end” or “part” in their headers were
500 excluded (after Angly et al ., 2009). The metagenomic reads were compared to this 501 database usingFor BLASTN Peer with default Reviewparameters (E value threshold Only 0.001). To minimize 502 spurious OTU identifications and increase the accuracy of relative abundance estimates, a
503 core set of most probable OTUs was identified with minspec which was developed based
504 on the approach used in minpath to reconstruct biochemical pathways (Ye and Doak,
505 2009; Wilkins et al. , unpublished results), and hits to OTUs not in the set were excluded
506 from the BLAST outputs. To determine relative abundances of OTUs, the perl script
507 GAAS (Angly et al. , 2009) was run on the BLAST output from each sample. To take into
508 account reads which did not yield high quality hits to any sequence in the reference
509 database, GAAS relative abundance estimates were scaled by the effective BLAST hit
510 rate for each sample. Because the RefSeq database did not include genomes for several
511 organisms that are likely to be abundant in Antarctic waters (Williams et al. , 2012), the
512 following genomic scaffolds were retrieved from Genbank and an additional database
513 constructed (Genbank accessions given in brackets): Neptuniibacter caesariensis MED92
514 (CH724125.1); Polaribacter irgensii 23 P (NZ_CH724148.1); Polaribacter sp. MED152
515 (AANA01000001.1 and AANA01000002.1); Psychroflexus torquis ATCC 700755
516 (CH959305.1); Ca. “Pelagibacter ubique” HTCC1002 (NZ_CH724130.1); Ca.
517 “Pelagibacter” sp. HTCC7211 (DS995298.1); alpha proteobacterium HTCC2255
518 (DS022282.1). BLAST comparisons and relative abundance estimations were performed
519 as above. While GAAS was designed for use only with complete reference genomes
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520 (Angly et al., 2009), the near completeness of the genomic scaffolds selected enhances
521 the reliability of the analysis using the additional genomic data. Only OTUs that had a
522 relative abundance of 0.02% or more in at least one of the samples were included. These
523 values correspond to relative abundances of cells within the samples. Data presented in 524 Table 1 wereFor subjected Peer to statistical analysisReview (Pearson Product Only Moment Correlation, 525 ANOVA regression analysis for statistical significance). The relative abundances of
526 individual groups (including logarithmically transformed data) were compared to one
527 another, as well as to known environmental parameters (collection date, latitude,
528 longitude, chlorophyll a fluorescence, distance from Antarctic landmass, and water
529 column depth).
530 For the Newcomb Bay site (#235; 0.1 m fraction; Table 1, Fig. 1), the SEED
531 database of translated genes was obtained from
532 ftp://ftp.theseed.org/subsystems/subsystems.complex on May 9 2012 and a BLAST
533 database constructed. Reads from the NB metagenome were compared to the SEED
534 database using blastx, with default parameters except for an E value threshold of 0.001.
535 The method of Coleman and Chisholm (2010) was adapted to count the number of hits to
536 genes in the database. For each read, if the top three hits (or all hits if fewer than three)
537 belonged to the same gene family with bit scores > 40, the read was annotated with that
538 gene. If there was a large (> 30) difference in bit score between hits, the lower scoring
539 hits were discarded. All identified genes with a relative abundance of at least 0.2% were
540 reported (Table 3; a complete list is in Table S3).
541
542 Metaproteomics
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543
544 Metaproteomic analysis of biomass extracted from the Newcomb Bay 0.1 m filter was
545 performed as described previously (Ng et al., 2010; Williams et al. , 2012). In brief, 20
546 mL lysis buffer contained 10 mM Tris EDTA (pH 8.0; Univar, Sydney, Australia), 20 L 547 of proteaseFor inhibitor cocktailPeer VI (Calbiochem, Review San Diego, CA), Only 0.1% sodium dodecyl 548 sulfate (Univar) and 1 mM dithiothreitol (Sigma Aldrich, Sydney, Australia). The only
549 methodological variation was the use of five rounds of sonication at 40 s intervals, 0.5
550 pulse on/0.5 pulse off, 20% amplitude, and a 3 kDa rather than 5 kDa Amicon filter unit.
551 Proteins were identified using two databases which contained sequences from archaea,
552 bacteria, viruses and eukaryotes: NR and AntComb (a customized Antarctic
553 metaproteome sequence database constructed from fosmid libraries and Southern Ocean
554 metagenome data) (Williams et al. , 2012). AntComb was constructed from: fosmid
555 libraries (IMG Acc: 2008193000, 2008193001, 2012990003, 2040502005 and
556 2040502004), individual marine microbial genomes (RefSeq Project ID: 202, 58903,
557 54247, 58401, 59427, 57855, 54575, 54169, 51877, 54583, 54265, 54403, 54255, 54577,
558 54163, 54227, 54185, 58403, 54207, 54205, 54623, 54467, 58597, 54183, 57863, 52598,
559 54259, 58183, 13044 and 51609) and Antarctic (Southern Ocean off East Antarctica)
560 metagenome samples (SRA Acc: SRX024734, SRX024735, SRX024799, SRX025108,
561 SRX024736 and SRX024800). MS/MS data analysis and validation of protein
562 identifications were performed as previously described (Ng et al ., 2010) except that the
563 databases used were NR and AntComb (Williams et al. , 2012). Mascot searches with a
564 false discovery rate 45% were rejected. All other Mascot results were combined and
565 validated using a MudPit analysis in Scaffold 3.0 (Proteome Software Inc., Portland, OR,
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566 USA) using the following parameters: minimal probability of peptide identification, 95%;
567 minimal probability of protein identification, 99%. Protein matches were only accepted if
568 they were identified by a minimum of two unique peptides. All proteins were manually
569 annotated using BLASTP, and the protein that showed the highest sequence identity was 570 recorded, includingFor the Peer organism name Review (Table S1). The NB metaproteomeOnly was defined 571 by all proteins that were detected with matches to bacteria, archaea and viruses
572 (excluding eukaryotes).
573
574 Acknowledgments
575
576 This work was supported by the Australian Research Council and the Australian
577 Antarctic Division. Mass spectrometric results were obtained at the Bioanalytical Mass
578 Spectrometry Facility within the Analytical Centre of the University of New South
579 Wales. This work was undertaken using infrastructure provided by NSW Government co
580 investment in the National Collaborative Research Infrastructure Scheme. Subsidized
581 access to this facility is gratefully acknowledged. The authors acknowledge assistance
582 during sample collection by Torsten Thomas and Jeffrey Hoffman, support from the J.
583 Craig Venter Institute and the Gordon and Betty Moore Foundation, insightful
584 discussions with Simon Wright, and assistance from David Smith and Henk Brolsma for
585 generating the bathymetry image of the sampling site.
586
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833 Ye, Y., and Doak, T.G. (2009). A parsimony approach to biological pathway
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835 e1000465.
836 837 SupportingFor information Peer Review Only 838
839 Additional Supporting Information may be found in the online version of this article:
840
841 Table S1. Complete list of bacterial and archaeal proteins identified in the NB
842 metaproteome.
843
844 Table S2. Counts for unique peptides and assigned spectra for proteins identified using
845 the NR database, and a customized Antarctic database “AntComb”, which was
846 constructed from fosmid libraries and Southern Ocean metagenome data.
847
848 Table S3. All genes identified in the NB metagenome (excel file).
849
850
851 Figure legends
852
853 Fig. 1. Southern Ocean sampling sites. A) The location of the 14 East Antarctica,
854 Southern Ocean samples used for metagenomic analysis. Inset: expanded view showing
855 the location of sample #235 in Newcomb Bay. B) Location of sampling site #235 in
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856 Newcomb Bay, showing bathymetry. Map produced by the Australian Antarctic Data
857 Centre. C) Photograph of Newcomb Bay January 3, 2007 with the RV Aurora Australis
858 anchored in the approximate location where the water for #235 was sampled.
859 860 Fig. 2. RelativeFor abundance Peer of Flavobacteria Review and SAR11 with Only chlorophyll a 861 concentration. Flavobacteria (diamonds); SAR11 (circles).
862
863 Fig. 3. Taxonomy of bacteria and archaea from NB metagenome and NB metaproteome.
864 A) Phylogenetic assignment of OTU matches to the NB metagenome based on GAAS
865 analysis. Not shown: SAR116 (0.03%), other Alphaproteobacteria (0.1%), OMG
866 (0.02%). B) Phylogenetic assignment of NB metaproteome based on best matches of
867 identified proteins to different groups. C) Phylogenetic assignment of NB metaproteome
868 based on assigned spectra to AntComb, a customized Antarctic metaproteome sequence
869 database constructed from fosmid libraries and Southern Ocean metagenome data.
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Table 1. Relative abundance of different phylogenetic groups in 14 East Antarctica, Southern Ocean metagenomes as determined by GAAS
analysis. Data known for each of the sites at the time of collection is provided. NR indicates data not recorded. MGI, Marine Group I Crenarchaeota . Oceano +ForAltero , Oceanospirillales Peer+Alteromonadales Review. OMG, Oligotrophic Marine Only Gammaproteobacteria .
Relative abundance (%) Altero Sample date Collection Location ( g/L) escence Fluor (km) Distance depth(m) Water bacteria Flavo- SAR11 bacterales Rhodo- EOSA 1 GSO OMG Oceano+ SAR116 MGI
235 66 16.1 S, (Newcomb Jan 01, 2007 8.6 0.4 60 50.393 36.857 0.233 1.662 0.020 0.602 0.031 4.384 110 32.0 E Bay) 63 52.72 S, 236 Jan 07, 2007 12.1 214 2500 37.981 57.089 0.5 1.001 0.014 0.341 0.027 0.003 112 4.2 E 66 33.26 S, 351 Dec 28, 2007 1.3 31.4 823 6.306 80.422 0.606 3.793 0.022 0.536 0.056 0.58 143 19.62 E 66 45.451 S, 352 Dec 29, 2007 3.1 9.4 164 6.164 82.072 0.853 3.941 0.027 0.625 0.051 0.895 143 17.222 E 67 2.564 S, 353 Dec 30, 2007 0.3 4.7 180 3.166 73.392 0.668 4.882 0.039 0.661 0.085 10.185 144 40.065 E 66 44.85 S, 355 Jan 03, 2008 7.4 25.3 920 11.911 78.097 0.481 5.272 0.014 0.482 0.041 0.081 144 19.53 E 66 10.157 S, 357 Jan 05, 2008 2.5 78.4 580 17.444 67.164 3.786 3.788 0.058 2.169 0.128 0.064 142 55.56 E 64 18.002 S, 358 Jan 09, 2008 0.45 395 3550 7.215 82 4.76 1.367 0.036 0.675 0.104 0.004 150 0.167 E 66 10.708 S, 359 Jan 12, 2008 2.5 71.2 540 18.319 65.999 3.698 3.877 0.085 2.067 0.148 0.157 143 29.25 E 66 33.95 S, 360 Jan 13, 2008 6.2 16.6 316 17.081 68.497 1.072 5.67 0.028 0.969 0.086 0.437 140 51.933 E 65 32.101 S, 362 Jan 19, 2008 0.5 129 1064 4.657 91.228 1.417 0.279 0.0045 0.077 0.028 0.005 140 42.702 E 63 48.54 S, 388 Oct 20, 2008 1.5 241 3.992 79.972 0.417 5.133 0.027 0.279 0.071 3.679 115 9.7 E NR 64 48.1 S, 389 Oct 22, 2008 0.14 111 2.358 57.71 7.736 2.788 0.032 0.587 0.07 6.14 112 22.4 E NR 68 23.393 S, 391 Dec 12, 2008 5 57.8 378 11.971 65.956 0.849 7.936 0.062 1.185 0.095 2.065 76 39.91 E
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Table 2. Proteins detected in the Newcomb Bay metaproteome that are discussed in the main text. Proteins are arranged according to phylogenetic grouping, with the number of detected orthologs given for each. The full list of proteins is provided in Table S1.
For Peer ReviewPhylogenetic Only group
/ /
Protein SAR11 SAR11 Oceanospirillales OMG SAR116 Ant4D3 Methanogenic Bacteroidetes Alteromonadales Rhodobacterales Euryarchaeota
TonB dependent receptor (e.g., SusC, RagA) 30 1 2
Outer membrane binding protein (e.g., SusD, RagB) 8
Biopolymer transport, protein channel 3 1
Glycosyl hydrolase 6
Aminopeptidase 3 1
Gliding motility protein 3
ABC transport system, general amino acid binding protein 2 1 1
ABC transport system, glycine betaine binding protein 2 1
ABC transport system, branched chain amino acids binding protein 2 5
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ABC transport system, glutamate/glutamine/aspartate/asparagine binding 1 protein
ABC transport system, taurine/sulfonate binding protein 2 1 1
ABC transport system, spermidine/putrescine bindingFor proteinPeer Review 2 3 Only
ABC transport system, sugar binding protein 1 6 2
ABC transport system, glycerol 3 phosphate binding protein 4 1
TRAP transporter, DctP binding subunit / TRAP associated 4 4 2 extracytoplasmic immunity (TAXI) protein
TTT transporter, TctC binding subunit 1
Proteorhodopsin 1 1
Trimethylamine methyltransferase 1 1
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Table 3. Gene count for genes from the Newcomb Bay metagenome. Only genes that had a relative abundance of 0.2% or more are shown. The full list of genes is provided in Table S3. For Peer Review Only Gene Count % Function TonB dependent receptor 1050 1.77 Macromolecular transport, including biopolymers Glutamate synthase [NADPH] large chain (EC 1.4.1.13) 290 0.49 Ammonia assimilation / amino acid metabolism Permease of the drug/metabolite transporter (DMT) superfamily 280 0.47 Macromolecular transport, including biopolymers 3 oxoacyl [acyl carrier protein] reductase (EC 1.1.1.100) 261 0.44 Fatty acid metabolism DNA directed RNA polymerase beta subunit (EC 2.7.7.6) 245 0.41 Transcription DNA polymerase III alpha subunit (EC 2.7.7.7) 241 0.41 Transcription DNA directed RNA polymerase beta' subunit (EC 2.7.7.6) 237 0.4 Transcription DNA polymerase I (EC 2.7.7.7) 213 0.36 Transcription Aspartate aminotransferase (EC 2.6.1.1) 208 0.35 Amino acid metabolism Sarcosine oxidase alpha subunit (EC 1.5.3.1) 202 0.34 Amino acid metabolism / C1 metabolism Isoleucyl tRNA synthetase (EC 6.1.1.5) 193 0.33 Translation (tRNA biosynthesis) Aldehyde dehydrogenase (EC 1.2.1.3) 183 0.31 General carbon metabolism Long chain fatty acid CoA ligase (EC 6.2.1.3) 182 0.31 Fatty acid metabolism Enoyl CoA hydratase (EC 4.2.1.17) 171 0.29 Fatty acid metabolism or 3 hydroxypropionate/4 hydroxybutyrate cycle Protein export cytoplasm protein SecA ATPase RNA helicase (TC 3.A.5.1.1) 170 0.29 Protein secretion Leucyl tRNA synthetase (EC 6.1.1.4) 169 0.29 Translation (tRNA biosynthesis) Alanyl tRNA synthetase (EC 6.1.1.7) 168 0.28 Translation (tRNA biosynthesis) D 3 phosphoglycerate dehydrogenase (EC 1.1.1.95) 167 0.28 Amino acid metabolism / C1 metabolism Acriflavin resistance protein 166 0.28 Transport (efflux pump) Translation initiation factor 2 165 0.28 Translation Ribonucleotide reductase of class Ia (aerobic); alpha subunit (EC 1.17.4.1) 165 0.28 DNA synthesis and repair DNA topoisomerase I (EC 5.99.1.2) 160 0.27 DNA replication Sulfate permease 159 0.27 Transport (sulfte import or efflux) Dihydroorotase (EC 3.5.2.3) 159 0.27 Pyrimidine biosynthesis
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DNA gyrase subunit A (EC 5.99.1.3) 156 0.26 DNA replication Methylmalonyl CoA mutase (EC 5.4.99.2) 155 0.26 General carbon metabolism or 3 hydroxypropionate/4 hydroxybutyrate cycle Flagellar hook length control protein FliK 153 0.26 Flagella biosynthesis Carbamoyl phosphate synthase large chain (EC 6.3.5.5) 151 0.25 Pyrimidine biosynthesis / Amino acid metabolism 2 oxoglutarate dehydrogenase E1 componentFor (EC 1.2.4.2) Peer 150 Review 0.25 Krebs cycle Only GMP synthase [glutamine hydrolyzing] (EC 6.3.5.2) 147 0.25 Nucleotide metabolism Excinuclease ABC subunit A 145 0.24 DNA repair Cold shock DEAD box protein A 145 0.24 Cold stress (RNA chaperones) Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) 143 0.24 Degradosome (RNA degradation) Thioredoxin reductase (EC 1.8.1.9) 142 0.24 Oxidative stress ATP synthase beta chain (EC 3.6.3.14) 139 0.23 Energy metabolism Acetyl coenzyme A synthetase (EC 6.2.1.1) 139 0.23 General carbon metabolism Cell division protein FtsH (EC 3.4.24. ) 139 0.23 Cell replication O succinylhomoserine sulfhydrylase (EC 2.5.1.48) 138 0.23 Sulfur metabolism / amino acid metabolism DNA gyrase subunit B (EC 5.99.1.3) 136 0.23 DNA replication Aspartyl tRNA(Asn) synthetase (EC 6.1.1.23) 136 0.23 Translation (tRNA biosynthesis) Homoserine dehydrogenase (EC 1.1.1.3) 133 0.22 Amino acid metabolism Transcription repair coupling factor 133 0.22 DNA repair Acetyl CoA acetyltransferase (EC 2.3.1.9) 131 0.22 Fatty acid metabolism Valyl tRNA synthetase (EC 6.1.1.9) 130 0.22 Translation (tRNA biosynthesis) Chaperone protein DnaK 129 0.22 Protein chaperone and repair RNA polymerase sigma factor RpoD 129 0.22 Transcription Phenylalanyl tRNA synthetase beta chain (EC 6.1.1.20) 127 0.21 Translation (tRNA biosynthesis) Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) 127 0.21 Krebs cycle Lipid A export ATP binding/permease protein MsbA 125 0.21 Transport (lipid export) Glucosamine fructose 6 phosphate aminotransferase [isomerizing] (EC 2.6.1.16) 125 0.21 Amino acid metabolism / carbohydrate metabolism Pyrophosphate energized proton pump (EC 3.6.1.1) 124 0.21 Energy metabolism Translation elongation factor G 123 0.21 Translation ATP dependent protease La (EC 3.4.21.53) Type I 123 0.21 Proteolysis Peptidyl prolyl cis trans isomerase (EC 5.2.1.8) 121 0.2 Protein chaperone and repair
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Cell division protein FtsK 121 0.2 Cell replication Glycine dehydrogenase [decarboxylating] (glycine cleavage system P protein) (EC 120 0.20 Amino acid metabolism / C 1metabolism 1.4.4.2) UDP glucose dehydrogenase (EC 1.1.1.22) 118 0.20 Carbohydrate metabolism Butyryl CoA dehydrogenase (EC 1.3.99.2) 118 0.20 Fatty acid metabolism Excinuclease ABC subunit B For Peer116 Review 0.20 DNA repair Only Thiamin regulated outer membrane receptor Omr1 116 0.20 Transport (thiamine import)
The following figures are presented in the order Fig. 1-3.
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B
C
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B
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Table S1. Complete list of bacterial and archaeal proteins identified in the Newcomb Bay metaproteome. The number of unique peptides and assigned spectra are shown for each protein, using both the NR database and AntComb. At least two unique peptides were required to validate a protein assignment. For Peer Review Only Phylogenetic Annotation & function Best match of protein grouping of best Unique peptides Assigned spectra match NR AntComb NR AntComb
BACTERIA & ARCHAEA
TRANSPORT
Transport – Cell Membrane
ABC transport system, general amino acids
96% identity to General amino acid ABC transport system, SAR11, ABC transport system, general amino acids, periplasmic binding protein [YhdW][Candidatus Pelagibacter Alphaproteobacteria 0 16 0 34 periplasmic binding protein ubique HTCC1002]
81% identity to General amino acid ABC transport system, SAR11, ABC transport system, general amino acids, periplasmic binding protein [YhdW] [Candidatus Pelagibacter Alphaproteobacteria 0 2 0 3 periplasmic binding protein ubique HTCC1062]
64% identity to General amino acid ABC transport system, SAR116, ABC transport system, general amino acids, periplasmic binding protein [YhdW] [Candidatus Puniceispirillum Alphaproteobacteria 0 2 0 2 periplasmic binding protein marinum strain IMCC1322]
61% identity to General amino acid ABC transport system, Rhizobiales, ABC transport system, general amino acids, periplasmic binding protein [YhdW] [Hoeflea phototrophica DFL- Alphaproteobacteria 0 10 0 41 periplasmic binding protein 43]
100% identity to General amino acid ABC transport system, Gammaproteobacteria ABC transport system, general amino acids, periplasmic binding protein [GlnQ] [uncultured marine bacterium (unclassified) 0 3 0 7 periplasmic binding protein Ant4D3]
ABC transport system, glycine betaine
64% identity to Glycine betaine ABC transport system, ABC transport system, glycine betaine, periplasmic binding protein [OpuAC ] [Candidatus Pelagibacter SAR11, 0 3 0 9 periplasmic binding protein ubique HTCC1062] Alphaproteobacteria
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95% identity to Glycine betaine ABC transport system, ABC transport system, glycine betaine, periplasmic binding protein [OpuAC ] [Candidatus Pelagibacter SAR11, 0 2 0 2 periplasmic binding protein ubique HTCC1062] Alphaproteobacteria
66% identity to Glycine betaine ABC transport system, ABC transport system, glycine betaine, periplasmic binding protein [OpuAC ] [Rhodobacterales bacterium Rhodobacterales, 0 4 0 17 periplasmic binding protein ForHTCC2255] Peer ReviewAlphaproteobacteria Only
ABC transport system, branched chain amino acids 70% identity to Leu/Ile/Val ABC transport system, periplasmic Rhodobacterales, ABC transport system, branched-chain amino 0 10 0 93 binding protein [LivK] [Pseudovibrio sp. JE062] Alphaproteobacteria acids, periplasmic binding protein 100% identity to Leu/Ile/Val ABC transport system, periplasmic SAR11, ABC transport system, branched-chain amino binding protein [LivK] [Candidatus Pelagibacter ubique Alphaproteobacteria 5 0 16 0 acids, periplasmic binding protein HTCC1002]
48% identity to Leu/Ile/Val ABC transport system, periplasmic Rhodobacterales, ABC transport system, branched-chain amino 0 2 0 12 binding protein [LivJ] [Roseobacter sp. AzwK-3b] Alphaproteobacteria acids, periplasmic binding protein 82% identity to Leu/Ile/Val ABC transport system, periplasmic SAR11, ABC transport system, branched-chain amino binding protein [LivJ] [Candidatus Pelagibacter ubique Alphaproteobacteria 0 4 0 12 acids, periplasmic binding protein HTCC1062]
62% identity to Leu/Ile/Val ABC transport system, periplasmic Rhodobacterales, ABC transport system, branched-chain amino 0 2 0 9 binding protein [LivJ] [uncultured Roseobacter sp] Alphaproteobacteria acids, periplasmic binding protein 64% identity to identity to Leu/Ile/Val ABC transport system, Rhodobacterales, ABC transport system, branched-chain amino ATP-binding protein [LivG] [Rhodobacterales bacterium Alphaproteobacteria 0 2 0 6 acids, ATP-binding protein HTCC2255]
64% identity to Leu/Ile/Val ABC transport system, periplasmic Rhodobacterales, ABC transport system, branched-chain amino 0 10 0 119 binding protein [LivJ] [Rhodobacterales bacterium HTCC2150] Alphaproteobacteria acids, periplasmic binding protein
ABC transport system, glutamate/glutamine/aspartate/asparagine 90% identity to Glutamate/glutamine/aspartate/asparagine ABC ABC transport system, transport system, periplasmic binding protein [BztA] [uncultured Gammaproteobacteria 12 0 119 0 glutamate/glutamine/aspartate/asparagine, marine bacterium Ant4D3] (unclassified) periplasmic binding protein
ABC transport system, histidine
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51% identity to Histidine ABC transport system, periplasmic ABC transport sytem, histidine, periplasmic 0 4 0 22 binding protein [HisJ] [ Desulfobacterium autotrophicum HRM2] Deltaproteobacteria binding protein
ABC transport system, thiamine
77% identity to Thiamine ABC transport system, periplasmic Alteromonadales, ABC transport sytem, thiamine, periplasmic 0 2 0 7 Forbinding Peer protein [ThiB] [ Marinobacter Review aquaeolei VT8] Gammaproteobacteria Only binding protein
ABC transport system, taurine
92% identity to Taurine ABC transport system, periplasmic ABC transport system, taurine, periplasmic binding protein [TauA] [ Candidatus Pelagibacter ubique SAR11, 0 6 0 23 binding protein HTCC1002] Alphaproteobacteria
62% identity to Taurine ABC transport system, periplasmic ABC transport system, taurine, periplasmic binding protein [TauA] [Candidatus Puniceispirillum marinum SAR116, 0 4 0 14 binding protein IMCC1322] Alphaproteobacteria
62% identity to Taurine ABC transport system, periplasmic ABC transport system, taurine, periplasmic binding protein [TauA] [Candidatus Pelagibacter ubique SAR11, 0 2 0 10 binding protein HTCC1062] Alphaproteobacteria
70% identity to Taurine ABC transport system, periplasmic Rhodobacterales, ABC transport system, taurine, periplasmic 0 3 0 7 binding protein [TauA] [Silicibacter pomeroyi ] Alphaproteobacteria binding protein
ABC transport system, spermidine/putrescine
90% identity to Spermidine/putrescine ABC transport system, ABC transport system, spermidine/putrescine, periplasmic binding protein [PotD] [Candidatus Pelagibacter SAR11, 0 6 0 30 periplasmic binding protein ubique HTCC1062] Alphaproteobacteria
87% identity to Spermidine/putrescine ABC transport system, Rhodobacterales, ABC transport system, spermidine/putrescine, 0 5 0 13 ATP-binding protein [PotA] [ Roseobacter sp. AzwK-3b] Alphaproteobacteria ATP-binding protein 68% identity to Spermidine/putrescine ABC transport system, ABC transport system, spermidine/putrescine, periplasmic binding protein [PotD] [Candidatus Pelagibacter SAR11, 0 2 0 5 periplasmic binding protein ubique HTCC1062] Alphaproteobacteria
49% identity to Spermidine/putrescine ABC transport system, ABC transport system, spermidine/putrescine, ATP-binding protein [PotA] [Rhodobacterales bacterium Rhodobacterales, 0 2 0 3 ATP-binding protein HTCC2150] Alphaproteobacteria
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75% identity to Spermidine/putrescine ABC transport system, Rhodobacterales, ABC transport system, spermidine/putrescine, 0 5 0 35 periplasmic binding protein [PotD] [Roseobacter sp. SK209-2-6] Alphaproteobacteria periplasmic binding protein
ABC transport system, sugar
64% identity to Probable sugar ABC transport system, periplasmic Oceanospirillales, ABC transport system, sugar, periplasmic 0 10 0 89 Forbinding Peer protein [Marinomonas sp. strainReview MWYL1] Gammaproteobacteria Only binding protein 69% identity to Probable trhalose/maltose ABC transport system, ABC transport system, sugar, periplasmic periplasmic binding protein [Rhodobacterales bacterium Rhodobacterales, 0 5 0 20 binding protein HTCC2255] Alphaproteobacteria
71% identity to Probable sugar ABC transport system, periplasmic Oceanospirillales, ABC transport system, sugar, periplasmic 0 6 0 19 binding protein [Hahella chejuensis KCTC 2396] Gammaproteobacteria binding protein 87% identity to Probable sugar ABC transport system, periplasmic SAR11, ABC transport system, sugar, periplasmic 0 4 0 7 binding protein [Candidatus Pelagibacter sp. HTCC7211] Alphaproteobacteria binding protein 74% identity to Probable sugar ABC transport system, periplasmic Rhodobacterales, ABC transport system, sugar, periplasmic 0 3 0 12 binding protein [Rhodobacterales bacterium HTCC2255] Alphaproteobacteria binding protein 81% identity to Probable sugar ABC transport system, periplasmic Rhodobacterales, ABC transport system, sugar, periplasmic 0 3 0 9 binding protein [alpha proteobacterium HTCC2255] Alphaproteobacteria binding protein 59% identity to Probable sugar ABC transport system, periplasmic ABC transport system, sugar, periplasmic binding protein [uncultured marine microorganism Bacteria? 0 3 0 9 binding protein HF4000_APKG2K17] (unclassified)
48% identity to Probable sugar ABC transport system, periplasmic Rhodobacterales, ABC transport system, sugar, periplasmic 0 2 0 7 binding protein [Roseobacter sp. SK209-2-6] Alphaproteobacteria binding protein 71% identity to Sugar ABC transport system, periplasmic binding Rhodobacterales, ABC transport system, sugar, periplasmic 0 2 0 3 protein [MalK] [Rhodobacterales bacterium HTCC2150] Alphaproteobacteria binding protein
ABC transport system, ribose
45% identity to Ribose ABC transport system, periplasmic binding Rhizobiales, ABC transport system, ribose, periplasmic 0 5 0 26 protein [Rhizobium sp. strain NGR234] Alphaproteobacteria binding protein 68% identity to Ribose ABC transport system, periplasmic binding Rhodobacterales, ABC transport system, ribose, periplasmic 0 6 0 15 protein [Pseudovibrio sp. JE062] Alphaproteobacteria binding protein
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ABC transport system, oligopeptide
66% identity to Oligopeptide ABC transport system, periplasmic Rhodobacterales, ABC transport system, oligopeptide, 0 2 0 5 binding protein [OppA] [Roseobacter sp. GAI101] Alphaproteobacteria periplasmic binding protein
ABC transport system, glycerol-3-phosphate For Peer Review Only 69% identity to Glycerol-3-phosphate ABC transport system, Rhodobacterales, ABC transport system, glycerol-3-phosphate, 0 3 0 10 periplasmic binding protein [UgpB] [Ruegeria pomeroyi DSS-3] Alphaproteobacteria periplasmic binding protein 66% identity to Glycerol-3-phosphate ABC transport system, ABC transport system, glycerol-3-phosphate, periplasmic binding protein [UgpB] [Rhodobacterales bacterium Rhodobacterales, 0 5 0 27 periplasmic binding protein HTCC2083] Alphaproteobacteria
68% identity to Glycerol-3-phosphate ABC transport system, Rhodobacterales, ABC transport system, glycerol-3-phosphate, 0 7 0 25 periplasmic binding protein [UgpB] [Roseobacter sp. AzwK-3b] Alphaproteobacteria periplasmic binding protein 81% identity to Glycerol-3-phosphate ABC transport system, Rhodobacterales, ABC transport system, glycerol-3-phosphate, 0 4 0 8 periplasmic binding protein [UgpB] [Thalassiobium sp. R2A62] Alphaproteobacteria periplasmic binding protein 65% identity to Glycerol-3-phosphate ABC transport system, Oceanospirillales, 0 2 0 6 ABC transport system, glycerol-3-phosphate, periplasmic binding protein [UgpB] [Marinomonas sp. MWYL1] Gammaproteobacteria periplasmic binding protein
ABC transport system, unknown solute
66% identity to ABC transport system, periplasmic binding protein Rhodobacterales, ABC transport system, periplasmic binding 0 5 0 10 [Pseudovibrio sp. JE062] Alphaproteobacteria protein
TRAP transporter
97% identity to TRAP dicarboxylate transporter, periplasmic TRAP dicarboxylate transporter, periplasmic binding subunit DctP [Candidatus Pelagibacter ubique SAR11, 0 9 0 58 binding protein DctP HTCC1002] Alphaproteobacteria
76% identity to TRAP dicarboxylate transporter, periplasmic Oceanospirillales, TRAP dicarboxylate transporter, periplasmic 0 9 0 26 binding subunit DctP [Reinekea sp. MED297] Gammaproteobacteria binding protein DctP 83% identity to TRAP dicarboxylate transporter, periplasmic TRAP dicarboxylate transporter, periplasmic binding subunit DctP [Candidatus Puniceispirillum marinum SAR116, 0 4 0 29 binding protein DctP IMCC1322] Alphaproteobacteria
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86% identity to TRAP dicarboxylate transporter, periplasmic TRAP dicarboxylate transporter, periplasmic binding subunit DctP [Candidatus Pelagibacter ubique SAR11, 0 3 0 7 binding protein DctP HTCC1062] Alphaproteobacteria
69% identity to TRAP dicarboxylate transporter, periplasmic TRAP dicarboxylate transporter, periplasmic binding subunit DctP [Candidatus Puniceispirillum marinum SAR116, 0 3 0 6 binding protein DctP ForIMCC1322] Peer ReviewAlphaproteobacteria Only 84% identity to TRAP dicarboxylate transporter, periplasmic Rhodobacterales, 0 3 0 7 TRAP dicarboxylate transporter, periplasmic binding subunit DctP [Rhodobacterales bacterium HTCC2255] Alphaproteobacteria binding protein DctP 82% identity to TRAP dicarboxylate transporter, periplasmic Rhodobacterales, TRAP dicarboxylate transporter, periplasmic 0 2 0 6 binding subunit DctP [Rhodobacterales bacterium HTCC2150] Alphaproteobacteria binding protein DctP 75% identity to TRAP dicarboxylate transporter, periplasmic Rhodobacterales, TRAP dicarboxylate transporter, periplasmic 0 2 0 4 binding subunit DctP [Rhodobacterales bacterium HTCC2150] Alphaproteobacteria binding protein DctP 51% identity to TRAP dicarboxylate transporter, periplasmic Rhodobacterales, TRAP dicarboxylate transporter, periplasmic 0 2 0 3 binding subunit DctP [Octadecabacter antarcticus 307] Alphaproteobacteria binding protein DctP
TRAP-associated extracytoplasmic immunity
(TAXI) system 82% identity to TRAP-associated extracytoplasmic immunity SAR11, TRAP-associated extracytoplasmic immunity 0 3 0 9 (TAXI) protein [Candidatus Pelagibacter sp. HTCC7211] Alphaproteobacteria (TAXI) protein 66% identity to TRAP-associated extracytoplasmic immunity SAR11, TRAP-associated extracytoplasmic immunity 0 2 0 3 (TAXI) protein [alphaproteobacterium HIMB114] Alphaproteobacteria (TAXI) protein
Tripartite tricarboxylate transporter (TTT)
72% identity to Tripartite tricarboxylate transporter (TTT), Vibrionales, Tripartite tricarboxylate transporter (TTT), 0 8 0 19 periplamic binding protein TctC [Grimontia hollisae CIP 101886] Gammaproteobacteria periplamic binding protein TctC 97% identity to Tripartite tricarboxylate transporter (TTT), Tripartite tricarboxylate transporter (TTT), periplamic binding protein TctC [Candidatus Pelagibacter ubique SAR11, 0 2 0 6 periplamic binding protein TctC HTCC1002] Alphaproteobacteria
Acetate permease
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93% identity to Acetate permease (cation/acetate symporter) SAR11, 0 2 0 6 Acetate permease [ActP] [ Candidatus Pelagibacter sp. IMCC9063] Alphaproteobacteria
Efflux transporter
75% identity to Efflux transporter, RND family, MFP subunit Flavobacteria, 0 4 0 16 Efflux transporter For[ PolaribacterPeer sp. MED152] ReviewBacteroidetes Only
72% identity to Efflux transporter, RND family, MFP subunit Flavobacteria, 0 8 0 14 E fflux transporter [Polaribacter irgensii 23-P] Bacteroidetes
73% identity to Efflux transporter, RND family, MFP subunit Flavobacteria, 0 3 0 3 E fflux protein [Polaribacter irgensii 23-P] Bacteroidetes
28% identity to Type I secretion outer membrane protein, TolC Oceanospirillales, 0 4 0 9 TolC family [ Alcanivorax sp. DG881] Gammaproteobacteria
79% identity to Type I secretion outer membrane protein, TolC Flavobacteria, 0 2 0 2 TolC family [ Polaribacter irgensii 23-P] Bacteroidetes
Preprotein translocase
43% identity to Secretion protein HlyD [ Neptuniibacter Oceanospirillales, 0 5 0 15 HlyD caesariensis MED92] Gammaproteobacteria
88% identity to Secretion protein SecDF [ Polaribacter irgensii 23- Flavobacteria, 0 5 0 7 SecDF P] Bacteroidetes
91% identity to Preprotein translocase, SecY subunit [ Polaribacter Flavobacteria, 0 3 0 14 Preprotein translocase, SecY subunit irgensii 23-P] Bacteroidetes
86% identity to Secretion protein SecD [ Polaribacter sp. Flavobacteria, 0 3 0 3 SecD MED152] Bacteroidetes
56% identity to Secretion protein SecB [ Marinobacter algicola Alteromonadales, 0 2 0 7 SecB DG893] Gammaproteobacteria
89% identity to Preprotein translocase, SecA subunit [ Polaribacter Flavobacteria, 0 2 0 2 SecA irgensii 23-P] Bacteroidetes
Outer Membrane – Transport, Attachment,
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Motility
TonB-dependent receptor (TBDR)
64% identity to TonB-dependent receptor [ Cellulophaga lytica Flavobacteria, 0 28 0 141 TonB-dependent receptor DSM 7489] Bacteroidetes
75% identity to TonB-dependent receptor [ Polaribacter sp. Flavobacteria, 0 23 0 137 TonB-dependent receptor ForMED152] Peer ReviewBacteroidetes Only
81% identity to TonB-dependent receptor [Polaribacter sp. Flavobacteria, 0 11 0 41 TonB-dependent receptor MED152] Bacteroidetes
90% identity to TonB-dependent receptor [ Polaribacter irgensii Flavobacteria, 0 6 0 29 TonB-dependent receptor 23-P] Bacteroidetes
46% identity to TonB-dependent receptor [ Shewanella benthica Alteromonadales, 0 3 0 16 TonB-dependent receptor KT99] Gammaproteobacteria
32% identity to TonB-dependent receptor [gamma proteobacterium OMG, 0 3 0 11 TonB-dependent receptor NOR51-B] Gammaproteobacteria
78% identity to TonB-dependent receptor [ Polaribacter sp. Flavobacteria, 0 2 0 5 TonB-dependent receptor MED152] Bacteroidetes
85% identity to TonB-dependent receptor [gammaproteobacterium OMG, 0 2 0 4 TonB-dependent receptor HTCC2207] Gammaproteobacteria
65% identity to TonB-dependent receptor [gammaproteobacterium OMG, 0 2 0 3 TonB-dependent receptor HTCC2207] Gammaproteobacteria
42% identity to TonB-dependent receptor [SusC/RagA] [Leadbetterella byssophila strain DSM 17132 / KACC 11308 / Flavobacteria, 0 39 0 406 TonB-dependent receptor (SusC/RagA) 4M15] Bacteroidetes
62% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 38 0 357 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
55% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 34 0 244 TonB-dependent receptor (SusC/RagA) [Psychroflexus torquis ATCC 700755] Bacteroidetes
84% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 20 0 148 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
64% identity to Tonb-dependent receptor [SusC/RagA] Flavobacteria, 0 20 0 143 TonB-dependent receptor (SusC/RagA) [Cellulophaga algicola DSM 14237] Bacteroidetes
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68% identity to TonB dependent receptor [SusC/RagA] [Dokdonia Flavobacteria, 0 22 0 123 TonB-dependent receptor (SusC/RagA) donghaensis MED134] Bacteroidetes
72% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 14 0 89 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
59% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 14 0 85 TonB-dependent receptor (SusC/RagA)For [ PolaribacterPeer irgensii 23-P] ReviewBacteroidetes Only 67% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 12 0 53 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
58% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 12 0 58 TonB-dependent receptor (SusC/RagA) [Capnocytophaga ochracea F0287] Bacteroidetes
73% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 10 0 40 TonB-dependent receptor (SusC/RagA) [Flavobacteriales bacterium ALC-1] Bacteroidetes
58% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 4 0 5 TonB-dependent receptor (SusC/RagA) [Capnocytophaga ochracea F0287] Bacteroidetes
61% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 7 0 13 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
80% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 4 0 8 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
64% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 4 0 12 TonB-dependent receptor (SusC/RagA) [Cellulophaga lytica DSM 7489] Bacteroidetes
60% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 2 0 10 TonB-dependent receptor (SusC/RagA) [Krokinobacter diaphorus 4H-3-7-5] Bacteroidetes
64% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 4 0 8 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
45% identity to TonB-dependent receptor [SusC/RagA] Cytophagia, 0 4 0 4 TonB-dependent receptor (SusC/RagA) [Spirosoma linguale DSM 74] Bacteroidetes
55% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 2 0 6 TonB-dependent receptor (SusC/RagA) [Psychroflexus torquis ATCC 700755] Bacteroidetes
61% identity to TonB-dependent receptor [SusC/RagA] [ Dokdonia Flavobacteria, 0 2 0 5 TonB-dependent receptor (SusC/RagA) donghaensis MED134] Bacteroidetes
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75% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 4 0 5 TonB-dependent receptor (SusC/RagA) [Polaribacter sp. MED152] Bacteroidetes
84% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 2 0 4 TonB-dependent receptor (SusC/RagA) [Polaribacter irgensii 23-P] Bacteroidetes
100% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 2 0 3 0 TonB-dependent receptor (SusC/RagA)For [ PolaribacterPeer irgensii 23-P] ReviewBacteroidetes Only 64% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 2 0 4 TonB-dependent receptor (SusC/RagA) [Cellulophaga lytica DSM 7489] Bacteroidetes
78% identity to TonB-dependent receptor [SusC/RagA] Flavobacteria, 0 2 0 2 TonB-dependent receptor (SusC/RagA) [Polaribacter sp. MED152] Bacteroidetes
Outer membrane protein (SusD/Ra gB) 36% identity to SusD/RagB outer membrane protein Cytophagia, 0 10 0 76 [Leadbetterella byssophila DSM 17132] Bacteroidetes
Outer membrane protein (SusD) 54% identity to SusD outer membrane protein [Leeuwenhoekiella Flavobacteria, 0 8 0 55 blandensis MED217]. Bacteroidetes
81% identity to SusD outer membrane protein [Flavobacteriales Flavobacteria, 0 3 0 4 Outer membrane protein (SusD) bacterium ALC-1] Bacteroidetes
Outer membrane protein (SusD/RagB) 46% identity to SusD/RagB outer membrane protein [ Gramella Flavobacteria, 0 8 0 41 forsetii KT0803] Bacteroidetes
Outer membrane protein (SusD/RagB) 60% identity to SusD/RagB outer membrane protein Flavobacteria, 0 6 0 14 [Cellulophaga algicola DSM 14237] Bacteroidetes
Outer membrane protein (SusD/RagB) 80% identity to SusD/RagB outer membrane protein [ Polaribacter Flavobacteria, 0 6 0 18 irgensii 23-P] Bacteroidetes
Outer membrane protein (SusD/RagB) 68% identity to SusD/RagB outer membrane protein Flavobacteria, 0 7 0 11 [Cellulophaga lytica DSM 7489] Bacteroidetes
Outer membrane protein (SusD/RagB) 44% identity to SusD/RagB outer membrane protein Sphingobacteria, 0 3 0 11 [Chitinophaga pinensis DSM 2588] Bacteroidetes
Gliding motility protein
Gliding motility protein 75% identity to Gliding motility protein GldL [ Polaribacter sp. Flavobacteria, 0 3 0 10 MED152] Bacteroidetes
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Gliding motility protein 74% identity to Gliding motility protein GldJ [ Polaribacter sp. Flavobacteria, 0 2 0 3 MED152] Bacteroidetes
Gliding motility protein 82% identity to Gliding motility protein GldL [ Polaribacter sp. Flavobacteria, 0 2 0 2 MED152] Bacteroidetes
For Peer Review Only OmpA/MotB outer membrane protein
74% identity to OmpA/MotB family protein [ Polaribacter sp. Flavobacteria, 0 2 0 11 OmpA/MotB MED152] Bacteroidetes
84% identity to OmpA/MotB family protein [ Polaribacter irgensii Flavobacteria, 0 3 0 5 OmpA/MotB 23-P] Bacteroidetes
85% identity to OmpA/MotB family protein [ Polaribacter irgensii Flavobacteria, 0 2 0 8 OmpA/MotB 23-P] Bacteroidetes
72% identity to OmpA/MotB family protein [ Polaribacter irgensii Flavobacteria, 0 2 0 2 OmpA/MotB 23-P] Bacteroidetes
84% identity to OmpA/MotB family protein [ Polaribacter irgensii Flavobacteria, 0 5 0 110 OmpA/MotB 23-P] Bacteroidetes
Polysaccharide export protein
31% identity to Polysaccharide export protein [Wza] Sphingobacteria, 0 2 0 2 Polysaccharide export protein [Rhodothermus marinus DSM 4252] Bacteroidetes
MotA/TolQ/ExbB proton channel protein
87% identity to MotA/TolQ/ExbB proton channel family protein / Flavobacteria, 0 6 0 38 MotA/TolQ/ExbB biopolymer transport [ Polaribacter irgensii 23-P] Bacteroidetes
96% identity to MotA/TolQ/ExbB proton channel family protein / Flavobacteria, 0 4 0 25 MotA/TolQ/ExbB biopolymer transport [ Polaribacter sp. MED152] Bacteroidetes
77% identity to MotA/TolQ/ExbB proton channel family protein / OMG, 0 3 0 4 MotA/TolQ/ExbB biopolymer transport [gamma proteobacterium HTCC2207 Gammaproteobacteria
ExbD/TolR protein
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87% identity to to TolR/ExbD proton channel family protein / Flavobacteria, 0 2 0 2 TolR/ ExbD biopolymer transport [ Polaribacter irgensii 23-P] Bacteroidetes
MotB motor protein
83% identity to Flagellar motor protein MotB [ Polaribacter Flavobacteria, 0 3 0 4 MotB Forirgensii Peer 23-P] ReviewBacteroidetes Only
YceI family protein
75% identity to YCE I like secreted family protein [YceI] Flavobacteria, 0 2 0 4 YceI family protein [Polaribacter irgensii 23-P] Bacteroidetes
93% identity to YCE I like family protein [YceI] [ Polaribacter Flavobacteria, 0 2 0 5 YceI family protein irgensii 23-P] Bacteroidetes
55% identity to YCE I like secreted family protein [YceI] Flavobacteria, 0 2 0 3 YceI family protein [Polaribacter sp. MED152] Bacteroidetes
OmpH
85% identity to Outer membrane chaperone [OmpH/Skp] Flavobacteria, 0 12 0 58 OmpH (outer membrane chaperone Skp) [Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Outer membrane chaperone [OmpH/Skp] Flavobacteria, 2 0 6 0 OmpH (outer membrane chaperone Skp) [Polaribacter irgensii 23-P] Bacteroidetes
67% identity to Outer membrane protein (OmpH-like) Flavobacteria, 0 6 0 15 OmpH-like protein [Polaribacter sp. MED152] Bacteroidetes
GENERAL METABOLISM
Krebs cycle
Citrate synthase (E.C. 2.3.3.1)
95% identity to Citrate synthase [GltA] [ Polaribacter irgensii 23- Flavobacteria, 0 3 0 6 Citrate synthase P] Bacteroidetes
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Aconitate hydratase (EC 4.2.1.3)
74% identity to Aconitate hydratase 2 [AcnB] [ Pseudomonas Pseudomonadales, 0 4 0 7 Aconitate hydratase Formendocina Peer ymp] ReviewGammaproteobacteria Only
Isocitrate dehydrogenase (EC 1.1.1.41)
81% identity to Isocitrate dehydrogenase (NADP) [Icd] Pseudomonadales, 0 3 0 8 Isocitrate dehydrogenase [Pseudomonas mendocina ymp] Gammaproteobacteria
2-Oxoglutarate dehydrogenase , E2 (EC 2.3.1.61) 89% identity to 2-Oxoglutarate dehydrogenase, E2 component, 2-Oxoglutarate dehydrogenase, E2 dihydrolipoamide succinyltransferase [SucB] [ Polaribacter Flavobacteria, 0 2 0 3 component, dihydrolipoamide irgensii 23-P] Bacteroidetes succinyltransferase
Lipoamide dehydrogenase component , E3 (EC 1.8.1.4) 74% identity to Lipoamide dehydrogenase, E3 component [Lpd] Oceanospirillales, 0 3 0 9 Lipoamide dehydrogenase component (E3) [Marinomonas sp. MED121] Gammaproteobacteria
Succinyl-CoA synthetase (EC 6.2.1.5)
79% identity to Succinyl-CoA synthetise, beta subunit [SucC] Oceanospirillales, 0 6 0 20 Succinyl-CoA synthetase, beta subunit [Neptuniibacter caesariensis MED92] Gammaproteobacteria
94% identity to Succinyl-CoA synthetase, beta subunit Flavobacteria, 0 3 0 5 Succinyl-CoA synthetase, beta subunit [Polaribacter sp. MED152] Bacteroidetes
96% identity to Succinyl-CoA synthetase, alpha subunit [SucD] Flavobacteria, 0 2 0 16 Succinyl-CoA synthetase, alpha subunit [Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Succinyl-CoA synthetise, alpha subunit [SucD] Oceanospirillales, 2 0 2 0 Succinyl-CoA synthetase, beta subunit [Neptuniibacter caesariensis MED92] Gammaproteobacteria
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Succinate dehydrogenase (EC 1.3.99.1)
100% identity to Succinate dehydrogenase/fumarate reductase, Flavobacteria, Succinate dehydrogenase/fumarate reductase, 4 0 6 0 flavoprotein subunit [SdhA] [ Polaribacter sp. MED152], Bacteroidetes flavoprotein subunit
Malate dehydrogenase (EC 1.1.1.37) For Peer Review Only 69% identity to Malate dehydrogenase [MdH] [ Alcanivorax Oceanospirillales, 0 6 0 15 Malate dehydrogenase borkumensis SK2] Gammaproteobacteria
92% identity to Malate dehydrogenase [Mdh] [ Polaribacter sp. Flavobacteria, 0 2 0 5 Malate dehydrogenase MED152] Bacteroidetes
Pyruvate dehydrogenase (EC 1.2.4.1)
100% identity to Pyruvate dehydrogenase, subunit E1 [AceE] Oceanospirillales, 3 0 4 0 Pyruvate dehydrogenase, E1 [Alcanivorax borkumensis SK2] Gammaproteobacteria
68% identity to Pyruvate dehydrogenase, subunit E1 [AceE] Oceanospirillales, 0 2 0 2 Pyruvate dehydrogenase, E1 [Neptuniibacter caesariensis MED92] Gammaproteobacteria
Malate synthase (EC 2.3.3.9)
58% identity to Malate synthase [GlcB] [ Hahella chejuensis strain Oceanospirillales, 0 3 0 7 Malate synthase KCTC 2396] Gammaproteobacteria
Glycolysis/Gluconeogenesis
Phosphoenolpyruvate carboxykinase (EC
4.1.1.49) 76% identity to Phosphoenolpyruvate carboxykinase [Pck] Oceanospirillales, 0 2 0 3 Phosphoenolpyruvate carboxykinase [Neptuniibacter caesariensis MED92] Gammaproteobacteria
Enolase ( EC 4.2.1.11)
Flavobacteria, 0 6 0 32 Enolase 95% identity to Enolase [Eno] [ Polaribacter irgensii 23-P] Bacteroidetes
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Glyceraldehyde-3-phosphate dehydrogenase
(EC 1.2.1.12) 90% identity to Glyceraldehyde-3-phosphate dehydrogenase Flavobacteria, 2 0 4 0 Glyceraldehyde-3-phosphate dehydrogenase [GapA] [ Polaribacter irgensii 23-P] Bacteroidetes
78% identity to glyceraldehyde-3-phosphate dehydrogenase Oceanospirillales, For Peer Review Only0 2 0 5 Glyceraldehyde-3-phosphate dehydrogenase [GapA] [ Neptuniibacter caesariensis MED92] Gammaproteobacteria
90% identity to Glyceraldehyde-3-phosphate dehydrogenase Flavobacteria, 0 2 0 2 Glyceraldehyde 3-phosphate dehydrogenase [GapA] [ Polaribacter irgensii 23-P] Bacteroidetes
Fructose-1,6-bisphosphate aldolase (EC
4.1.2.13) 90% identity to Fructose-1,6-bisphosphate aldolase [FbaA] Flavobacteria, 0 7 0 15 Fructose-1,6-bisphosphate aldolase [Polaribacter irgensii 23-P] Bacteroidetes
Triosephosphate isomerase (EC 5.3.1.1)
86% identity to Triosephosphate isomerise [TpiA] [Polaribacter Flavobacteria, 0 3 0 11 Triosephosphate isomerase irgensii 23-P] Bacteroidetes
Pyruvate kinase (EC 2.7.1.40)
93% identity to Pyruvate kinase [PykF] [Polaribacter irgensii 23- Flavobacteria, 0 2 0 4 Pyruvate kinase P] Bacteroidetes
Pentose phosphate pathway
Transaldolase (EC 2.2.1.2)
Flavobacteria, 0 4 0 11 Transaldolase 95% identity to Transaldolase [TalA] [ Polaribacter irgensii 23-P] Bacteroidetes
Transketolase (EC 2.2.1.1.)
Flavobacteria, 0 2 0 4 Transketolase 97% identity to Transketolase [TktA] [ Polaribacter irgensii 23-P] Bacteroidetes
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Pseudomonadales, 0 2 0 3 Transketolase 100% identity to Transketolase [TktA] [ Pseudomonas aeruginosa ] Gammaproteobacteria
Glycogen/starch bi synthesis For Peer Review Only Glycogen synthase (EC 2.4.1.11) 92% identity to Glycogen synthase [GlgA] [ Polaribacter irgensii Flavobacteria, 0 2 0 3 Glycogen synthase 23-P] Bacteroidetes
Polysaccharide hydrolysis
Glycosyl hydrolase 36% identity to Glycosyl hydrolase, PKD domain, secreted Flavobacteria, 0 6 0 30 Glycosyl hydrolase (signal peptide) [Polaribacter sp. MED152] Bacteroidetes
31% identity to Glycosyl hydrolase, PKD domain, secreted? Flavobacteria, 0 3 0 6 Glycosyl hydrolase (signal peptide?) [Flavobacteria bacterium BAL38] Bacteroidetes
46% identity to Glycosyl hydrolase (beta-glucanase?), secreted Flavobacteria, 0 3 0 5 Glycosyl hydrolase (signal peptide) [Kordia algicida OT-1] Bacteroidetes
53% identity to Glycosyl hydrolase (beta-glucanase), secreted Flavobacteria, 0 2 0 4 Glycosyl hydrolase (signal peptide) [Capnocytophaga ochracea F0287] Bacteroidetes
53% identity to Glycosyl hydrolase, PKD domain, secreted Flavobacteria, 0 2 0 2 Glycosyl hydrolase (signal peptide) [Cellulophaga lytica DSM 7489] Bacteroidetes
54% identity to Glycosyl hydrolase (beta-glucanase), secreted Flavobacteria, 0 2 0 2 Glycosyl hydrolase (signal peptide) [Capnocytophaga ochracea F0287] Bacteroidetes
Hexosamine biosynthesis Glucosamine--fructose-6-phosphate aminotransferase (EC 2.6.1.16) 100% identity to Glucosamine--fructose-6-phosphate Flavobacteria, Glucosamine--fructose-6-phosphate 2 2 6 10 aminotransferase [GlmS] [Polaribacter sp. MED152] Bacteroidetes aminotransferase
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Capsular polysaccharide biosynthesis
Phosphomannose mutase (EC 5.4.2.8) 89% identity to Phosphomannomutase [CpsG/ManB] [uncultured GSO-EOSA-1, 0 2 0 2 Phosphomannose mutase ForSUP05 Peer cluster bacterium] ReviewGammaproteobacteria Only
Protein degradation
Aminopeptidase
88% identity to Aminopeptidase, secreted [ Polaribacter sp. Flavobacteria, 0 3 0 5 Aminopeptidase (signal peptide) MED152] Bacteroidetes
Aminopeptidase (sign al peptide) 87% identity to Aminopeptidase / peptidase, M28 family, secreted Flavobacteria, 0 2 0 4 [Polaribacter sp. MED152] Bacteroidetes
Aminopeptidase 57% identity to Leucyl aminopeptidase (no signal peptide) Oceanospirillales, 0 3 0 4 [Neptuniibacter caesariensis MED92] Gammaproteobacteria
Aminopeptidase 100% identity to Aminopeptidase (glutamyl aminopeptidase?) (no Bacteroidetes 2 0 2 0 signal peptide) [unidentified eubacterium SCB49] (unclassified)
Glutamate dehydrogenase (EC 1.4.1.3)
92% identity to Glutamate dehydrogenase [GdhA] [Polaribacter Flavobacteria, 0 4 0 11 Glutamate dehydrogenase irgensii 23-P] Bacteroidetes
Butyryl-CoA dehydrogenase (EC 1.3.99.2)
86% identity to Butyryl-CoA dehydrogenase [CaiA] [ Cellulophaga Flavobacteria, 0 3 0 7 Butyryl-CoA dehydrogenase lytica DSM 7489] Bacteroidetes
Amino acid metabolism
Glutamine synthetase (EC 6.3.1.2)
0 4 0 11 Glutamine synthetase 80% identity to Glutamine synthetase [GlnA] [ Marinomonas sp. Oceanospirillales,
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MED121] Gammaproteobacteria
Alanine dehydrogenase ( (EC 1.4.1.1)
73% identity to Alanine dehydrogenase [Ald] [ Shewanella baltica Alteromonadales, 0 3 0 3 Alanine dehydrogenase ForOS185] Peer ReviewGammaproteobacteria Only
Ornithine aminotransferase (EC 2.6.1.13)
85% identity to Ornithine aminotransferase [AruC] [uncultured Flavobacteria, 0 2 0 3 Ornithine aminotransferase Flavobacteria bacterium] Bacteroidetes
Aspartate aminotransferase ( EC 2.6.1.1)
86% identity to Aspartate aminotransferase [AspC] [Polaribacter Flavobacteria, 0 2 0 4 Aspartate aminotransferase irgensii 23-P] Bacteroidetes
55% identity to Aspartate aminotransferase [AspC] Oceanospirillales, 0 2 0 4 Aspartate aminotransferase [Neptuniibacter caesariensis MED92] Gammaproteobacteria
Beta alanine-pyruvate aminotransferase ( EC
2.6.1.18) 72% identity to Beta alanine--pyruvate transaminase [ Colwellia Alteromonadales, 0 2 0 5 Beta alanine-pyruvate aminotransferase psychrerythraea ] Gammaproteobacteria
Taurine –pyruvate aminotransferase (EC
2.6.1.77) 70% identity to Taurine--pyruvate aminotransferase [Tpa] Rhodobacterales, 0 2 0 6 Taurine-pyruvate aminotransferase [Ahrensia sp. R2A130] Alphaproteobacteria
Aspartokinase (EC 2.7.2.4)
79% identity to Aspartate kinase [LysC] [ Pseudomonas stutzeri Pseudomonadales, 0 2 0 3 Aspartate kinase A1501] Gammaproteobacteria
Phosphoglycerate dehydrogenase ( EC 1.1.1.95)
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100% identity to D-3-phosphoglycerate dehydrogenase [SerA] Methanosarcinales, 2 0 2 0 Phosphoglycerate dehydrogenase [Mbur_2385] [ Methanococcoides burtonii DSM 6242] Euryarchaeota
72% identity to D-3-phosphoglycerate dehydrogenase [SerA] Alteromonadales, 0 3 0 7 Phosphoglycerate dehydrogenase [Shewanella violacea DSS12] Gammaproteobacteria
For Peer Review Only Glycine hydroxymethyltransferase (EC 2.1.2.1)
75% identity to Glycine hydroxymethyltransferase [GlyA] Chromatiales, 0 3 0 8 Glycine hydroxymethyltransferase [Halothiobacillus neapolitanus c2] Gammaproteobacteria
Ketol-acid reductoisomerase (EC 1.1.1.86)
92% identity to Ketol-acid reductoisomerase [IlvC] Oceanospirillales, 0 3 0 8 Ketol-acid reductoisomerase [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
90% identity to Ketol-acid reductoisomerase [IlvC] [uncultured GSO-EOSA-1, 0 2 0 2 Ketol-acid reductoisomerase SUP05 cluster bacterium] Gammaproteobacteria
Methylmalonate-semialdehyde dehydrogenase
(EC 1.2.1.27) 72% identity to Methylmalonate-semialdehyde dehydrogenase Alteromonadales, 0 6 0 28 Methylmalonate-semialdehyde dehydrogenase [MmsA] [ Colwellia psychrerythraea 34H] Gammaproteobacteria
Methionine synthase (EC 2.1.1.13)
75% identity to Methionine synthase [MetH] OMG, 0 3 0 4 Methionine synthase [gammaproteobacterium HTCC2148] Gammaproteobacteria
Delta-1-pyrroline-5-carboxylate dehydrogenase;
L-proline dehydrogenase (EC 1.5.1.12) 97% identity to Delta-1-pyrroline-5-carboxylate dehydrogenase ;L- Alteromonadales, Delta-1-pyrroline-5-carboxylate 0 3 0 7 proline dehydrogenase [PutA] [ Ferrimonas balearica DSM 9799] Gammaproteobacteria dehydrogenase ;L-proline dehydrogenase
Histidinol dehydrogenase ( (EC 1.1.1.23)
0 4 0 7 Histidinol dehydrogenase 66% identity to Histidinol dehydrogenase [HisD] [ Grimontia Vibrionales,
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hollisae CIP 101886] Gammaproteobacteria
Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC
4.2.1.91) For Peer Review Only 83% identity to Cyclohexadienyl dehydratase [PheC] [ Candidatus SAR11, 0 2 0 2 Cyclohexadienyl dehydratase Pelagibacter ubique HTCC1062] Alphaproteobacteria
Tryptophan synthase (EC 4.2.1.20 )
80% identity to Tryptophan synthase, beta subunit [TrpB] Oceanospirillales, 0 3 0 6 Tryptophan synthase, beta subunit [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
Alpha hydroxy acid metabolism
Glycolate oxidase (EC 1.1.3.15)
45% identity to Glycolate oxidase FAD binding subunit [GlcE] Pseudomonadales, 0 2 0 5 Glycolate oxidase, GlcE subunit [Psychrobacter arcticus 273-4] Gammaproteobacteria
65% identity to Glycolate oxidase-related protein GlcG Rhodobacterales, 0 3 0 4 Glycolate oxidase, GlcG protein [Thalassiobium sp. R2A62] Alphaproteobacteria
Beta-lactam/antibiotic biosynthesis
Piperideine-6-carboxylate dehydrogenase 100% identity to Piperideine-6-carboxylate dehydrogenase [Pcd] Flavobacteria, 2 1 4 3 Piperideine-6-carboxylate dehydrogenase [Flavobacteria bacterium BBFL7] Bacteroidetes
SULFUR METABOLISM
Rhodanese (EC 2.8.1.1.)
43% identity to Rhodanese-like protein [ Marinomonas posidonica Oceanospirillales, 0 2 0 4 Rhodanese IVIA-Po-181] Gammaproteobacteria
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Sulfoacetylaldehyde acetyltransferase (EC
2.3.3.15) 76% identity to Sulfoacetaldehyde acetyltransferase [Xsc] Rhodobacterales, 0 10 0 39 Sulfoacetaldehyde acetyltransferaseFor [ SilicibacterPeer lacuscaerulensis ITI-1157] Review Alphaproteobacteria Only
Cysteine desulfhydrase (EC 4.1.1.15)
67% identity to D-cysteine desulfhydrase [DcyD] [ Rhodobacterales, 0 3 0 3 Cysteine desulfhydrase Rhodobacterales bacterium HTCC2255] Alphaproteobacteria
Iron-sulfur assembly protein
100% identity to Fe-S assembly ATPase, SufC [ Flavobacterium Flavobacteria, 2 0 2 0 FeS assembly protein, SufC psychrophilum JIP02/86] Bacteroidetes
OTHER CARBON METABOLISM
Methylotrophy
Trimethylamine methyltransferase
100% identity to Trimethylamine methyltranferase [MttB] Methanosarcinales, 6 0 23 0 Trimethylamine methyltransferase [Methanococcoides burtonii DSM 6242] Euryarchaeota
100% identity to Trimethylamine corrinoid protein [MttC] Methanosarcinales, Trimethylamine methyltransferase, corrinoid 2 0 5 0 [Methanococcoides burtonii DSM 6242] Euryarchaeota protein 73% identity to Trimethylamine methyltransferase [MttB] OMG, 0 2 0 3 Trimethylamine methyltransferase [gammaproteobacterium HTCC2148] Gammaproteobacteria
Methanol methyltransferase
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100% identity to Methanol corrinoid protein [MtaC] Methanosarcinales, Methanol methyltransferase, corrinoid 2 0 2 0 [Methanococcoides burtonii DSM 6242] Euryarchaeota protein
Methylamine:coenzyme M methyltransferase
100% identity to Methylamine:CoM methyltransferase [MtbA] Methanosarcinales, 2 0 2 0 Methylamine:coenzyme M methyltransferaseFor [ MethanococcoidesPeer burtonii DSM 6242]Review Euryarchaeota Only
Methyl-coenzyme M reductase
100% identity to Methyl-coenzyme M reductase, beta subunit Methanosarcinales, 6 0 15 0 Methyl-coenzyme M reductase, beta subunit [McrB] [ Methanococcoides burtonii DSM 6242] Euryarchaeota
100% identity to Methyl-coenzyme M reductase, gamma subunit Methanosarcinales, Methyl-coenzyme M reductase, gamma 4 0 6 0 [McrG] [ Methanococcoides burtonii DSM 6242] Euryarchaeota subunit
Tetrahydrosarcinapterin methyltransferase 100% identity to Tetrahydrosarcinapterin formyltransferase [Ftr] Methanosarcinales, 2 0 3 0 Tetrahydrosarcinapterin formyltransferase [Methanococcoides burtonii DSM 6242] Euryarchaeota
Formate tetrahydrofolate ligase (EC 6.3.4.3)
67% identity to Formate--tetrahydrofolate ligase [Fhs] Rhizobiales, 0 3 0 8 Formate--tetrahydrofolate ligase [Methylocella silvestris BL2] Alphaproteobacteria
Fatty acid & lipid metabolism
Acyl carrier protein (ACP)
88% identity to Acyl carrier protein [AcpP] [ Pseudomonas Pseudomonadales, 0 2 0 3 Acyl carrier protein (ACP) syringae pv. tomato str. DC3000] Gammaproteobacteria
3-Oxoacyl-(acyl-carrier-protein) reductase (EC
1.1.1.100)
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71% identity to 3-Oxoacyl-(acyl-carrier-protein) reductase [FabG] Oceanospirillales, 0 2 0 3 3-Oxoacyl-(acyl-carrier-protein) reductase [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
3-Hydroxyacyl-CoA dehydrogenase/enoyl-CoA
hydratase/isomerase family protein 87% identity to 3-Hydroxyacyl-CoA dehydrogenase/enoyl-CoA Flavobacteria, 3-Hydroxyacyl-CoA dehydrogenase/enoyl-For Peer Review Only0 3 0 7 hydratase/isomerase family protein [ Polaribacter irgensii 23-P] Bacteroidetes CoA hydratase/isomerase family protein
Nucleotide metabolism
Adenosylhomocysteinase ( EC 3.3.1.1)
100% identity to S-adenosyl-L-homocysteine hydrolase [AhcY] Rhodobacterales, 0 3 0 3 Adenosylhomocysteinase [Sulfitobacter sp. EE-36] Alphaproteobacteria
Oceanospirillales, 82% identity to S-adenosyl-L-homocysteine hydrolase [AhcY] [ 0 2 0 6 Adenosylhomocysteinase Bermanella marisrubri RED65] Gammaproteobacteria
93% identity to S-adenosyl-L-homocysteine hydrolase [AhcY] Flavobacteria, 0 2 0 3 Adenosylhomocysteinase [Polaribacter sp. MED152] Bacteroidetes
90% identity to S-adenosyl-L-homocysteine hydrolase [AhcY] Alteromonadales, 0 4 0 7 Adenosylhomocysteinase [Idiomarina loihiensis L2TR] Gammaproteobacteria
Adenylosuccinate synthetase (EC 6.3.4.4)
97% identity to Adenylosuccinate synthetise [PurA] [ Polaribacter Flavobacteria, 0 3 0 4 Adenylosuccinate synthetase irgensii 23-P] Bacteroidetes
Nucleoside diphosphate kinase ( EC 2.7.4.6)
80% identity to Nucleoside diphosphate kinase [Ndk] Oceanospirillales, 0 2 0 10 Nucleoside diphosphate kinase [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
Alcohol & Aldehyde metabolism
Aldehyde dehydrogenase (EC 1.2.1.3)
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100% identity to Aldehyde dehydrogenase (NAD) family protein 2 0 2 0 Aldehyde dehydrogenase [Arthrobacter aurescens TC1] Actinobacteria
Alcohol dehydrogenase (EC 1.1.1.1)
83% identity to NAD-dependent alcohol dehydrogenase Rhodobacterales, 0 2 0 2 Alcohol dehydrogenase For[ ThalassiobiumPeer sp. R2A62] ReviewAlphaproteobacteria Only
Vitamin & cofactor metabolism
Riboflavin synthase
74% identity to Riboflavin synthase subunit beta [RibH] Oceanospirillales, 0 2 0 6 Riboflavin synthase, beta subunit [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
2-Phospho-L-lactate transferase (EC 2.7.8.28)
93% identity to Uroporphyrinogen-III synthase [HemD] Flavobacteria, 0 2 0 5 Uroporphyrinogen synthase [Polaribacter irgensii 23-P] Bacteroidetes
Pyridoxine 5’-phosphate synthase (EC 2.6.99.2)
77% identity to Pyridoxine 5'-phosphate synthase [PdxJ] Pseudomonadales, 0 2 0 3 Pyridoxine 5’-phosphate synthase [Pseudomonas fulva 12-X] Gammaproteobacteria
ENERGY CONSERVATION
Proteorhodopsin
73% identity to Proteorhodopsin [gammaproteobacterium OMG, 0 2 0 15 Proteorhodopsin HTCC2207] Gammaproteobacteria
Flavobacteria, 0 2 0 7 Proteorhodopsin 87% identity to Proteorhodopsin [ Polaribacter sp. MED152] Bacteroidetes
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ATP synthase (EC 3.6.3.14)
84% identity to ATP synthase, subunit alpha [AtpA] Oceanospirillales, 0 21 0 135 F0F1 ATP synthase, subunit beta [Neptuniibacter caesariensis MED92] Gammaproteobacteria
82% identity to ATP synthase, subunit alpha [AtpA] Oceanospirillales, 0 19 0 83 F0F1 ATP synthase, subunit alphaFor [ NeptuniibacterPeer caesariensis MED92] Review Gammaproteobacteria Only 96% identity to ATP synthase, subunit alpha [AtpA] [ Polaribacter Flavobacteria, 0 11 0 42 F0F1 ATP synthase, subunit alpha irgensii 23-P] Bacteroidetes
100% identity to ATP synthase, subunit beta [AtpD] [ Polaribacter Flavobacteria, 9 0 29 0 F0F1 ATP synthase, subunit beta sp. MED152] Bacteroidetes
86% identity to ATP synthase, subunit beta [AtpD] [Polaribacter Flavobacteria, 0 5 0 21 F0F1 ATP synthase, subunit beta irgensii 23-P] Bacteroidetes
59% identity to ATP synthase subunit b [AtpF] [Pseudomonas Pseudomonadales, 0 4 0 18 F0F1 ATP synthase, subunit b putida strain KT2440] Gammaproteobacteria
94% identity to ATP synthase, subunit alpha [AtpA] [Polaribacter Flavobacteria, 0 2 0 12 F0F1 ATP synthase, subunit alpha irgensii 23-P] Bacteroidetes
68% identity to ATP synthase, subunit gamma [AtpG] Oceanospirillales, 0 6 0 12 F0F1 ATP synthase, subunit gamma [Neptuniibacter caesariensis MED92] Gammaproteobacteria
100% identity to ATP synthase, subunit beta [AtpD] [ Candidatus GSO-EOSA-1, 0 3 0 8 F0F1 ATP synthase, subunit beta Ruthia magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
85% identity to ATP synthase, subunit gamma [AtpG] Flavobacteria, 0 2 0 5 F0F1 ATP synthase, subunit gamma [Polaribacter sp. MED152] Bacteroidetes
75% identity to ATP synthase, subunit epsilon [AtpC] Oceanospirillales, 0 4 0 10 F0F1 ATP synthase, subunit epsilon [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
98% identity to ATP synthase, subunit beta [AtpD] [Polaribacter Flavobacteria, 0 2 0 9 F0F1 ATP synthase, subunit beta irgensii 23-P] Bacteroidetes
100% identity to ATP synthase, subunit beta [AtpD] [Candidatus SAR11, 2 0 2 0 F0F1 ATP synthase, subunit beta Pelagibacter ubique HTCC1062] Alphaproteobacteria
82% identity to ATP synthase, subunit alpha [AtpA] [ Candidatus GSO-EOSA-1, 0 4 0 4 F0F1 ATP synthase, subunit alpha Ruthia magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
100% identity to ATP synthase, subunit alpha [AtpA] Alteromonadales, 2 0 4 0 F0F1 ATP synthase, subunit alpha [Saccharophagus degradans 2-40] Gammaproteobacteria
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Pyrophosphatase (EC 3.6.1.1)
100% identity to Inorganic H+ pyrophosphatase [HppA] Flavobacteria, 0 4 0 19 Pyrophosphatase [Polaribacter irgensii 23-P] Bacteroidetes
For Peer Review Only Na(+)-translocating NADH-quinone reductase
88% identity to Na(+)-translocating NADH-quinone reductase Flavobacteria, Na(+)-translocating NADH-quinone 0 2 0 2 subunit C [NqrC] [ Polaribacter irgensii 23-P] Bacteroidetes reductase, subunit C 59% identity to Na(+)-translocating NADH-quinone reductase Oceanospirillales, Na(+)-translocating NADH-quinone 0 3 0 6 subunit A [NqrA] [ Marinomonas posidonica IVIA-Po-181] Gammaproteobacteria reductase, subunit A
Cytochrome c oxidase (EC 1.9.3.1)
87% identity to Cytochrome c oxidase subunit II [CyoA] Flavobacteria, 0 2 0 3 Cytochrome c oxidase subunit II [Polaribacter irgensii 23-P] Bacteroidetes
Electron transfer flavoprotein
80% identity to Electron transport flavoprotein beta subunit [EftB] Flavobacteria, 0 2 0 4 Electron transfer flavoprotein, beta subunit [Polaribacter irgensii 23-P] Bacteroidetes
65% identity to Electron transfer flavoprotein beta subunit [EtfB] Rhizobiales, 0 5 0 10 Electron transfer flavoprotein, beta subunit [Agrobacterium vitis strain S4 / ATCC BAA-846] Alphaproteobacteria
OXIDATIVE STRESS
Alkyl hydroperoxide reductase (thioredoxin peroxidise., peroxiredoxin) (EC 1.11.1.15) 82% identity to Peroxiredoxin (alkyl hydroperoxide reductase C) Pseudomonadales, 0 6 0 21 Alkyl hydroperoxide reductase [Pseudomonas entomophila L48] Gammaproteobacteria
Rhizobiales, 0 3 0 3 Alkyl hydroperoxide reductase 63% identity to Peroxiredoxin [ Sinorhizobium meliloti 1021] Alphaproteobacteria
76% identity to Alkylhydroperoxidase AhpD core/ 0 2 0 3 Alkyl hydroperoxidase Carboxymuconolactone decarboxylase family [ Polaribacter Flavobacteria,
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irgensii 23-P] Bacteroidetes
Thioredoxin 67% identity to Thioredoxin [Trx] [ Neisseria meningitidis Neisseriales, 0 3 0 10 Thioredoxin Forserogroup Peer B] ReviewBetaproteobacteria Only
75% identity to Thioredoxin-like protein [ Polaribacter irgensii 23- Flavobacteria, 0 3 0 5 Thioredoxin P] Bacteroidetes
Thioredoxin peroxidase 91% identity to Thioredoxin peroxidase [ Polaribacter irgensii 23- Flavobacteria, 0 3 0 8 Thioredoxin peroxidase P] Bacteroidetes
Peroxidase
Nitrosomonoadales, 0 2 0 4 Peroxidase 83% identity to Peroxidase [ Nitrosomonas sp. AL212] Betaproteobacteria
Superoxide dismutase (EC 1.15.1.1)
90% identity to Iron/manganese superoxide dismutase [SodA] Flavobacteria, 0 2 0 2 Superoxide dismutase [Polaribacter sp. MED152] Bacteroidetes
REPLICATION & DNA -BINDING
PROTEINS DNA gyrase (EC 5.99.1.3)
99% identity to DNA gyrase subunit A [GyrA] A [uncultured Flavobacteria, 0 5 0 16 DNA gyrase, subunit A Polaribacter sp.] Bacteroidetes
78% identity to DNA gyrase subunit A [GyrA] [Neptuniibacter Oceanospirillales, 0 2 0 2 DNA gyrase, subunit A caesariensis MED92 ] Gammaproteobacteria
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DNA topoisomerase (EC 5.99.1.2 / EC 5.99.1.3)
Flavobacteria, 0 2 0 3 DNA topoisomerase I 91% identity to DNA topoisomerase I [ Polaribacter irgensii 23-P] Bacteroidetes
Recombinase A For Peer Review Only 81% identity to protein RecA [ Marinomonas mediterranea MMB- Oceanospirillales, 0 4 0 12 Recombinase A 1] Gammaproteobacteria
Cold shock proteins
97% identity to cold shock protein [CspL] [Polaribacter irgensii Flavobacteria, 0 2 0 2 Cold shock protein 23-P] Bacteroidetes
93% identity to Cold-shock DNA-binding protein family Alteromonadales, 0 2 0 3 Cold shock protein [Pseudoalteromonas atlantica strain T6c / BAA-1087] Gammaproteobacteria
DNA-binding protein HU
81% identity to DNA-binding protein HU [Hup] [Polaribacter Flavobacteria, 0 8 0 39 DNA-binding protein HU irgensii 23-P] Bacteroidetes
96% identity to DNA-binding protein HU [Hup] [Polaribacter sp. Flavobacteria, 0 5 0 30 DNA-binding protein HU MED152] Bacteroidetes
81% identity to DNA-binding protein HU [gammaproteobacterium OMG, 0 6 0 15 DNA-binding protein HU HTCC2143] Gammaproteobacteria
86% identity to DNA-binding protein HU [Hup] [Candidatus GSO-EOSA-1, 0 4 0 11 DNA-binding protein HU Ruthia magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
80% identity to DNA-binding protein HU [Hup] [Colwellia Alteromonadales, 0 4 0 12 DNA-binding protein HU psychrerythraea 34H] Gammaproteobacteria
97% identity to DNA-binding protein HU [Hup] [Polaribacter Flavobacteria, 0 2 0 10 DNA-binding protein HU irgensii 23-P] Bacteroidetes
91% identity to DNA-binding protein HU [Hup] [Polaribacter sp. Flavobacteria, 0 2 0 6 DNA-binding protein HU MED152] Bacteroidetes
0 2 0 3 DNA-binding protein HU 83% identity to DNA-binding protein HU [Hup] [uncultured GSO-EOSA-1,
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SUP05 cluster bacterium] Gammaproteobacteria
TRANSCRIPTION & RNA-BINDING
PROTEINS Transcription termination factorFor Rho (EC Peer Review Only
3.6.4.-) 85% identity to Transcription termination factor Rho Oceanospirillales, 0 2 0 3 Transcription termination factor Rho [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
100% identity to Transcription termination factor Rho [ Candidatus SAR11, 3 0 5 0 Transcription termination factor Rho Pelagibacter ubique HTCC1062] Alphaproteobacteria
DNA-directed RNA polymerase (RNAP) (EC
2.7.7.6) DNA-directed RNA polymerase, alpha 98% identity to DNA-directed RNA polymerase, alpha subunit Flavobacteria, 0 16 0 72 subunit [RpoA] [ Polaribacter irgensii 23-P] Bacteroidetes
100% identity to DNA-directed RNA polymerase, beta subunit Flavobacteria, 2 0 2 0 DNA-directed RNA polymerase, beta subunit [RpoB] [ Polaribacter irgensii 23-P] Bacteroidetes
97% identity to DNA-directed RNA polymerase, beta subunit Flavobacteria, 0 31 0 156 DNA-directed RNA polymerase, beta subunit [RpoB] [ Polaribacter irgensii 23-P] Bacteroidetes
97% identity to DNA-directed RNA polymerase, beta subunit Flavobacteria, 0 4 0 9 DNA-directed RNA polymerase, beta subunit [RpoB] [ Polaribacter sp. MED152] Bacteroidetes
95% identity to DNA-directed RNA polymerase, beta' subunit Flavobacteria, 0 21 0 115 DNA-directed RNA polymerase, beta’ subunit [RpoC] [ Polaribacter irgensii 23-P] Bacteroidetes
DNA-directed RNA polymerase, alpha 70% identity to DNA-directed RNA polymerase, alpha subunit Oceanospirillales, 0 11 0 52 subunit [RpoA] [ Cellvibrio japonicus Ueda107] Gammaproteobacteria
DNA -directed RNA polymerase, alpha 76% identity to DNA-directed RNA polymerase, alpha subunit Oceanospirillales, 0 3 0 16 subunit [RpoA] [ Marinomonas sp. strain MWYL1] Gammaproteobacteria
66% identity to DNA-directed RNA polymerase, beta subunit Oceanospirillales, 0 3 0 5 DNA-directed RNA polymerase, beta subunit [RpoB] [Neptuniibacter caesariensis MED92] Gammaproteobacteria
79% identity DNA-directed RNA polymerase, beta subunit [RpoB] Oceanospirillales, 0 24 0 126 DNA-directed RNA polymerase, beta subunit [Neptuniibacter caesariensis MED92] Gammaproteobacteria
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78% identity to DNA-directed RNA polymerase, beta’ subunit Oceanospirillales, 0 10 0 49 DNA-directed RNA polymerase, beta’ subunit [RpoC] [ Neptuniibacter caesariensis MED92] Gammaproteobacteria
76% identity to DNA-directed RNA polymerase, beta' subunit Oceanospirillales, 0 2 0 5 DNA-directed RNA polymerase, beta’ subunit [RpoC] [ Marinomonas mediterranea MMB-1] Gammaproteobacteria
DNA -directed RNA polymerase, alpha 92% identity to DNA-directed RNA polymerase, alpha subunit OMG, 0 2 0 7 subunit For[RpoA] Peer [gammaproteobacterium HTCC2207]Review Gammaproteobacteria Only 95% identity to DNA-directed RNA polymerase, beta subunit SAR11, 0 2 0 2 DNA-directed RNA polymerase, beta subunit [RpoB] [ Candidatus Pelagibacter ubique HTCC1002] Alphaproteobacteria
Antitermination factor NusA/NusG
100% identity toTranscription elongation factor NusA Flavobacteria, 3 0 3 0 Antitermination factor NusA [Polaribacter irgensii 23-P] Bacteroidetes
95% identity to Transcription antitermination protein NusG Flavobacteria, 0 2 0 8 Antitermination factor NusG [Polaribacter irgensii 23-P] Bacteroidetes
Transcriptional regulators
70% identity to C4-dicarboxylate transport transcriptional Rhodobacterales, 0 8 0 32 Transcriptional regulator, AtoC regulatory protein [AtoC] [ Pelagibaca bermudensis HTCC2601] Alphaproteobacteria
Polyribonucleotide nucleotidyltransferase (EC
2.7.7.8) 95% identity to Polyribonucleotide nucleotidyltransferase [Pnp] Flavobacteria, 0 10 0 20 Polyribonucleotide nucleotidyltransferase [Polaribacter irgensii 23-P] Bacteroidetes
68% identity to Polyribonucleotide nucleotidyltransferase [Pnp] Oceanospirillales, 0 4 0 17 Polyribonucleotide nucleotidyltransferase [Neptuniibacter caesariensis MED92] Gammaproteobacteria
76% identity to Polyribonucleotide nucleotidyltransferase [Pnp] Pseudomonadales, 0 9 0 43 Polyribonucleotide nucleotidyltransferase [Pseudomonas aeruginosa ] Gammaproteobacteria
DEAD/DEAH box RNA helicase
64% identity to ATP-dependent RNA helicase DeaD [ Cellvibrio Pseudomonadales, 0 8 0 23 ATP-dependent RNA helicase DeaD japonicus Ueda107] Gammaproteobacteria
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Ribonucleases
Flavobacteria, 3 0 4 0 RNase G 100% identity to Ribonuclease G [ Polaribacter irgensii 23-P] Bacteroidetes
79% identity to Ribonuclease E [Rne] [ Halomonas elongata DSM Oceanospirillales, 0 2 0 2 RNase E For2581] Peer ReviewGammaproteobacteria Only
Ribonucleoside-diphosphate reductase
(1.17.4.1) 91% identity to Ribonucleoside-diphosphate reductase, beta Flavobacteria, Ribonucleoside-diphosphate reductase, beta 0 4 0 8 subunit [NrdF2] [ Polaribacter irgensii 23-P] Bacteroidetes subunit
TRANSLATION & PROTEIN
CHAPERONES Ribosomal subunits
100% identity to Ribosomal protein S1 [ Polaribacter irgensii 23- Flavobacteria, 8 0 28 0 Ribosomal protein S1 P] Bacteroidetes
Flavobacteria, 0 2 0 3 Ribosomal protein S1 96% identity to Ribosomal protein S1 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 2 0 3 Ribosomal protein S2 89% identity to Ribosomal protein S2 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 6 0 38 Ribosomal protein S2 84% identity to Ribosomal protein S2 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 6 0 26 Ribosomal protein S4 93% identity to Ribosomal protein S4 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 7 0 40 Ribosomal protein S5 95% identity to Ribosomal protein S5 [ Polaribacter irgensii 23-P] Bacteroidetes
86% identity to Ribosomal protein S5 [ Capnocytophaga sp. oral Flavobacteria, 0 3 0 13 Ribosomal protein S5 taxon 329 str. F0087] Bacteroidetes
100% identity to Ribosomal protein S6 [ Polaribacter irgensii 23- Flavobacteria, 2 0 5 0 Ribosomal protein S6 P] Bacteroidetes
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100% identity to Ribosomal protein S7 [ Polaribacter irgensii 23- Flavobacteria, 4 0 17 0 Ribosomal protein S7 P] Bacteroidetes
100% identity to Ribosomal protein S7 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 3 Ribosomal protein S7 P] Bacteroidetes
Flavobacteria, 0 4 0 13 Ribosomal protein S8 For96% Peer identity to Ribosomal protein ReviewS8 [ Polaribacter sp. MED152] Bacteroidetes Only Flavobacteria, 0 4 0 19 Ribosomal protein S9 96% identity to Ribosomal protein S9 [ Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Ribosomal protein S10 [ Polaribacter irgensii 23- Flavobacteria, 2 0 6 0 Ribosomal protein S10 P] Bacteroidetes
99% identity to Ribosomal protein S12 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 4 Ribosomal protein S12 P] Bacteroidetes
97% identity to Ribosomal protein S13 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 11 Ribosomal protein S13 P] Bacteroidetes
97% identity to Ribosomal protein S14 [ Polaribacter sp. Flavobacteria, 0 2 0 3 Ribosomal protein S14 MED152] Bacteroidetes
93% identity to Ribosomal protein S16 [ Polaribacter irgensii 23- Flavobacteria, 0 3 0 9 Ribosomal protein S16 P] Bacteroidetes
87% identity to Ribosomal protein S16 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 5 Ribosomal protein S16 P] Bacteroidetes
91% identity to Ribosomal protein S15 [ Polaribacter sp. Flavobacteria, 0 2 0 3 Ribosomal protein S15 MED152] Bacteroidetes
87% identity to Ribosomal protein S16 [ Polaribacter irgensii 23- Flavobacteria, 0 6 0 49 Ribosomal protein S16 P] Bacteroidetes
99% identity to Ribosomal protein S17 [ Polaribacter sp. Flavobacteria, 0 3 0 11 Ribosomal protein S17 MED152] Bacteroidetes
Flavobacteria, 0 8 0 42 Ribosomal protein L1 97% identity to Ribosomal protein L1 [ Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Ribosomal protein L3 [ Polaribacter irgensii 23- Flavobacteria, 4 0 11 0 Ribosomal protein L3 P] Bacteroidetes
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Flavobacteria, 0 8 0 20 Ribosomal protein L4 94% identity to Ribosomal protein L4 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 3 0 3 Ribosomal protein L5 95% identity to Ribosomal protein L5 [ Polaribacter sp. MED152] Bacteroidetes
Flavobacteria, 0 11 0 22 Ribosomal protein L5 For97% Peer identity to Ribosomal protein ReviewL5 [ Polaribacter irgensii 23-P] Bacteroidetes Only Flavobacteria, 0 8 0 42 Ribosomal protein L6 94% identity to Ribosomal protein L6 [ Polaribacter irgensii 23-P] Bacteroidetes
95% identity to Ribosomal protein L7/L12 [ Polaribacter irgensii Flavobacteria, 0 5 0 11 Ribosomal protein L7/L12 23-P] Bacteroidetes
Flavobacteria, 0 7 0 13 Ribosomal protein L9 90% identity to Ribosomal protein L9 [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 2 0 8 Ribosomal protein L9 92% identity to Ribosomal protein L9 [ Polaribacter sp. MED152] Bacteroidetes
Flavobacteria, 0 2 0 3 Ribosomal protein L9 90% identity to Ribosomal protein L9 [ Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Ribosomal protein L10 [ Polaribacter sp. Flavobacteria, 2 0 2 0 Ribosomal protein L10 MED152] Bacteroidetes
94% identity to Ribosomal protein L10 [ Polaribacter sp. Flavobacteria, 0 4 0 25 Ribosomal protein L10 MED152] Bacteroidetes
97% identity to Ribosomal protein L11 [ Polaribacter irgensii 23- Flavobacteria, 0 6 0 16 Ribosomal protein L11 P] Bacteroidetes
90% identity to Ribosomal protein L11 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 3 Ribosomal protein L11 P] Bacteroidetes
100% identity to Ribosomal protein L13 [ Polaribacter irgensii 23- Flavobacteria, 4 0 9 0 Ribosomal protein L13 P] Bacteroidetes
91% identity to Ribosomal protein L15 [ Polaribacter irgensii 23- Flavobacteria, 0 4 0 13 Ribosomal protein L15 P] Bacteroidetes
100% identity to Ribosomal protein L16 [ Polaribacter irgensii 23- Flavobacteria, 3 0 5 0 Ribosomal protein L16 P] Bacteroidetes
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91% identity to Ribosomal protein L18 [ Polaribacter irgensii 23- Flavobacteria, 0 4 0 8 Ribosomal protein L18 P] Bacteroidetes
99% identity to Ribosomal protein L19 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 5 Ribosomal protein L19 P] Bacteroidetes
77% identity to Ribosomal protein L21 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 2 Ribosomal protein L21 ForP] Peer ReviewBacteroidetes Only 78% identity to Ribosomal protein L21 [ Polaribacter irgensii 23- Flavobacteria, 0 8 0 29 Ribosomal protein L21 P] Bacteroidetes
100% identity to Ribosomal protein L24 [ Polaribacter sp. Flavobacteria, 3 0 6 0 Ribosomal protein L24 MED152] Bacteroidetes
100% identity to Ribosomal protein L22 [ Polaribacter irgensii 23- Flavobacteria, 2 0 3 0 Ribosomal protein L22 P] Bacteroidetes
84% identity to Ribosomal protein L25 [ Polaribacter sp. Flavobacteria, 0 4 0 11 Ribosomal protein L25 MED152] Bacteroidetes
82% identity to Ribosomal protein L25 [ Polaribacter sp. Flavobacteria, 0 3 0 11 Ribosomal protein L25 MED152] Bacteroidetes
93% identity to Ribosomal protein L25p [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 2 Ribosomal protein L25p P] Bacteroidetes
100% identity to Ribosomal protein L29 [ Polaribacter irgensii 23- Flavobacteria, 0 2 0 2 Ribosomal protein L29 P] Bacteroidetes
79% identity to Ribosomal protein S1 [ Neptuniibacter caesariensis Oceanospirillales, 0 10 0 38 Ribosomal protein S1 MED92 ] Gammaproteobacteria
77% identity to Ribosomal protein S2 [ Neptuniibacter caesariensis Oceanospirillales, 0 6 0 24 Ribosomal protein S2 MED92 ] Gammaproteobacteria
85% identity to Ribosomal protein S3 [ Neptuniibacter caesariensis Oceanospirillales, 0 6 0 35 Ribosomal protein S3 MED92 ] Gammaproteobacteria
77% identity to Ribosomal protein S4 [ Bermanella marisrubri Oceanospirillales, 0 2 0 13 Ribosomal protein S4 RED65] Gammaproteobacteria
75% identity to Ribosomal protein S6 [ Bermanella marisrubri Oceanospirillales, 0 4 0 18 Ribosomal protein S6 RED65] Gammaproteobacteria
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83% identity to Ribosomal protein S7 [Neptuniibacter caesariensis Oceanospirillales, 0 5 0 24 Ribosomal protein S7 MED92 ] Gammaproteobacteria
77% identity to Ribosomal protein S8 [ Marinobacter aquaeolei Alteromonadales, 0 3 0 3 Ribosomal protein S8 VT8] Gammaproteobacteria
92% identity to Ribosomal protein S10 [ Marinomonas sp. Oceanospirillales, 0 3 0 15 Ribosomal protein S10 ForMWYL1] Peer ReviewGammaproteobacteria Only
88% identity to Ribosomal protein S19 [ Neptuniibacter Oceanospirillales, 0 3 0 11 Ribosomal protein S19 caesariensis MED92] Gammaproteobacteria
79% identity to Ribosomal protein L1 [ Thioalkalivibrio sp. HL- Oceanospirillales, 0 10 0 30 Ribosomal protein L1 EbGR7] Gammaproteobacteria
78% identity to Ribosomal protein L3 [ Marinomonas Oceanospirillales, 0 8 0 42 Ribosomal protein L3 mediterranea MMB-1] Gammaproteobacteria
85% identity to Ribosomal protein L5 [ Neptuniibacter caesariensis Oceanospirillales, 0 5 0 17 Ribosomal protein L5 MED92 ] Gammaproteobacteria
69% identity to Ribosomal protein L6 [ Marinomonas Oceanospirillales, 0 5 0 17 Ribosomal protein L6 mediterranea MMB-1] Gammaproteobacteria
80% identity to Ribosomal protein L10 [ Marinomonas Oceanospirillales, 0 4 0 12 Ribososomal protein L10 mediterranea MMB-1] Gammaproteobacteria
86% identity to Ribosomal protein L13 [ Chromohalobacter Oceanospirillales, 0 2 0 7 Ribosomal protein L13 salexigens DSM 3043] Gammaproteobacteria
93% identity to Ribosomal protein L14 [ Neptuniibacter Oceanospirillales, 0 4 0 18 Ribosomal protein L14 caesariensis MED92 ] Gammaproteobacteria
81% identity to Ribosomal protein L15 [ Neptuniibacter Oceanospirillales, 0 6 0 14 Ribosomal protein L15 caesariensis MED92 ] Gammaproteobacteria
93% identity to Ribosomal protein L17 [ Bermanella marisrubri Oceanospirillales, 0 2 0 7 Ribosomal protein L17 RED65] Gammaproteobacteria
80% identity to Ribosomal protein L21 [ Marinobacter aquaeolei Alteromonadales, 0 5 0 11 Ribososomal protein L21 VT8] Gammaproteobacteria
83% identity to Ribosomal protein L22 [ Neptuniibacter Oceanospirillales, 0 2 0 7 Ribosomal protein L22 caesariensis MED92 ] Gammaproteobacteria
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76% identity to Ribosomal protein L23 [ Bermanella marisrubri Oceanospirillales, 0 3 0 22 Ribosomal protein L23 RED65] Gammaproteobacteria
80% identity to Ribosomal protein L24 [ Neptuniibacter Oceanospirillales, 0 2 0 4 Ribosomal protein L24 caesariensis MED92 ] Gammaproteobacteria
73% identity to Ribosomal protein L29 [ Marinobacter adhaerens Alteromonadales, 0 2 0 8 Ribosomal protein L29 ForHP15] Peer ReviewGammaproteobacteria Only Alteromonadales, 0 3 0 15 Ribososomal protein S9 82% identity to Ribosomal protein S9 [ Glaciecola sp. HTCC2999] Gammaproteobacteria
98% identity to Ribosomal protein S12 [ Saccharophagus Alteromonadales, 0 4 0 14 Ribosomal protein S12 degradans 2-40] Gammaproteobacteria
86% identity to Ribosomal protein L19 [ Teredinibacter turnerae Alteromonadales, Ribosomal protein L19 0 4 0 18 T7901] Gammaproteobacteria
55% identity to Ribosomal protein L25/general stress protein Ctc Alteromonadales, 0 7 0 39 Ribosomal protein L25 [Saccharophagus degradans 2-40] Gammaproteobacteria
100% identity to Ribosomal protein S7p/S5e [ Pseudomonas sp. Pseudomonadales, 2 0 8 0 Ribosomal protein S7p/S5e C6-9] Gammaproteobacteria
75% identity to Ribosomal protein L4/L1 [ Acinetobacter lwoffii Pseudomonadales, 0 5 0 18 Ribosomal protein L4/L1 SH145] Gammaproteobacteria
65% identity to Ribosomal protein L4 [ Acinetobacter johnsonii Pseudomonadales, 0 2 0 17 Ribosomal protein L4 SH046] Gammaproteobacteria
76% identity to Ribosomal protein L18 [ Acinetobacter baumannii Pseudomonadales, 0 5 0 34 Ribosomal protein L18 SDF] Gammaproteobacteria
56% identity to Ribosomal protein S1 [gammaproteobacterium OMG, 0 6 0 21 Ribosomal protein S1 HTCC2143] Gammaproteobacteria
90% identity to Ribosomal protein S2 [gammaproteobacterium OMG, 0 2 0 2 Ribosomal protein S2 HTCC2207] Gammaproteobacteria
95% identity to Ribosomal protein S5 [gammaproteobacterium OMG, 0 2 0 9 Ribosomal protein S5 HTCC2207] Gammaproteobacteria
100% identity to Ribosomal protein S11 [gammaproteobacterium OMG, 2 0 2 0 Ribosomal protein S11 HTCC2207] Gammaproteobacteria
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92% identity to Ribosomal protein S13 [gammaproteobacterium OMG, 0 2 0 5 Ribosomal protein S13 HTCC2207] Gammaproteobacteria
84% identity to Ribosomal protein S15p (S13e) OMG, 0 2 0 4 Ribosomal protein S15p [gammaproteobacterium IMCC3088] Gammaproteobacteria
75% identity to Ribosomal protein S17 [gammaproteobacterium OMG, 0 2 0 7 Ribosomal protein S17 ForHTCC2143] Peer ReviewGammaproteobacteria Only 83% identity to Ribosomal protein L1 [gammaproteobacterium OMG, 0 2 0 7 Ribosomal protein L1 HTCC2207] Gammaproteobacteria
85% identity to Ribosomal protein L2 [gammaproteobacterium OMG, 0 2 0 17 Ribosomal protein L2 HTCC2143] Gammaproteobacteria
94% identity to Ribosomal protein L5 [gammaproteobacterium OMG, 0 2 0 5 Ribosomal protein L5 HTCC2207] Gammaproteobacteria
66% identity to Ribosomal protein L9 [gammaproteobacterium OMG, 0 4 0 11 Ribosomal protein L9 HTCC2143] Gammaproteobacteria
86% identity to Ribosomal protein L10 [gammaproteobacterium OMG, 0 2 0 2 Ribosomal protein L10 HTCC2207] Gammaproteobacteria
71% identity to Ribosomal protein L4 [ Candidatus Ruthia GSO-EOSA-1, 0 3 0 3 Ribosomal protein L4 magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
73% identity to Ribosomal protein L6P/L9E [uncultured SUP05 GSO-EOSA-1, 0 2 0 4 R ibosomal protein L6P/l9E cluster bacterium] Gammaproteobacteria
71% identity to Ribosomal protein L23P [ Candidatus Ruthia GSO-EOSA-1, 0 2 0 3 Ribosomal protein L23P magnifica str. Cm (Calyptogena magnifica) Gammaproteobacteria
83% identity to Ribosomal protein S4p [gammaproteobacterium Gammaproteobacteria 0 8 0 40 Ribosomal protein S4p IMCC2047] (unclassified)
86% identity to Ribosomal protein S5 [gammaproteobacterium OMG, 0 8 0 51 Ribosomal protein S5 NOR5-3] Gammaproteobacteria
79% identity to Ribosomal protein S16p [gammaproteobacterium Gammaproteobacteria 0 3 0 12 Ribosomal protein S16p IMCC2047] (unclassified)
Oceanospirillales, 2 0 2 0 Ribosomal protein L2 100% identity to Ribosomal protein L2 [ Reinekea sp. MED297] Gammaproteobacteria
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Oceanospirillales, 0 3 0 13 Ribosomal protein L11 87% identity to Ribosomal protein L11 [ Reinekea sp. MED297] Gammaproteobacteria
GTP-binding protein
100% identity to GTP-binding protein EngA [ Polaribacter irgensii Flavobacteria, 0 2 0 3 GTP-binding protein For23-P] Peer ReviewBacteroidetes Only
Translation initation factor 2 (IF-2)
74% identity to Initiation factor IF-2 [InfB] [ Marinomonas sp. Oceanospirillales, 0 2 0 2 Translation initiation factor 2 MWYL1] Gammaproteobacteria
61% identity to Initiation factor IF-2 [InfB] [ Neptuniibacter Oceanospirillales, 0 3 0 4 Translation initiation factor 2 caesariensis MED92] Gammaproteobacteria
Translation initation factor 3 (IF-3)
95% identity to Initiation factor IF-3 [InfC] [ Polaribacter sp. Flavobacteria, 0 2 0 4 Translation initiation factor 2 MED152] Bacteroidetes
Translation elongation factor EF-1 alpha (EF-
1A) 100% identity to Elongation factor 1-alpha [ Methanococcoides Methanosarcinales, 3 0 12 0 Translation elongation factor EF-1 alpha burtonii DSM 6242] Euryarchaeota
Translation elongation factor P (EF-P)
Oceanospirillales, 0 2 0 2 Translation elongation factor EF-P 76% identity to Elongation factor P [ Bermanella marisrubri Gammaproteobacteria RED65]
Translation elongation factor Ts (EF-Ts)
85% identity to elongation factor Ts [Tsf] [ Glaciecola sp. Alteromonadales, 0 13 0 58 Translation elongation factor Ts HTCC2999] Gammaproteobacteria
6 0 16 0 Translation elongation factor Ts 100% identity to Elongation factor Ts [Tsf] [ Polaribacter irgensii Flavobacteria,
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23-P] Bacteroidetes
68% identity to Elongation factor Ts [Tsf] [ Marinomonas sp. Oceanospirillales, 0 8 0 22 Translation elongation factor Ts MWYL1] Gammaproteobacteria
88% identity to Elongation factor Ts [Tsf] [ Polaribacter irgensii Flavobacteria, 0 3 0 5 Translation elongation factor TsFor 23-P] Peer ReviewBacteroidetes Only 87% identity to Elongation factor Ts [Tsf] [ Polaribacter irgensii Flavobacteria, 0 2 0 2 Translation elongation factor Ts 23-P] Bacteroidetes
Translation elongation factor Tu (EF-Tu)
100% identity to Elongation factor Tu [Tuf] [ Tenacibaculum sp. Flavobacteria, 0 16 0 127 Translation elongation factor Tu MED152] Bacteroidetes
83% identity to Elongation factor Tu [Tuf] [ Neptuniibacter Oceanospirillales, 0 10 0 43 Translation elongation factor Tu caesariensis] Gammaproteobacteria
86% identity to Elongation factor Tu [Tuf] [ Candidatus Ruthia GSO-EOSA-1, 0 6 0 15 Translation elongation factor Tu magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
97% identity to Elongation factor Tu [Tuf] [Polaribacter irgensii Flavobacteria, 0 2 0 19 Translation elongation factor Tu 23-P] Bacteroidetes
97% identity to Elongation factor Tu [Tuf] [ Polaribacter irgensii Flavobacteria, 0 2 0 9 Translation elongation factor Tu 23-P] Bacteroidetes
94% identity to Elongation factor Tu [Tuf] OMG, 0 2 0 2 Translation elongation factor Tu [gammaproteobacterium HTCC2207] Gammaproteobacteria
94% identity to Elongation factor Tu [Tuf] [ Candidatus SAR11, 0 3 0 9 Translation elongation factor Tu Pelagibacter ubique HTCC1062] Alphaproteobacteria
93% identity to Elongation factor Tu [Tuf] [ Marinomonas sp. Oceanospirillales, 0 4 0 9 Translation elongation factor Tu MED121] Gammaproteobacteria
Membrane GTPase
100% identity to Membrane GTPase/Elongation factor family Flavobacteria, 2 0 4 0 Membrane GTPase protein [TypA/BipA] [ Polaribacter irgensii 23-P] Bacteroidetes
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79% identity to Membrane GTPase/Elongation factor family OMG, 0 3 0 7 Membrane GTPase protein [TypA/BipA] [gammaproteobacterium HTCC2143] Gammaproteobacteria
77% identity to Membrane GTPase/Elongation factor family Alteromonadales, 0 2 0 2 Membrane GTPase protein [TypA/BipA] [Teredinibacter turnerae T7901] Gammaproteobacteria
For Peer Review Only
Peptide chain release factor 1 100% identity to Peptide chain release factor 1 [PrfA] Flavobacteria, 1 2 2 4 Peptide chain release factor 1 [Polaribacter sp. MED152]. Bacteroidetes
S-adenosylmethionine:tRNA ribosyltransferase- isomerase 95% identity to S-adenosylmethionine:tRNA ribosyltransferase- Flavobacteria, S-adenosylmethionine:tRNA 0 3 0 8 isomerase [QueA] [ Polaribacter irgensii 23-P] Bacteroidetes ribosyltransferase-isomerase
Trigger factor
52% identity to Trigger factor (TF) [Tig] [ Marinomonas sp. (strain Oceanospirillales, 0 4 0 13 Trigger factor MWYL1)] Gammaproteobacteria
Peptidylprolyl isomerase (cyclophilin-type)
80% identity to Cyclophilin-type peptidyl-prolyl cis-trans Oceanospirillales, 0 3 0 10 Peptidylprolyl isomerase (cyclophilin-type) isomerase B [ Marinomonas sp. MED121] Gammaproteobacteria
Peptidylprolyl isomerase (PpiC-type)
77% identity to PPIC-type peptidylprolyl cis-trans isomerase, Flavobacteria, 0 10 0 17 Peptidyl-prolyl cis-trans isomerase (PPIC- secreteed [ Polaribacter irgensii 23-P] Bacteroidetes type)
Peptidylprolyl isomerase (FKBP-type)
47% identity to Peptidyl-prolyl cis-trans isomerase FKBP [FkpA], Alteromonadales, Peptidylprolyl cis-trans isomerase (FKBP- 0 2 0 9 secreted [Pseudoalteromonas atlantica T6c] Gammaproteobacteria type) Peptidylprolyl cis-trans isomerase (FKBP- 0 9 0 33 type) 78% identity to Peptidyl-prolyl cis-trans isomerase FKBP [FkpA], Flavobacteria,
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secreted [ Polaribacter irgensii 23-P] Bacteroidetes
DnaK chaperonin
94% identity to Chaperone protein HtpG/DnaK [Polaribacter Flavobacteria, 0 14 0 121 DnaK Forirgensii Peer 23-P] ReviewBacteroidetes Only 80% identity to Chaperone protein HtpG/DnaK [ Marinomonas sp. Oceanospirillales, 0 8 0 27 DnaK (strain MWYL1)] Gammaproteobacteria
100% identity to Chaperone protein HtpG/DnaK [Polaribacter Flavobacteria, 3 0 10 0 DnaK irgensii 23-P] Bacteroidetes
72% identity to Chaperone protein HtpG/DnaK Alteromonadales, 0 6 0 9 DnaK [gammaproteobacterium IMCC1989] Gammaproteobacteria
77% identity to Chaperone protein HtpG/DnaK [Neptuniibacter Oceanospirillales, 0 3 0 15 DnaK caesariensis MED92 ] Gammaproteobacteria
94% identity to Chaperone protein HtpG/DnaK [ Polaribacter Flavobacteria, 0 6 0 24 DnaK irgensii 23-P] Bacteroidetes
GrpE heat shock protein
56% identity to Heat shock protein GrpE [ Marinomonas sp. Oceanospirillales, 0 2 0 3 GrpE heat shock protein MED121] Gammaproteobacteria
GroEL chaperonin
73% identity to GroEL protein (chaperonin) (Cpn60) Pseudomonadales, 0 22 0 254 GroEL [Pseudomonas putida (strain GB-1)] Gammaproteobacteria
96% identity to GroEL protein (chaperonin) (Cpn60) [ Polaribacter Flavobacteria, 0 6 0 30 GroEL irgensii 23-P] Bacteroidetes
79% identity to GroEL protein (chaperonin) (Cpn60) [ Candidatus GSO-EOSA-1, 0 7 0 21 GroEL Ruthia magnifica str. Cm (Calyptogena magnifica)] Gammaproteobacteria
100% identity to GroEL protein (chaperonin) (Cpn60) [ Candidatus SAR11, 5 0 8 0 GroEL Pelagibacter ubique HTCC1062] Alphaproteobacteria
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87% identity to GroEL protein (chaperonin) (Cpn60) OMG, 0 3 0 9 GroEL [gammaproteobacterium HTCC2207] Gammaproteobacteria
100% identity to GroEL protein (chaperonin) (Cpn60) Pseudomonadales, 0 2 0 8 GroEL [Pseudomonas aeruginosa ] Gammaproteobacteria
100% identity to GroEL protein (chaperonin) (Cpn60) Rhodobacterales, 2 0 6 0 GroEL For[ RhodobacterPeer capsulatus ] ReviewAlphaproteobacteria Only Nitrosomonadales, Betaproteobacteria 3 0 6 0 GroEL 100% identity to GroEL protein (chaperonin) (Cpn60) [Nitrosospira multiformis ATCC 25196]
100% identity to GroEL protein (chaperonin) (Cpn60) [ Salmonella Enterobacteriales, 2 0 3 0 GroEL enterica subsp. enterica serovar Newport str. SL254] Gammaproteobacteria
100% identity to GroEL protein (chaperonin) (Cpn60) Sphingomonadales, 2 0 2 0 GroEL [Sphingopyxis alaskensis RB2256] Alphaproteobacteria
100% identity to GroEL protein (chaperonin) (Cpn60) 2 0 2 0 GroEL [Acholeplasma laidlawii PG-8A] Mollicutes
GroES chaperonin
71% identity to GroES protein (chaperonin) (Protein Cpn10) Oceanospirillales, 0 4 0 18 GroES [GroS] [Marinomonas posidonica IVIA-Po-181 Gammaproteobacteria
74% identity to GroES protein (chaperonin) (Protein Cpn10) Oceanospirillales, GroES [GroS] [Neptuniibacter caesariensis MED92 ] Gammaproteobacteria
Thermosome
100% identity to Thermosome, chaperonin Cpn60/TCP-1 Methanosarcinales, 6 0 11 0 Thermosome [Methanococcoides burtonii DSM 6242] Euryarchaeota
PROTEIN DEGRADATION
Metallopepttidase M16
0 4 0 11 Metallopeptidase M16 71% identity to Cytoplasmic metallopeptidase, M16 family protein Flavobacteria,
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(signal peptide cleavage?) [ Polaribacter irgensii 23-P] Bacteroidetes
Clp protease
100% identity to ATP-dependent Clp protease ClpA [ Coxiella Legionellales, 2 0 4 0 ATP-binding protease componentFor ClpA burnetii Peer MSU Goat Q177'] ReviewGammaproteobacteria Only 85% identity to ATP-dependent Clp protease subunit ClpX Alteromonadales, 0 4 0 8 ATP-binding protease component ClpX [Marinobacter aquaeolei VT8] Gammaproteobacteria
93% identity to ATP-dependent Clp protease [ Polaribacter sp. Flavobacteria, 0 2 0 3 ATP-binding protease Clp MED152] Bacteroidetes
100% identity to ATP-dependent Clp protease [ Polaribacter sp. Flavobacteria, 2 0 2 0 ATP-binding protease Clp MED152] Bacteroidetes
Lon protease
100% identity to ATP-dependent Lon protease [ Polaribacter Flavobacteria, 2 0 4 0 Lon protease irgensii 23-P] Bacteroidetes
FtsH metalloprotease (EC 3.4.24.-)
72% identity to Cell division protein/transmembrane OMG, 0 3 0 7 FtsH metalloprotease metalloprotease FtsH [gammaproteobacterium NOR5-3] Gammaproteobacteria
91% identity to Cell division protein/transmembrane Flavobacteria, 0 4 0 13 FtsH metalloprotease metalloprotease FtsH [ Polaribacter irgensii 23-P] Bacteroidetes
77% identity to Cell division protein/transmembrane Oceanospirillales, 0 2 0 9 FtsH metalloprotease metalloprotease FtsH [ Neptuniibacter caesariensis MED92] Gammaproteobacteria
Protease HslU
72% identity to ATP-dependent protease subunit HslU OMG, 0 3 0 4 ATP-dependent protease HslU [gammaproteobacterium HTCC2143] Gammaproteobacteria
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HflKC membrane complex/ SPFH domain /
Band 7 family 88% identity to HflC/SPFH/band 7 family protein [ Polaribacter Flavobacteria, 0 8 0 29 HflC sp. MED152] Bacteroidetes
Oceanospirillales, 0 8 0 16 HflC For68% Peer identity to HflC protein [ Marinomonas Review sp. MWYL1] Gammaproteobacteria Only 61% identity to HflC protein [ Candidatus Ruthia magnifica str. GSO-EOSA-1, 0 2 0 7 HflC Cm (Calyptogena magnifica)] Gammaproteobacteria
Flavobacteria, 0 3 0 9 HflC 90% identity to HflC protein [ Polaribacter irgensii 23-P] Bacteroidetes
62% identity to HflK protein [ Neptuniibacter caesariensis Oceanospirillales, 0 10 0 54 HflK MED92] Gammaproteobacteria
Oceanospirillales, 0 3 0 20 HflK 70% identity to HflK protein [ Marinomonas sp. MED121] Gammaproteobacteria
Gammaproteobacteria 0 3 0 18 HflK 58% identity to HflK protein [gammaproteobacterium IMCC2047] (unclassified)
60% identity to HflK protein [ Candidatus Ruthia magnifica str. GSO-EOSA-1, 0 3 0 4 HflK Cm (Calyptogena magnifica)] Gammaproteobacteria
Flavobacteria, 0 2 0 9 SPFH domain / Band 7 family protein 95% identity to Band 7 protease [ Polaribacter irgensii 23-P] Bacteroidetes
Alteromonadales, 0 4 0 8 SPFH domain / Band 7 family protein 79% identity to Band 7 protease [ Pseudoalteromonas tunicata D2] Gammaproteobacteria
HYPOTHETICAL PROTEINS
Molybdopterin oxidoreductase, iron-sulfur binding subunit 85% identity to Molybdopterin oxidoreductase, iron-sulfur binding Flavobacteria, Molybdopterin oxidoreductase, iron-sulfur 0 4 0 11 subunit [ Polaribacter irgensii 23-P] Bacteroidetes binding subunit
TPR (tetratricopeptide) proteins
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87% identity to Tetratricopeptide repeat family protein Flavobacteria, 0 3 0 5 TPR-repeat protein (signal peptide) [Polaribacter irgensii 23-P] Bacteroidetes
100% identity to Tetratricopeptide repeat family protein Flavobacteria, 2 0 2 0 TPR-repeat protein (signal peptide) [Polaribacter irgensii 23-P] Bacteroidetes
65% identity to Tetratricopeptide repeat family protein Flavobacteria, 0 2 0 2 TPR-repeat protein (signal peptide)For [ PolaribacterPeer irgensii 23-P] ReviewBacteroidetes Only
Other hypothetical proteins
95% identity to Zn-ribbon protein, possibly nucleic acid-binding Flavobacteria, 0 2 0 4 Zn-ribbon protein (nucleic acid binding?) [Polaribacter irgensii 23-P] Bacteroidetes
100% identity to S-layer-related hypothetical protein (DUF1608) Methanosarcinales, 3 0 19 0 S-layer hypothetical protein (signal peptide) [Methanococcoides burtonii DSM 6242] Euryarchaeota
71% identity to Beta-Ig-H3/fasciclin adhesion protein Rhizobiales, Hypothetical protein (signal peptide; fasciclin 0 4 0 16 [Mesorhizobium opportunistum WSM2075] Alphaproteobacteria domain: adhesion?) 54% identity to Hypothetical protein (DUF3461), YaeH-like Oceanospirillales, 0 2 0 8 Hypothetical protein (no signal peptide) [Marinomonas mediterranea MMB-1] Gammaproteobacteria
36% identity to Hypothetical protein [ Candidatus Puniceispirillum SAR116, 0 2 0 3 Hypothetical protein (signal peptide) marinum IMCC1322] Alphaproteobacteria
Flavobacteria, 0 2 0 2 Hypothetical protein (signal peptide) 89% identity to Hypothetical protein [ Polaribacter irgensii 23-P] Bacteroidetes
33% identity to Hupothetical protein, cellulose-binding (CttA) Hypothetical protein (signal peptide?; 0 2 0 7 domain [ Ruminococcus flavefaciens ] Firmicutes cellulose-binding domain) 100% identity to HD superfamily phosphohydrolase [ Polaribacter Flavobacteria, Hypothetical protein (signal peptide; HD 0 2 0 5 sp. MED152] Bacteroidetes phosphohydrolase domain) 72% identity to Hypothetical protein, lipolytic protein G-D-S-L Flavobacteria, Hypothetical protein (signal peptide; lipolytic 0 3 0 14 family [ Polaribacter sp. MED152] Bacteroidetes domain) 39% identity to Hypothetical protein, peptidase domain Flavobacteria, Hypothetical protein (signal peptide; 0 2 0 14 [Polaribacter sp. MED152] Bacteroidetes peptidase domain) 41% identity to Peptidoglycan-associated lipoprotein OprL Oceanospirillales, 0 2 0 5 Hypothetical protein (signal peptide; OprL) [Marinomonas sp. MED121] Gammaproteobacteria
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100% identity to Hypothetical protein [ Methanococcoides burtonii Methanosarcinales, 2 0 3 0 Hypothetical protein (no signal peptide) DSM 6242] Euryarchaeota
65% identity to Hypothetical protein [ Neptuniibacter caesariensis Oceanospirillales, 0 2 0 4 Hypothetical protein (no signal peptide) MED92 ] Gammaproteobacteria
41% identity to Hypothetical protein [Flavobacteriales bacterium Flavobacteria, 0 2 0 2 Hypothetical protein (signal peptide)For ALC-1] Peer ReviewBacteroidetes Only Flavobacteria, 0 2 0 7 Hypothetical protein (signal peptide) 41% identity to Hypothetical protein [ Polaribacter irgensii 23-P] Bacteroidetes
Flavobacteria, 0 3 0 5 Hypothetical protein (signal peptide) 78% identity to Hypothetical protein [ Polaribacter irgensii 23-P] Bacteroidetes
49% identity to Hypothetical protein [ Cellulophaga lytica DSM Flavobacteria, Hypothetical protein (signal peptide; 0 7 0 22 7489] Bacteroidetes carbohydrate-binding domain) 53% identity to Hypothetical protein MED217_03910 Flavobacteria, 0 4 0 30 Hypothetical protein (signal peptide) [Leeuwenhoekiella blandensis MED217] Bacteroidetes
43% identity to Hypothetical protein [ Krokinobacter diaphorus Flavobacteria, 0 4 0 21 Hypothetical protein (signal peptide) 4H-3-7-5] Bacteroidetes
71% identity to Cell adhesion fasciclin protein [ Polaribacter sp. Flavobacteria, Hypothetical protein (signal peptide; fasciclin 0 2 0 3 MED152] Bacteroidetes domain: adhesion?)
PHAGE PROTEINS 65% identity to Precursor of major head subunit [gp23] 0 4 0 17 Cyanophage [Synechococcus phage S-SSM7]
Cyanophage 61% identity to Precursor of major head subunit [gp23] 0 2 0 6 [Synechococcus phage S-SSM7]
Cyanophage 66% identity to Precursor of major head subunit [gp23] 0 2 0 2 [Synechococcus phage S-SM2]
EUKARYOTE PROTEINS
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100% identity to ATP synthase CF1 alpha chain [ Thalassiosira 4 0 29 0 Diatom pseudonana ]
100% identity to S-adenosyl-L-homocysteine hydrolase 5 0 16 0 Diatom (AdoHycase) [ Thalassiosira pseudonana ]
93% identity to Ribulose-1,5-bisphosphate carboxylase/oxygenase 0 4 0 15 Diatom Forsmall Peer subunit [ Thalassiosira pseudonana Review] Only 100% identity to Heat shock protein 70 [ Thalassiosira 3 0 10 0 Diatom pseudonana ]
100% identity to Photosystem II cytochrome c550 [ Thalassiosira 0 4 0 17 Diatom pseudonana ]
100% identity to Fucoxanthin-chlorophyll a/c light-harvesting 3 0 15 0 Diatom protein [ Thalassiosira pseudonana ]
100% identity to Heat shock protein/chaperone [ Thalassiosira 3 0 9 0 Diatom pseudonana ]
100% identity to 30S ribosomal protein S7 [ Thalassiosira 2 0 8 0 Diatom pseudonana ]
100% identity to Glyceraldehyde-3-phosphate dehydrogenase 2 0 3 0 Diatom [Thalassiosira pseudonana ]
100% identity to Ribosomal protein 18 40S small ribosomal 2 0 3 0 Diatom subunit [ Thalassiosira pseudonana ]
100% identity to RL4e, ribosomal protein 4e 60S large ribosomal 2 0 8 0 Diatom subunit [ Thalassiosira pseudonana ]
100% identity to 40S ribosomal protein S3 [Thalassiosira 2 0 5 0 Diatom pseudonana ]
90% identity to 50S ribosomal protein L3 [ Thalassiosira 0 6 0 8 Diatom pseudonana ]
100% identity to Pyridoxal 5'-phosphate synthase, synthase subunit 3 0 8 0 Diatom Pdx1 [Thalassiosira pseudonana ]
100% identity to Translation initiation factor 4A [Thalassiosira 3 0 4 0 Diatom pseudonana ]
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91% identity to Cell division protein FtsH-like protein 0 2 0 8 Diatom [Thalassiosira pseudonana ]
100% identity to Ribosomal_P0_L10e [Thalassiosira pseudonana ] 2 0 4 0 Diatom 100% identity to Photosystem I ferredoxin-binding protein 2 0 4 0 Diatom For[ ThalassiosiraPeer pseudonana ] Review Only 100% identity to RL11A, ribosomal protein 11A 60S large 2 0 3 0 Diatom ribosomal subunit [ Thalassiosira pseudonana ]
100% identity to mitochondrial ATPase, inner membrane 2 0 4 0 Diatom [Thalassiosira pseudonana ]
100% identity to RS16, ribosomal protein 16 40S small ribosomal 2 0 2 0 Diatom subunit [ Thalassiosira pseudonana ]
94% identity to 60 kDa chaperonin [ Thalassiosira pseudonana ] 0 2 0 5 Diatom 84% identity to 50S ribosomal protein L23 [ Thalassiosira 0 3 0 6 Diatom pseudonana ]
100% identity to Ribosomal_L7Ae [ Thalassiosira pseudonana ] 2 0 3 0 Diatom 100% identity to RS3A, ribosomal protein 3A 40S small ribosomal 2 0 3 0 Diatom subunit [ Thalassiosira pseudonana ]
100% identity to S28E, S1-like RNA-binding domain 2 0 5 0 Diatom [Thalassiosira pseudonana ]
92% identity to translation elongation factor EF-Tu [ Thalassiosira 0 2 0 10 Diatom oceanica ]
96% identity to ATP synthase CF1 subunit beta [ Thalassiosira 0 14 0 213 Diatom oceanica ]
99% identity to photosystem II CP43 chlorophyll apoprotein 2 3 25 43 Diatom [Thalassiosira oceanica ]
89% identity to magnesium chelatase ATPase subunit ChlI 0 2 0 2 Diatom [Thalassiosira oceanica ]
90% identity to CbbX protein [ Thalassiosira oceanica ] 0 3 0 5 Diatom 86% identity to 30S ribosomal protein S8 [ Thalassiosira oceanica ] 0 3 0 6 Diatom
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76% identity to 30S ribosomal protein S18 [ Thalassiosira 0 3 0 3 Diatom oceanica ]
100% identity to photosystem II protein D1 [ Odontella sinensis ] 3 0 11 0 Diatom 100% identity to photosystem II 47 kDa protein [ Odontella 2 0 4 0 Diatom Forsinensis Peer] Review Only 100% identity to Inorganic H+ pyrophosphatase [ Phaeodactylum 2 0 3 0 Diatom tricornutum ]
100% identity to phosphoglycerate kinase precursor 3 0 4 0 Diatom [Phaeodactylum tricornutum ]
100% identity to oxygen-evolving enhancer protein 1 precursor 2 0 9 0 Diatom [Phaeodactylum tricornutum ]
100% identity to V-type (H+)-ATPase V1, B subunit 2 0 4 0 Diatom [Phaeodactylum tricornutum ]
100% identity to Ribosomal_S7 [ Phaeodactylum tricornutum ] 2 0 3 0 Diatom 100% identity to beta-tubulin [ Phaeodactylum tricornutum ] 2 0 2 0 Diatom 100% identity to ribulose-1,5-bisphosphate carboxylase/oxygenase 7 0 53 0 Diatom large subunit [ Porosira pseudodenticulata ]
100% identity to actin [ Nitzschia closterium f. minutissima ] 8 0 42 0 Diatom 100% identity to Fucoxanthin-chlorophyll a/c light-harvesting 2 0 12 0 Diatom protein [ Skeletonema costatum ]
85% identity to ATP synthase subunit beta, chloroplastic [atpB] 0 8 0 24 Coccolithophore [Emiliania huxleyi ]
87% identity to ATP synthase subunit alpha, chloroplastic [atpA] 0 7 0 16 Coccolithophore [Emiliania huxleyi ]
100% identity to Ribosomal L9-like protein (ISS) [ Ostreococcus 0 2 0 5 Green alga/microalga tauri ]
100% identity to Myosin class II heavy chain (ISS) [ Ostreococcus 0 2 0 13 Green alga/microalga tauri ]
0 2 0 16 Green alga/microalga 100% identity to Rab-type small GTP-binding protein-like (ISS)
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[Ostreococcus tauri ]
100% identity to beta tubulin [ Chrysochromulina sp. NIES-1333] 6 0 20 0 Golden alga 100% identity to alpha tubulin [ Chrysochromulina sp. NIES- 2 0 5 0 Golden alga 1333],
For100% Peer identity to ribulose 1.5-bisphosphate Review carboxylase/oxygenase Only 1 2 2 3 Haptophyte small subunit [ Phaeocystis pouchetii ]
100% identity to ethylene-inducible protein hever, putative 2 0 5 0 Dinoflagellate [Perkinsus marinus ]
100% identity to Rubber elongation factor protein [Hevea 4 0 13 0 Land plant ( contaminant - latex glove ?) brasiliensis ]
100% identity to Ribulose bisphosphate carboxylase large chain 2 0 6 0 Land plant ( contaminant? ) [Oryza sativa Japonica Group]
100% identity to ADP-ribosylation factor 1 [ Nicotiana 2 0 3 0 Land plant ( herb – contaminant?) benthamiana ]
100% identity to beta-actin [ Hypophthalmichthys molitrix ] 5 0 14 0 Fish 100% identity to Heat shock protein HSP 90-alpha 1 [ Danio rerio ] 3 0 21 0 Fish 100% identity to mitochondrial H+ ATPase a subunit [ Pinctada 2 0 5 0 Mollusc (bivalve) fucata ]
100% identity to H4 histone protein [ Nematostella vectensis ] 0 0 22 0 Cnidaria (sea anemone) 100% identity to S3 protein [ Suberites domuncula ] 2 0 3 0 Porifera (sponge)
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Table S2. Counts for unique peptides and assigned spectra for proteins identified using the NR database, and a customized Antarctic database “AntComb”, which was constructed from fosmid libraries and Southern Ocean metagenome data. For Peer ReviewUnique peptides (#) Only Assigned spectra (#) Assigned spectra (%) Phylogenetic group NR AntComb NR AntComb NR AntComb
Bacteroidetes - Flavobacteria 85 1018 201 4729 21.38 52.63
Bacteroidetes - other ( Cytophagia, Sphingobacteria , unclassified) 2 19 2 93 0.21 1.03
Alphaproteobacteria - SAR11 15 75 31 237 3.3 2.64
Alphaproteobacteria - Rhodobacterales 2 132 6 574 0.64 6.39
Alphaproteobacteria - SAR116 0 15 0 54 0 0.6
Alphaproteobacteria - other ( Rhizobiales, Sphingomonadales ) 2 30 2 104 0.21 1.16
Gammaproteobacteria - Oceanospirillales 7 382 8 1494 0.85 16.63
Gammaproteobacteria - Alteromonadales 2 93 4 304 0.43 3.38
Gammaproteobacteria - GSO-EOSA-1 0 42 0 87 0 0.97
Gammaproteobacteria - OMG 2 75 2 236 0.21 2.63
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Gammaproteobacteria - Pseudomonadales 2 80 8 468 0.85 5.21
Gammaproteobacteria - other ( Chromatiales, Enterobacteriales, 16 32 126 111 13.4 1.24 Legionellales, Vibrionales ,For unclassified) Peer Review Only Betaproteobacteria - Nitrosomonadales, Neisseriales 3 5 6 14 0.64 0.16
Deltaproteobacteria - Desulfobacterales 0 4 0 22 0 0.24
Bacteria - other ( Actinobacteria, Firmicutes, Mollicutes , unclassified) 4 5 4 16 0.43 0.18
Euryarchaeota - Methanosarcinales 40 0 103 0 10.96 0
Viruses 0 8 0 25 0 0.28
Eukarya - diatoms 87 51 318 341 33.83 3.79
Eukarya - coccolithophores 0 15 0 40 0 0.45
Eukarya - algae (other) 11 8 32 37 3.4 0.41
Eukarya - vascular plants 8 0 22 0 2.34 0
Eukarya - metazoans (molluscs, sponges, fishes, etc) 12 0 65 0 6.91 0
Total 300 2089 940 8986 100 100
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For Peer Review Only
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Table S3. All genes identified in the Newcomb Bay metagenome Gene Count Percentage (%) TonB-dependent receptor 1050 1.771524 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) 290 0.4892781 Permease of the drug/metabolite transporter (DMT) superfamily 280 0.4724064 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) 261 0.4403503 DNA-directed RNA polymerase beta subunit (EC 2.7.7.6) 245 0.4133556 DNA polymerase III alpha subunit (EC 2.7.7.7) 241 0.4066069 DNA-directed RNA polymerase beta' subunit (EC 2.7.7.6) 237 0.3998583 DNA polymerase I (EC 2.7.7.7) 213 0.3593663 Aspartate aminotransferase (EC 2.6.1.1) 208 0.3509305 Sarcosine oxidaseFor alpha subunit Peer (EC 1.5.3.1) Review Only202 0.3408075 Isoleucyl-tRNA synthetase (EC 6.1.1.5) 193 0.325623 Aldehyde dehydrogenase (EC 1.2.1.3) 183 0.3087513 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) 182 0.3070642 Enoyl-CoA hydratase (EC 4.2.1.17) 171 0.2885053 Protein export cytoplasm protein SecA ATPase RNA helicase (TC 3.A.5.1.1) 170 0.2868182 Leucyl-tRNA synthetase (EC 6.1.1.4) 169 0.285131 Alanyl-tRNA synthetase (EC 6.1.1.7) 168 0.2834438 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) 167 0.2817567 Acriflavin resistance protein 166 0.2800695 Translation initiation factor 2 165 0.2783823 Ribonucleotide reductase of class Ia (aerobic); alpha subunit (EC 1.17.4.1) 165 0.2783823 DNA topoisomerase I (EC 5.99.1.2) 160 0.2699465 Sulfate permease 159 0.2682594 Dihydroorotase (EC 3.5.2.3) 159 0.2682594 DNA gyrase subunit A (EC 5.99.1.3) 156 0.2631979 Methylmalonyl-CoA mutase (EC 5.4.99.2) 155 0.2615107 Flagellar hook-length control protein FliK 153 0.2581364 Carbamoyl-phosphate synthase large chain (EC 6.3.5.5) 151 0.254762 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) 150 0.2530749 GMP synthase [glutamine-hydrolyzing] (EC 6.3.5.2) 147 0.2480134 Excinuclease ABC subunit A 145 0.244639 Cold-shock DEAD-box protein A 145 0.244639 Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) 143 0.2412647 Thioredoxin reductase (EC 1.8.1.9) 142 0.2395775 ATP synthase beta chain (EC 3.6.3.14) 139 0.234516 Acetyl-coenzyme A synthetase (EC 6.2.1.1) 139 0.234516 Cell division protein FtsH (EC 3.4.24.-) 139 0.234516 O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) 138 0.2328289 DNA gyrase subunit B (EC 5.99.1.3) 136 0.2294545 Aspartyl-tRNA(Asn) synthetase (EC 6.1.1.23) 136 0.2294545 Homoserine dehydrogenase (EC 1.1.1.3) 133 0.224393 Transcription-repair coupling factor 133 0.224393 Acetyl-CoA acetyltransferase (EC 2.3.1.9) 131 0.2210187 Valyl-tRNA synthetase (EC 6.1.1.9) 130 0.2193315 Chaperone protein DnaK 129 0.2176444 RNA polymerase sigma factor RpoD 129 0.2176444 Phenylalanyl-tRNA synthetase beta chain (EC 6.1.1.20) 127 0.21427 Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) 127 0.21427
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Lipid A export ATP-binding/permease protein MsbA 125 0.2108957 Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] (EC 2.6.1.16) 125 0.2108957 Pyrophosphate-energized proton pump (EC 3.6.1.1) 124 0.2092086 Translation elongation factor G 123 0.2075214 ATP-dependent protease La (EC 3.4.21.53) Type I 123 0.2075214 Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) 121 0.2041471 Cell division protein FtsK 121 0.2041471 Glycine dehydrogenase [decarboxylating] (glycine cleavage system P protein) (EC 1.4.4.2)120 0.2024599 UDP-glucose dehydrogenase (EC 1.1.1.22) 118 0.1990856 Butyryl-CoA dehydrogenase (EC 1.3.99.2) 118 0.1990856 Excinuclease ABC subunit B 116 0.1957112 Thiamin-regulatedFor outer membrane Peer receptor Omr1Review Only116 0.1957112 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) 115 0.1940241 Heat shock protein 60 family chaperone GroEL 115 0.1940241 UDP-glucose 4-epimerase (EC 5.1.3.2) 115 0.1940241 NADP-dependent malic enzyme (EC 1.1.1.40) 114 0.1923369 ATP-dependent DNA helicase UvrD/PcrA 113 0.1906497 Ribonucleotide reductase of class II (coenzyme B12-dependent) (EC 1.17.4.1) 112 0.1889626 Translation elongation factor LepA 111 0.1872754 Deoxyribodipyrimidine photolyase (EC 4.1.99.3) 110 0.1855882 Threonyl-tRNA synthetase (EC 6.1.1.3) 110 0.1855882 GTP-binding protein TypA/BipA 109 0.1839011 Phosphoribosylformylglycinamidine synthase; glutamine amidotransferase subunit (EC 1096.3.5.3)0.1839011 Arginyl-tRNA synthetase (EC 6.1.1.19) 109 0.1839011 Dihydroxy-acid dehydratase (EC 4.2.1.9) 106 0.1788396 Beta-lactamase (EC 3.5.2.6) 106 0.1788396 Methionyl-tRNA synthetase (EC 6.1.1.10) 105 0.1771524 ATP synthase alpha chain (EC 3.6.3.14) 105 0.1771524 Acetolactate synthase large subunit (EC 2.2.1.6) 105 0.1771524 NAD-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) 105 0.1771524 DNA ligase (EC 6.5.1.2) 105 0.1771524 Prolyl endopeptidase (EC 3.4.21.26) 104 0.1754652 ATP-dependent RNA helicase RhlE 104 0.1754652 Translation elongation factor Tu 104 0.1754652 Glutamine synthetase type I (EC 6.3.1.2) 104 0.1754652 Ammonium transporter 103 0.1737781 Helicase PriA essential for oriC/DnaA-independent DNA replication 102 0.1720909 Aspartyl-tRNA(Asn) amidotransferase subunit A (EC 6.3.5.6) 101 0.1704037 Retron-type reverse transcriptase 101 0.1704037 Cysteine desulfurase (EC 2.8.1.7) 101 0.1704037 CTP synthase (EC 6.3.4.2) 100 0.1687166 Inosine-5'-monophosphate dehydrogenase (EC 1.1.1.205) 100 0.1687166 Guanosine-3';5'-bis(diphosphate) 3'-pyrophosphohydrolase (EC 3.1.7.2) 100 0.1687166 Ribonucleotide reductase of class Ia (aerobic); beta subunit (EC 1.17.4.1) 99 0.1670294 Outer membrane protein assembly factor YaeT precursor 99 0.1670294 DNA mismatch repair protein MutS 98 0.1653422 Geranyltranstransferase (farnesyldiphosphate synthase) (EC 2.5.1.10) 98 0.1653422 Transcription termination protein NusA 98 0.1653422 COG0488: ATPase components of ABC transporters with duplicated ATPase domains 98 0.1653422 3-oxoacyl-[acyl-carrier-protein] synthase; KASIII (EC 2.3.1.41) 97 0.1636551
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Amidophosphoribosyltransferase (EC 2.4.2.14) 97 0.1636551 Probable low-affinity inorganic phosphate transporter 96 0.1619679 Membrane alanine aminopeptidase N (EC 3.4.11.2) 95 0.1602807 TPR domain protein; putative component of TonB system 95 0.1602807 1-deoxy-D-xylulose 5-phosphate synthase (EC 2.2.1.7) 95 0.1602807 Excinuclease ABC subunit C 95 0.1602807 3-isopropylmalate dehydrogenase (EC 1.1.1.85) 94 0.1585936 Adenosylhomocysteinase (EC 3.3.1.1) 94 0.1585936 Acetate permease ActP (cation/acetate symporter) 94 0.1585936 S-adenosylmethionine synthetase (EC 2.5.1.6) 93 0.1569064 Xaa-Pro aminopeptidase (EC 3.4.11.9) 93 0.1569064 Penicillin-bindingFor protein 2 (PBP-2)Peer Review Only92 0.1552192 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) 92 0.1552192 Histidinol dehydrogenase (EC 1.1.1.23) 92 0.1552192 DNA primase (EC 2.7.7.-) 91 0.1535321 Ketol-acid reductoisomerase (EC 1.1.1.86) 91 0.1535321 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) 90 0.1518449 SSU ribosomal protein S1p 90 0.1518449 Probable Co/Zn/Cd efflux system membrane fusion protein 90 0.1518449 GTP-binding protein EngA 90 0.1518449 Biotin carboxylase of acetyl-CoA carboxylase (EC 6.3.4.14) 90 0.1518449 Alcohol dehydrogenase (EC 1.1.1.1) 89 0.1501577 Iron-sulfur cluster assembly protein SufB 88 0.1484706 3'-to-5' exoribonuclease RNase R 87 0.1467834 Aconitate hydratase (EC 4.2.1.3) 87 0.1467834 L-proline glycine betaine ABC transport system permease protein ProW (TC 3.A.1.12.1) 87 0.1467834 Topoisomerase IV subunit A (EC 5.99.1.-) 87 0.1467834 Alpha-1;2-mannosidase 87 0.1467834 Adenylate cyclase (EC 4.6.1.1) 86 0.1450963 Argininosuccinate synthase (EC 6.3.4.5) 86 0.1450963 Choline dehydrogenase (EC 1.1.99.1) 85 0.1434091 Isocitrate dehydrogenase [NADP] (EC 1.1.1.42) 85 0.1434091 DNA polymerase III subunits gamma and tau (EC 2.7.7.7) 84 0.1417219 Fumarate hydratase class II (EC 4.2.1.2) 84 0.1417219 2-isopropylmalate synthase (EC 2.3.3.13) 84 0.1417219 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) 83 0.1400348 internalin; putative 83 0.1400348 Deoxyguanosinetriphosphate triphosphohydrolase (EC 3.1.5.1) 83 0.1400348 Seryl-tRNA synthetase (EC 6.1.1.11) 82 0.1383476 Cell division trigger factor (EC 5.2.1.8) 82 0.1383476 Potassium efflux system KefA protein 82 0.1383476 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC82 2.3.1.12)0.1383476 Phage baseplate wedge 82 0.1383476 Cell division protein FtsI [Peptidoglycan synthetase] (EC 2.4.1.129) 82 0.1383476 Chromosome partition protein smc 81 0.1366604 DNA polymerase III epsilon subunit (EC 2.7.7.7) 81 0.1366604 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) 81 0.1366604 Chaperone protein DnaJ 81 0.1366604 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) 81 0.1366604 dTDP-glucose 4;6-dehydratase (EC 4.2.1.46) 80 0.1349733
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Cytoplasmic axial filament protein CafA and Ribonuclease G (EC 3.1.4.-) 80 0.1349733 Sarcosine dehydrogenase (EC 1.5.99.1) 80 0.1349733 Signal recognition particle; subunit Ffh SRP54 (TC 3.A.5.1.1) 80 0.1349733 Prolyl-tRNA synthetase (EC 6.1.1.15) 79 0.1332861 Molybdopterin oxidoreductase; iron-sulfur binding subunit (EC 1.2.7.-) 79 0.1332861 Phenylalanyl-tRNA synthetase alpha chain (EC 6.1.1.20) 79 0.1332861 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) 79 0.1332861 Phage baseplate hub 78 0.1315989 Ribose-phosphate pyrophosphokinase (EC 2.7.6.1) 78 0.1315989 tRNA-i(6)A37 methylthiotransferase 77 0.1299118 Histidyl-tRNA synthetase (EC 6.1.1.21) 77 0.1299118 Tyrosyl-tRNA synthetaseFor (EC Peer6.1.1.1) Review Only77 0.1299118 ATP-dependent Clp protease; ATP-binding subunit ClpC 77 0.1299118 Adenylosuccinate synthetase (EC 6.3.4.4) 76 0.1282246 Cell division protein FtsZ (EC 3.4.24.-) 76 0.1282246 Isoquinoline 1-oxidoreductase beta subunit (EC 1.3.99.16) 76 0.1282246 UDP-N-acetylmuramoylalanyl-D-glutamate--2;6-diaminopimelate ligase (EC 6.3.2.13) 75 0.1265374 5-methyltetrahydrofolate--homocysteine methyltransferase (EC 2.1.1.13) 75 0.1265374 Aspartokinase (EC 2.7.2.4) 75 0.1265374 Diaminopimelate decarboxylase (EC 4.1.1.20) 75 0.1265374 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) 74 0.1248503 tRNA nucleotidyltransferase (EC 2.7.7.21) (EC 2.7.7.25) 74 0.1248503 Enolase (EC 4.2.1.11) 74 0.1248503 Thymidylate kinase (EC 2.7.4.9) 74 0.1248503 Threonine synthase (EC 4.2.3.1) 72 0.1214759 Cysteinyl-tRNA synthetase (EC 6.1.1.16) 72 0.1214759 Glutamate-1-semialdehyde aminotransferase (EC 5.4.3.8) 72 0.1214759 Ribokinase (EC 2.7.1.15) 72 0.1214759 Single-stranded-DNA-specific exonuclease RecJ (EC 3.1.-.-) 71 0.1197888 Alkaline phosphatase (EC 3.1.3.1) 71 0.1197888 Sarcosine oxidase beta subunit (EC 1.5.3.1) 71 0.1197888 Serine hydroxymethyltransferase (EC 2.1.2.1) 71 0.1197888 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) 70 0.1181016 Glucose-6-phosphate isomerase (EC 5.3.1.9) 70 0.1181016 Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) 70 0.1181016 Anthranilate synthase; aminase component (EC 4.1.3.27) 70 0.1181016 ATP-dependent DNA helicase RecQ 70 0.1181016 Tryptophan synthase beta chain (EC 4.2.1.20) 70 0.1181016 Chromosomal replication initiator protein DnaA 70 0.1181016 Adenylosuccinate lyase (EC 4.3.2.2) 70 0.1181016 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) 70 0.1181016 RecA protein 69 0.1164144 ABC transporter ATP-binding protein uup 69 0.1164144 Pyruvate kinase (EC 2.7.1.40) 68 0.1147273 GTPase and tRNA-U34 5-formylation enzyme TrmE 68 0.1147273 Branched-chain amino acid aminotransferase (EC 2.6.1.42) 68 0.1147273 3-oxoacyl-[acyl-carrier-protein] synthase; KASI (EC 2.3.1.41) 68 0.1147273 Replicative DNA helicase (EC 3.6.1.-) 67 0.1130401 Transcription termination factor Rho 67 0.1130401 Cell division protein FtsA 67 0.1130401
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Putative cytochrome C-type biogenesis protein 67 0.1130401 2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29) 67 0.1130401 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) 67 0.1130401 Peptide deformylase (EC 3.5.1.88) 67 0.1130401 Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) 66 0.1113529 Membrane-bound lytic murein transglycosylase D precursor (EC 3.2.1.-) 66 0.1113529 Signal recognition particle receptor protein FtsY (=alpha subunit) (TC 3.A.5.1.1) 66 0.1113529 Omega-amino acid--pyruvate aminotransferase (EC 2.6.1.18) 66 0.1113529 Multi antimicrobial extrusion protein (Na(+)/drug antiporter); MATE family of MDR efflux66 pumps0.1113529 Dihydrolipoamide dehydrogenase of 2-oxoglutarate dehydrogenase (EC 1.8.1.4) 65 0.1096658 Peptide chain release factor 1 65 0.1096658 4-hydroxythreonine-4-phosphateFor Peer dehydrogenase Review (EC 1.1.1.262) Only64 0.1079786 ATP-dependent DNA helicase RecG (EC 3.6.1.-) 64 0.1079786 Cryptochrome 63 0.1062914 Proteorhodopsin 63 0.1062914 Translation elongation factor Ts 63 0.1062914 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) 63 0.1062914 Phytoene dehydrogenase (EC 1.14.99.-) 63 0.1062914 Selenoprotein O and cysteine-containing homologs 63 0.1062914 Monofunctional biosynthetic peptidoglycan transglycosylase (EC 2.4.2.-) 62 0.1046043 Porphobilinogen synthase (EC 4.2.1.24) 62 0.1046043 YgjD/Kae1/Qri7 family; required for threonylcarbamoyladenosine (t(6)A) formation in tRNA62 0.1046043 Chorismate synthase (EC 4.2.3.5) 62 0.1046043 Peptide methionine sulfoxide reductase MsrA (EC 1.8.4.11) 62 0.1046043 tolB protein precursor; periplasmic protein involved in the tonb-independent uptake of group62 0.1046043 A colicins NADH-ubiquinone oxidoreductase chain F (EC 1.6.5.3) 62 0.1046043 Phosphomannomutase (EC 5.4.2.8) 62 0.1046043 ATP-dependent Clp protease ATP-binding subunit ClpX 62 0.1046043 Phospho-N-acetylmuramoyl-pentapeptide-transferase (EC 2.7.8.13) 61 0.1029171 Cobalt-zinc-cadmium resistance protein CzcA 61 0.1029171 NADP-specific glutamate dehydrogenase (EC 1.4.1.4) 61 0.1029171 Signal peptidase I (EC 3.4.21.89) 61 0.1029171 UDP-N-acetylglucosamine 1-carboxyvinyltransferase (EC 2.5.1.7) 61 0.1029171 Beta-galactosidase (EC 3.2.1.23) 61 0.1029171 UDP-N-acetylmuramate--alanine ligase (EC 6.3.2.8) 61 0.1029171 Membrane-associated zinc metalloprotease 61 0.1029171 Aminomethyltransferase (glycine cleavage system T protein) (EC 2.1.2.10) 61 0.1029171 GTP cyclohydrolase II (EC 3.5.4.25) 61 0.1029171 DNA-directed RNA polymerase alpha subunit (EC 2.7.7.6) 61 0.1029171 Uroporphyrinogen III decarboxylase (EC 4.1.1.37) 61 0.1029171 Rod shape-determining protein MreB 60 0.1012299 Potassium uptake protein TrkH 60 0.1012299 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase (EC 2.3.1.-) 60 0.1012299 ATP synthase A chain (EC 3.6.3.14) 60 0.1012299 tRNA pseudouridine synthase A (EC 4.2.1.70) 60 0.1012299 Peptide chain release factor 2 60 0.1012299 MotA/TolQ/ExbB proton channel family protein 60 0.1012299 D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) 60 0.1012299 Argininosuccinate lyase (EC 4.3.2.1) 60 0.1012299 Thymidylate synthase thyX (EC 2.1.1.-) 59 0.0995428
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Triosephosphate isomerase (EC 5.3.1.1) 59 0.0995428 GTP-binding and nucleic acid-binding protein YchF 59 0.0995428 Isocitrate lyase (EC 4.1.3.1) 59 0.0995428 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) 59 0.0995428 Glutaminyl-tRNA synthetase (EC 6.1.1.18) 59 0.0995428 SSU ribosomal protein S2p (SAe) 59 0.0995428 Pyruvate;phosphate dikinase (EC 2.7.9.1) 58 0.0978556 Succinyl-CoA ligase [ADP-forming] beta chain (EC 6.2.1.5) 58 0.0978556 Cytochrome oxidase biogenesis protein Sco1/SenC/PrrC; putative copper metallochaperone58 0.0978556 Agmatinase (EC 3.5.3.11) 58 0.0978556 Dihydrodipicolinate synthase (EC 4.2.1.52) 58 0.0978556 Heme O synthase;For protoheme Peer IX farnesyltransferase Review (EC 2.5.1.-) COX10-CtaB Only58 0.0978556 NAD-dependent formate dehydrogenase alpha subunit 57 0.0961684 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) 57 0.0961684 Cytochrome c-type biogenesis protein DsbD; protein-disulfide reductase (EC 1.8.1.8) 57 0.0961684 Malonyl CoA-acyl carrier protein transacylase (EC 2.3.1.39) 57 0.0961684 Carbamoyl-phosphate synthase small chain (EC 6.3.5.5) 57 0.0961684 D-alanine--D-alanine ligase (EC 6.3.2.4) 57 0.0961684 Phosphoribosylformylglycinamidine synthase; synthetase subunit (EC 6.3.5.3) 57 0.0961684 N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) 56 0.0944813 Citrate synthase (si) (EC 2.3.3.1) 56 0.0944813 Phosphoglycerate kinase (EC 2.7.2.3) 56 0.0944813 Acetylornithine aminotransferase (EC 2.6.1.11) 56 0.0944813 RNA polymerase sigma-70 factor 56 0.0944813 Coproporphyrinogen III oxidase; aerobic (EC 1.3.3.3) 56 0.0944813 Urocanate hydratase (EC 4.2.1.49) 56 0.0944813 DNA repair protein RecN 55 0.0927941 Acetyl-coenzyme A carboxyl transferase alpha chain (EC 6.4.1.2) 55 0.0927941 Phage tail fiber protein 55 0.0927941 2;3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) 55 0.0927941 Beta-lactamase class C and other penicillin binding proteins 55 0.0927941 Acetyl-coenzyme A carboxyl transferase beta chain (EC 6.4.1.2) 55 0.0927941 Excinuclease ABC subunit A paralog in greater Bacteroides group 55 0.0927941 Imidazole glycerol phosphate synthase cyclase subunit (EC 4.1.3.-) 55 0.0927941 Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1) 55 0.0927941 TRAP-type C4-dicarboxylate transport system; periplasmic component 55 0.0927941 Beta-glucanase precursor (EC 3.2.1.73) 55 0.0927941 Phosphopantothenoylcysteine decarboxylase (EC 4.1.1.36) 54 0.0911069 Tryptophanyl-tRNA synthetase (EC 6.1.1.2) 54 0.0911069 Prephenate dehydratase (EC 4.2.1.51) 54 0.0911069 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) 54 0.0911069 Methionyl-tRNA formyltransferase (EC 2.1.2.9) 54 0.0911069 High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1)54 0.0911069 NAD kinase (EC 2.7.1.23) 54 0.0911069 Chaperone protein HtpG 54 0.0911069 Survival protein SurA precursor (Peptidyl-prolyl cis-trans isomerase SurA) (EC 5.2.1.8) 54 0.0911069 rRNA small subunit methyltransferase H 54 0.0911069 3-methyl-2-oxobutanoate hydroxymethyltransferase (EC 2.1.2.11) 53 0.0894198 Cell division protein FtsW 53 0.0894198 Aconitate hydratase 2 (EC 4.2.1.3) 53 0.0894198
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Dihydrolipoamide succinyltransferase component (E2) of 2-oxoglutarate dehydrogenase 53complex0.0894198 (EC 2.3.1.61) rRNA small subunit methyltransferase I 53 0.0894198 Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (EC 5.3.1.16)53 0.0894198 3-deoxy-D-manno-octulosonic-acid transferase (EC 2.-.-.-) 53 0.0894198 Trk system potassium uptake protein TrkA 53 0.0894198 GTP cyclohydrolase I (EC 3.5.4.16) type 1 53 0.0894198 Rod shape-determining protein RodA 52 0.0877326 Arylsulfatase (EC 3.1.6.1) 52 0.0877326 DNA polymerase IV (EC 2.7.7.7) 52 0.0877326 YrdC/Sua5 family protein; required for threonylcarbamoyladenosine (t(6)A) formation in52 tRNA0.0877326 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) 52 0.0877326 Peroxidase (EC For1.11.1.7) Peer Review Only52 0.0877326 Lysyl-tRNA synthetase (class II) (EC 6.1.1.6) 52 0.0877326 Na(+)-translocating NADH-quinone reductase subunit F (EC 1.6.5.-) 52 0.0877326 Malate dehydrogenase (EC 1.1.1.37) 51 0.0860455 L-asparaginase (EC 3.5.1.1) 51 0.0860455 COG0536: GTP-binding protein Obg 51 0.0860455 Recombination inhibitory protein MutS2 51 0.0860455 tRNA(Ile)-lysidine synthetase 51 0.0860455 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) 51 0.0860455 UDP-N-acetylmuramoylalanine--D-glutamate ligase (EC 6.3.2.9) 51 0.0860455 A/G-specific adenine glycosylase (EC 3.2.2.-) 51 0.0860455 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) 51 0.0860455 Dimethylglycine dehydrogenase (EC 1.5.99.2) 51 0.0860455 Phosphoribosylaminoimidazole carboxylase ATPase subunit (EC 4.1.1.21) 51 0.0860455 Aspartyl-tRNA(Asn) amidotransferase subunit B (EC 6.3.5.6) 51 0.0860455 HtrA protease/chaperone protein 50 0.0843583 DNA repair protein RadA 50 0.0843583 Glutamate 5-kinase (EC 2.7.2.11) 50 0.0843583 5;10-methylenetetrahydrofolate reductase (EC 1.5.1.20) 50 0.0843583 Methionine aminopeptidase (EC 3.4.11.18) 50 0.0843583 TldD protein; part of proposed TldE/TldD proteolytic complex (PMID 12029038) 50 0.0843583 Acetylglutamate kinase (EC 2.7.2.8) 50 0.0843583 GDP-mannose 4;6-dehydratase (EC 4.2.1.47) 50 0.0843583 Alanine dehydrogenase (EC 1.4.1.1) 50 0.0843583 Para-aminobenzoate synthase; aminase component (EC 2.6.1.85) 50 0.0843583 tRNA-guanine transglycosylase (EC 2.4.2.29) 49 0.0826711 1-acyl-sn-glycerol-3-phosphate acyltransferase (EC 2.3.1.51) 49 0.0826711 RNA polymerase sigma-54 factor RpoN 49 0.0826711 Pyrroline-5-carboxylate reductase (EC 1.5.1.2) 49 0.0826711 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) 49 0.0826711 Phosphate regulon sensor protein PhoR (SphS) (EC 2.7.13.3) 49 0.0826711 Dihydrodipicolinate reductase (EC 1.3.1.26) 49 0.0826711 Ferrochelatase; protoheme ferro-lyase (EC 4.99.1.1) 49 0.0826711 Adenylylsulfate reductase alpha-subunit (EC 1.8.99.2) 49 0.0826711 Glycyl-tRNA synthetase beta chain (EC 6.1.1.14) 49 0.0826711 Aspartate carbamoyltransferase (EC 2.1.3.2) 49 0.0826711 3-dehydroquinate synthase (EC 4.2.3.4) 49 0.0826711 Aldehyde dehydrogenase B (EC 1.2.1.22) 49 0.0826711 Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4) 49 0.0826711
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Homoserine kinase (EC 2.7.1.39) 49 0.0826711 Peptide methionine sulfoxide reductase MsrB (EC 1.8.4.12) 48 0.080984 L-lactate dehydrogenase (EC 1.1.2.3) 48 0.080984 Dipeptidyl carboxypeptidase Dcp (EC 3.4.15.5) 48 0.080984 Ubiquinone biosynthesis monooxygenase UbiB 48 0.080984 Glutamyl-tRNA reductase (EC 1.2.1.70) 48 0.080984 Topoisomerase IV subunit B (EC 5.99.1.-) 48 0.080984 (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase (EC 4.2.1.-) 48 0.080984 Dihydropteroate synthase (EC 2.5.1.15) 48 0.080984 Lipoprotein releasing system ATP-binding protein LolD 48 0.080984 Peptide chain release factor 3 48 0.080984 Gamma-glutamylFor phosphate Peerreductase (EC 1.2.1.41) Review Only47 0.0792968 S-adenosylmethionine:tRNA ribosyltransferase-isomerase (EC 5.-.-.-) 47 0.0792968 UDP-N-acetylmuramoylalanyl-D-glutamyl-2;6-diaminopimelate--D-alanyl-D-alanine ligase47 (EC 6.3.2.10)0.0792968 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 47 0.0792968 3-deoxy-manno-octulosonate cytidylyltransferase (EC 2.7.7.38) 47 0.0792968 GTP-binding protein HflX 47 0.0792968 Glutamyl-tRNA synthetase (EC 6.1.1.17) 47 0.0792968 Holliday junction DNA helicase RuvB 47 0.0792968 Thiamine-monophosphate kinase (EC 2.7.4.16) 47 0.0792968 N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38) 47 0.0792968 Glycosyltransferase 47 0.0792968 Stage 0 sporulation protein J 46 0.0776096 Phage neck protein 46 0.0776096 TRAP-type C4-dicarboxylate transport system; large permease component 46 0.0776096 Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) 46 0.0776096 Purine nucleoside phosphorylase (EC 2.4.2.1) 46 0.0776096 MutS-related protein; family 1 46 0.0776096 Exodeoxyribonuclease III (EC 3.1.11.2) 46 0.0776096 Proposed peptidoglycan lipid II flippase MurJ 46 0.0776096 macromolecule metabolism 46 0.0776096 Glycyl-tRNA synthetase (EC 6.1.1.14) 46 0.0776096 DNA mismatch repair protein MutL 46 0.0776096 Endo-1;4-beta-xylanase A precursor (EC 3.2.1.8) 45 0.0759225 Pyridoxine 5'-phosphate synthase (EC 2.6.99.2) 45 0.0759225 Myo-inositol 2-dehydrogenase (EC 1.1.1.18) 45 0.0759225 Na(+)-translocating NADH-quinone reductase subunit A (EC 1.6.5.-) 45 0.0759225 Lipid-A-disaccharide synthase (EC 2.4.1.182) 45 0.0759225 Cysteine desulfurase (EC 2.8.1.7); SufS subfamily 45 0.0759225 (R)-citramalate synthase (EC 2.3.1.182) 45 0.0759225 3-oxoacyl-[acyl-carrier-protein] synthase; KASII (EC 2.3.1.41) 45 0.0759225 L-proline glycine betaine ABC transport system permease protein ProV (TC 3.A.1.12.1) 45 0.0759225 Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) 45 0.0759225 Delta-1-pyrroline-5-carboxylate dehydrogenase (EC 1.5.1.12) 45 0.0759225 Riboflavin kinase (EC 2.7.1.26) 45 0.0759225 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) 44 0.0742353 Diaminopimelate epimerase (EC 5.1.1.7) 44 0.0742353 Molybdopterin oxidoreductase subunit; predicted 44 0.0742353 Nitrilotriacetate monooxygenase component B (EC 1.14.13.-) 44 0.0742353 Methylenetetrahydrofolate dehydrogenase (NADP+) (EC 1.5.1.5) 44 0.0742353
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Lysyl-tRNA synthetase (class I) (EC 6.1.1.6) 44 0.0742353 6-phosphofructokinase (EC 2.7.1.11) 44 0.0742353 Glutamine synthetase type III; GlnN (EC 6.3.1.2) 44 0.0742353 Threonine dehydratase (EC 4.3.1.19) 44 0.0742353 Unspecified gene from subsystem Respiratory_Complex_I 44 0.0742353 Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase (EC 2.3.1.129) 43 0.0725481 Outer membrane protein H precursor 43 0.0725481 GTP-binding protein Era 43 0.0725481 tRNA dihydrouridine synthase B (EC 1.-.-.-) 43 0.0725481 Gamma-glutamyltranspeptidase (EC 2.3.2.2) 43 0.0725481 Aspartyl-tRNA synthetase (EC 6.1.1.12) 43 0.0725481 Electron transferFor flavoprotein; Peer beta subunit Review Only43 0.0725481 ATP synthase gamma chain (EC 3.6.3.14) 43 0.0725481 NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) 43 0.0725481 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) 43 0.0725481 Hydroxyacylglutathione hydrolase (EC 3.1.2.6) 43 0.0725481 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase (EC 1.17.7.1) 43 0.0725481 Diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26) 43 0.0725481 Apolipoprotein N-acyltransferase (EC 2.3.1.-) 42 0.070861 NAD(P) transhydrogenase subunit beta (EC 1.6.1.2) 42 0.070861 Endonuclease III (EC 4.2.99.18) 42 0.070861 Asparagine synthetase [glutamine-hydrolyzing] (EC 6.3.5.4) 42 0.070861 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) 42 0.070861 Rod shape-determining protein MreC 42 0.070861 Folylpolyglutamate synthase (EC 6.3.2.17) 42 0.070861 Adenylate kinase (EC 2.7.4.3) 42 0.070861 Cytosol aminopeptidase PepA (EC 3.4.11.1) 42 0.070861 Ribonuclease HII (EC 3.1.26.4) 42 0.070861 Hydroxymethylglutaryl-CoA reductase (EC 1.1.1.34) 42 0.070861 Octanoate-[acyl-carrier-protein]-protein-N-octanoyltransferase 42 0.070861 Queuosine Biosynthesis QueE Radical SAM 42 0.070861 Phytoene synthase (EC 2.5.1.32) 41 0.0691738 Formate--tetrahydrofolate ligase (EC 6.3.4.3) 41 0.0691738 Pantoate--beta-alanine ligase (EC 6.3.2.1) 41 0.0691738 N-acetylglutamate synthase (EC 2.3.1.1) 41 0.0691738 Translation initiation factor 3 41 0.0691738 ABC-type multidrug transport system; ATPase component 41 0.0691738 tRNA (Guanine37-N1) -methyltransferase (EC 2.1.1.31) 41 0.0691738 UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol41 N-acetylglucosamine0.0691738 transferase (EC 2.4.1.227) Putative formate dehydrogenase oxidoreductase protein 41 0.0691738 Peptidyl-tRNA hydrolase (EC 3.1.1.29) 41 0.0691738 Acetylornithine deacetylase (EC 3.5.1.16) 41 0.0691738 Phosphoglycolate phosphatase (EC 3.1.3.18) 41 0.0691738 Pyruvate carboxyl transferase (EC 6.4.1.1) 41 0.0691738 4-hydroxyphenylpyruvate dioxygenase (EC 1.13.11.27) 41 0.0691738 2-hydroxy-3-oxopropionate reductase (EC 1.1.1.60) 41 0.0691738 Glucose-methanol-choline (GMC) oxidoreductase:NAD binding site 41 0.0691738 Branched-chain amino acid ABC transporter; amino acid-binding protein (TC 3.A.1.4.1) 41 0.0691738 Imidazolonepropionase (EC 3.5.2.7) 41 0.0691738 Tyrosine-protein kinase Wzc (EC 2.7.10.2) 40 0.0674866
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Molybdenum cofactor biosynthesis protein MoaA 40 0.0674866 Thymidylate synthase (EC 2.1.1.45) 40 0.0674866 Tryptophan synthase alpha chain (EC 4.2.1.20) 40 0.0674866 Ribosomal RNA large subunit methyltransferase N (EC 2.1.1.-) 40 0.0674866 DNA recombination protein RmuC 40 0.0674866 Menaquinone biosynthesis related protein; putative DHNA-CoA thioesterase 40 0.0674866 Dihydrolipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase40 0.0674866 complex (EC 2.3.1.168) Heme A synthase; cytochrome oxidase biogenesis protein Cox15-CtaA 40 0.0674866 Phosphoglucosamine mutase (EC 5.4.2.10) 39 0.0657995 Anthranilate synthase; amidotransferase component (EC 4.1.3.27) 39 0.0657995 Recombination protein RecR 39 0.0657995 D-amino acid dehydrogenaseFor Peer small subunit (EC Review 1.4.99.1) Only39 0.0657995 Arabinose 5-phosphate isomerase (EC 5.3.1.13) 39 0.0657995 Molybdopterin oxidoreductase (EC 1.2.7.-) 39 0.0657995 tRNA pseudouridine synthase B (EC 4.2.1.70) 39 0.0657995 Metallo-beta-lactamase family protein; RNA-specific 39 0.0657995 Quinone oxidoreductase (EC 1.6.5.5) 39 0.0657995 Outer membrane lipoprotein omp16 precursor 39 0.0657995 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) 39 0.0657995 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) 39 0.0657995 5'-nucleotidase (EC 3.1.3.5) 38 0.0641123 Tetraacyldisaccharide 4'-kinase (EC 2.7.1.130) 38 0.0641123 N-succinyl-L;L-diaminopimelate desuccinylase (EC 3.5.1.18) 38 0.0641123 Undecaprenyl pyrophosphate synthetase (EC 2.5.1.31) 38 0.0641123 Enoyl-[acyl-carrier-protein] reductase [NADH] (EC 1.3.1.9) 38 0.0641123 Anhydro-N-acetylmuramic acid kinase (EC 2.7.1.-) 38 0.0641123 Putative deoxyribonuclease YcfH 38 0.0641123 DNA recombination and repair protein RecF 38 0.0641123 SSU ribosomal protein S5p (S2e) 38 0.0641123 8-amino-7-oxononanoate synthase (EC 2.3.1.47) 38 0.0641123 Electron transfer flavoprotein; alpha subunit 38 0.0641123 Dihydroorotate dehydrogenase (EC 1.3.3.1) 38 0.0641123 N-acetylneuraminate synthase (EC 2.5.1.56) 38 0.0641123 DMSP demethylase (DmdA) (EC 2.1.2.10) 38 0.0641123 Glutathione S-transferase (EC 2.5.1.18) 38 0.0641123 Homoserine O-acetyltransferase (EC 2.3.1.31) 38 0.0641123 Ribonuclease III (EC 3.1.26.3) 37 0.0624251 Glucosamine-6-phosphate deaminase (EC 3.5.99.6) 37 0.0624251 FIG004453: protein YceG like 37 0.0624251 Pyridoxamine 5'-phosphate oxidase (EC 1.4.3.5) 37 0.0624251 Error-prone; lesion bypass DNA polymerase V (UmuC) 37 0.0624251 Arsenate reductase (EC 1.20.4.1) 37 0.0624251 Putative uncharacterized protein TTHA1760 37 0.0624251 3-demethylubiquinone-9 3-methyltransferase (EC 2.1.1.64) 37 0.0624251 Prolipoprotein diacylglyceryl transferase (EC 2.4.99.-) 37 0.0624251 Fumarylacetoacetase (EC 3.7.1.2) 37 0.0624251 Xanthine dehydrogenase; molybdenum binding subunit (EC 1.17.1.4) 37 0.0624251 Beta-ketoadipate enol-lactone hydrolase (EC 3.1.1.24) 37 0.0624251 Phage tail sheath monomer 37 0.0624251 Branched-chain alpha-keto acid dehydrogenase; E1 component; beta subunit (EC 1.2.4.4)37 0.0624251
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SSU ribosomal protein S3p (S3e) 37 0.0624251 L-serine dehydratase (EC 4.3.1.17) 37 0.0624251 Lipid A export ATP-binding/permease protein MsbA (EC 3.6.3.25) 37 0.0624251 Fumarylacetoacetate hydrolase family protein 37 0.0624251 Deoxyuridine 5'-triphosphate nucleotidohydrolase (EC 3.6.1.23) 36 0.060738 Adenine deaminase (EC 3.5.4.2) 36 0.060738 LSU ribosomal protein L2p (L8e) 36 0.060738 Cystathionine beta-synthase (EC 4.2.1.22) 36 0.060738 SSU ribosomal protein S12p (S23e) 36 0.060738 Pyruvate dehydrogenase E1 component alpha subunit (EC 1.2.4.1) 36 0.060738 Diphosphomevalonate decarboxylase (EC 4.1.1.33) 36 0.060738 HflK protein For Peer Review Only36 0.060738 Orotate phosphoribosyltransferase (EC 2.4.2.10) 36 0.060738 Soluble lytic murein transglycosylase precursor (EC 3.2.1.-) 36 0.060738 Transcriptional regulator; MerR family 36 0.060738 Heat shock protein GrpE 35 0.0590508 Translation elongation factor P 35 0.0590508 Exodeoxyribonuclease I (EC 3.1.11.1) 35 0.0590508 Manganese transport protein MntH 35 0.0590508 Ribosome small subunit-stimulated GTPase EngC 35 0.0590508 Lipoate synthase 35 0.0590508 Adenine-specific methyltransferase (EC 2.1.1.72) 35 0.0590508 Lipoprotein releasing system transmembrane protein LolC 35 0.0590508 Ornithine carbamoyltransferase (EC 2.1.3.3) 35 0.0590508 Histidine ammonia-lyase (EC 4.3.1.3) 35 0.0590508 L-proline glycine betaine binding ABC transporter protein ProX (TC 3.A.1.12.1) 35 0.0590508 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) 35 0.0590508 Type I restriction-modification system; restriction subunit R (EC 3.1.21.3) 35 0.0590508 Phosphate regulon transcriptional regulatory protein PhoB (SphR) 35 0.0590508 Biosynthetic Aromatic amino acid aminotransferase beta (EC 2.6.1.57) 35 0.0590508 Glycerol-3-phosphate ABC transporter; ATP-binding protein UgpC (TC 3.A.1.1.3) 35 0.0590508 Type I restriction-modification system; DNA-methyltransferase subunit M (EC 2.1.1.72) 35 0.0590508 Glycogen synthase; ADP-glucose transglucosylase (EC 2.4.1.21) 35 0.0590508 Glutamate--cysteine ligase (EC 6.3.2.2) 35 0.0590508 Phosphate starvation-inducible protein PhoH; predicted ATPase 35 0.0590508 Dihydrolipoamide dehydrogenase (EC 1.8.1.4) 35 0.0590508 LSU ribosomal protein L25p 34 0.0573636 Na(+)-translocating NADH-quinone reductase subunit B (EC 1.6.5.-) 34 0.0573636 Ubiquinol--cytochrome c reductase; cytochrome B subunit (EC 1.10.2.2) 34 0.0573636 HflC protein 34 0.0573636 Ribosomal large subunit pseudouridine synthase A (EC 4.2.1.70) 34 0.0573636 Septum site-determining protein MinD 34 0.0573636 Ribosomal RNA small subunit methyltransferase E (EC 2.1.1.-) 34 0.0573636 Single-stranded DNA-binding protein 34 0.0573636 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157) 34 0.0573636 2;4-dienoyl-CoA reductase [NADPH] (EC 1.3.1.34) 34 0.0573636 2;3;4;5-tetrahydropyridine-2;6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) 34 0.0573636 Cysteine synthase (EC 2.5.1.47) 34 0.0573636 Membrane fusion protein of RND family multidrug efflux pump 34 0.0573636 NAD synthetase (EC 6.3.1.5) 34 0.0573636
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Phosphate acetyltransferase (EC 2.3.1.8) 34 0.0573636 UDP-N-acetylglucosamine 2-epimerase (EC 5.1.3.14) 34 0.0573636 Glutamyl-tRNA(Gln) synthetase (EC 6.1.1.24) 34 0.0573636 Alternative cytochrome c oxidase polypeptide CoxP (EC 1.9.3.1) 33 0.0556765 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) 33 0.0556765 Formate dehydrogenase chain D (EC 1.2.1.2) 33 0.0556765 Phosphatidylserine decarboxylase (EC 4.1.1.65) 33 0.0556765 Membrane protein containing HD superfamily hydrolase domain; YQFF ortholog 33 0.0556765 Hypothetical radical SAM family enzyme; NOT coproporphyrinogen III oxidase; oxygen-independent33 0.0556765 Lipoprotein signal peptidase (EC 3.4.23.36) 33 0.0556765 Acetoacetyl-CoA synthetase (EC 6.2.1.16) 33 0.0556765 TldE/PmbA protein;For part of proposedPeer TldE/TldD Review proteolytic complex (PMID Only 12029038) 33 0.0556765 Na+/H+ antiporter NhaD type 33 0.0556765 Ribonuclease Z (EC 3.1.26.11) 33 0.0556765 ATP synthase delta chain (EC 3.6.3.14) 33 0.0556765 L-aspartate oxidase (EC 1.4.3.16) 33 0.0556765 dTDP-4-dehydrorhamnose 3;5-epimerase (EC 5.1.3.13) 33 0.0556765 NAD(P) transhydrogenase alpha subunit (EC 1.6.1.2) 33 0.0556765 5-nucleotidase SurE (EC 3.1.3.5) 33 0.0556765 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphate synthase II (EC 2.5.1.54) 33 0.0556765 Twin-arginine translocation protein TatC 33 0.0556765 ATP synthase B chain (EC 3.6.3.14) 33 0.0556765 Putrescine transport ATP-binding protein PotA (TC 3.A.1.11.1) 33 0.0556765 TRAP-type uncharacterized transport system; fused permease component 33 0.0556765 ATP-dependent Clp protease ATP-binding subunit ClpA 33 0.0556765 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) 33 0.0556765 Propionate--CoA ligase (EC 6.2.1.17) 33 0.0556765 Fructose-1;6-bisphosphatase; type I (EC 3.1.3.11) 33 0.0556765 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) 33 0.0556765 Transketolase; C-terminal section (EC 2.2.1.1) 32 0.0539893 Saccharopine dehydrogenase [NADP ; L-glutamate-forming] (EC 1.5.1.10) 32 0.0539893 Acyl carrier protein 32 0.0539893 Ferredoxin 32 0.0539893 DNA topoisomerase III (EC 5.99.1.2) 32 0.0539893 Aminopeptidase YpdF (MP-; MA-; MS-; AP-; NP- specific) 32 0.0539893 LSU ribosomal protein L21p 32 0.0539893 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC 1.17.1.2) 32 0.0539893 SSU ribosomal protein S8p (S15Ae) 32 0.0539893 Nitrite reductase probable [NAD(P)H] subunit (EC 1.7.1.4) 32 0.0539893 Ferric iron ABC transporter; iron-binding protein 32 0.0539893 Dimethyladenosine transferase (EC 2.1.1.-) 32 0.0539893 Glutamine synthetase type II; eukaryotic (EC 6.3.1.2) 32 0.0539893 tRNA delta(2)-isopentenylpyrophosphate transferase (EC 2.5.1.8) 32 0.0539893 DNA polymerase III beta subunit (EC 2.7.7.7) 32 0.0539893 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) 32 0.0539893 Transcription accessory protein (S1 RNA-binding domain) 32 0.0539893 ATP-dependent hsl protease ATP-binding subunit HslU 32 0.0539893 LSU ribosomal protein L5p (L11e) 32 0.0539893 UDP-N-acetylenolpyruvoylglucosamine reductase (EC 1.1.1.158) 32 0.0539893 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphate synthase I beta (EC 2.5.1.54) 32 0.0539893
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2-Keto-3-deoxy-D-manno-octulosonate-8-phosphate synthase (EC 2.5.1.55) 32 0.0539893 Cystathionine gamma-lyase (EC 4.4.1.1) 32 0.0539893 Protein YicC 32 0.0539893 Asparaginyl-tRNA synthetase (EC 6.1.1.22) 31 0.0523021 Cytochrome c-type biogenesis protein CcmG/DsbE; thiol:disulfide oxidoreductase 31 0.0523021 Peptidyl-prolyl cis-trans isomerase ppiD (EC 5.2.1.8) 31 0.0523021 Sporulation initiation inhibitor protein Soj 31 0.0523021 Nicotinate-nucleotide adenylyltransferase (EC 2.7.7.18) 31 0.0523021 Pantothenate kinase type III; CoaX-like (EC 2.7.1.33) 31 0.0523021 Cell division transporter; ATP-binding protein FtsE (TC 3.A.5.1.1) 31 0.0523021 Ubiquinone/menaquinone biosynthesis methyltransferase UbiE (EC 2.1.1.-) 31 0.0523021 Holliday junctionFor DNA helicase Peer RuvA Review Only31 0.0523021 Autolysis response regulater LytR 31 0.0523021 Metal-dependent hydrolases of the beta-lactamase superfamily I 31 0.0523021 Cell division inhibitor 31 0.0523021 Hypothetical protein YggS; proline synthase co-transcribed bacterial homolog PROSC 31 0.0523021 UDP-N-acetylglucosamine 4;6-dehydratase (EC 4.2.1.-) 31 0.0523021 LSU ribosomal protein L17p 31 0.0523021 Methionine ABC transporter ATP-binding protein 31 0.0523021 diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s)31 0.0523021 Uridylate kinase (EC 2.7.4.-) 31 0.0523021 2-methylcitrate dehydratase (EC 4.2.1.79) 30 0.050615 Nucleoside permease NupC 30 0.050615 Glutamine amidotransferase protein GlxB (EC 2.4.2.-) 30 0.050615 N-acetylglucosamine-1-phosphate uridyltransferase (EC 2.7.7.23) 30 0.050615 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase (EC 2.2.1.9)30 0.050615 Putative stomatin/prohibitin-family membrane protease subunit YbbK 30 0.050615 Transketolase (EC 2.2.1.1) 30 0.050615 Ferrous iron transport protein B 30 0.050615 SSU ribosomal protein S4p (S9e) 30 0.050615 Ribosome recycling factor 30 0.050615 C-terminal domain of CinA type S 30 0.050615 Ribosomal large subunit pseudouridine synthase B (EC 4.2.1.70) 30 0.050615 Acetolactate synthase small subunit (EC 2.2.1.6) 30 0.050615 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) 30 0.050615 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) 30 0.050615 Lycopene beta cyclase (EC 1.14.-.-) 30 0.050615 NG;NG-dimethylarginine dimethylaminohydrolase 1 (EC 3.5.3.18) 30 0.050615 Formyltetrahydrofolate deformylase (EC 3.5.1.10) 30 0.050615 UDP-2;3-diacylglucosamine hydrolase (EC 3.6.1.-) 30 0.050615 ABC-type multidrug transport system; permease component 30 0.050615 Alpha-glucosidase; family 31 of glycosyl hydrolases; COG1501 30 0.050615 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) 30 0.050615 GDP-L-fucose synthetase (EC 1.1.1.271) 30 0.050615 TolA protein 29 0.0489278 Cytidylate kinase (EC 2.7.4.14) 29 0.0489278 Inactive homolog of metal-dependent proteases; putative molecular chaperone 29 0.0489278 Transcription termination protein NusB 29 0.0489278 Tricarboxylate transport membrane protein TctA 29 0.0489278 Hydrogen peroxide-inducible genes activator 29 0.0489278
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Biotin-protein ligase (EC 6.3.4.15) 29 0.0489278 ATP-dependent RNA helicase YqfR 29 0.0489278 LSU ribosomal protein L10p (P0) 29 0.0489278 alternate gene name: yzbB 29 0.0489278 Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) 29 0.0489278 Homogentisate 1;2-dioxygenase (EC 1.13.11.5) 29 0.0489278 Alkyl hydroperoxide reductase subunit C-like protein 29 0.0489278 Low-specificity L-threonine aldolase (EC 4.1.2.5) 29 0.0489278 Electron transfer flavoprotein-ubiquinone oxidoreductase (EC 1.5.5.1) 29 0.0489278 Aldehyde dehydrogenase A (EC 1.2.1.22) 28 0.0472406 Histidinol-phosphate aminotransferase (EC 2.6.1.9) 28 0.0472406 Allophanate hydrolaseFor 2 subunit Peer 2 (EC 3.5.1.54) Review Only28 0.0472406 Aminopeptidase Y (Arg; Lys; Leu preference) (EC 3.4.11.15) 28 0.0472406 Uroporphyrinogen-III synthase; divergent; Flavobacterial type (EC 4.2.1.75) 28 0.0472406 Cytochrome c551 peroxidase (EC 1.11.1.5) 28 0.0472406 Proline dehydrogenase (EC 1.5.99.8) (Proline oxidase) 28 0.0472406 Glycine cleavage system H protein 28 0.0472406 Sensory subunit of low CO2-induced protein complex; putative 28 0.0472406 Porphobilinogen deaminase (EC 2.5.1.61) 28 0.0472406 Manganese ABC transporter; inner membrane permease protein SitC 28 0.0472406 Phenylalanine-4-hydroxylase (EC 1.14.16.1) - Long 28 0.0472406 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) 28 0.0472406 Fe-S oxidoreductase-like protein in Rubrerythrin cluster 28 0.0472406 L-threonine 3-dehydrogenase (EC 1.1.1.103) 28 0.0472406 Unspecified gene from subsystem ZZ_gjo_need_homes 28 0.0472406 N-acetyl-L;L-diaminopimelate deacetylase (EC 3.5.1.47) 28 0.0472406 Thymidine kinase (EC 2.7.1.21) 28 0.0472406 Branched-chain acyl-CoA dehydrogenase (EC 1.3.99.12) 28 0.0472406 Mevalonate kinase (EC 2.7.1.36) 28 0.0472406 Fructose-bisphosphate aldolase class II (EC 4.1.2.13) 28 0.0472406 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.-) 28 0.0472406 Aminoacyl-histidine dipeptidase (Peptidase D) (EC 3.4.13.3) 28 0.0472406 LSU ribosomal protein L4p (L1e) 28 0.0472406 FIGfam135315: Iojap-related protein 27 0.0455535 2-methylisocitrate dehydratase (EC 4.2.1.99) 27 0.0455535 6;7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.9) 27 0.0455535 Carboxyl-terminal protease (EC 3.4.21.102) 27 0.0455535 Phosphatidate cytidylyltransferase (EC 2.7.7.41) 27 0.0455535 RND efflux system; outer membrane lipoprotein CmeC 27 0.0455535 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) 27 0.0455535 Lactam utilization protein LamB 27 0.0455535 Ferredoxin; 2Fe-2S 27 0.0455535 Nucleoside 5-triphosphatase RdgB (dHAPTP; dITP; XTP-specific) (EC 3.6.1.15) 27 0.0455535 Carbonic anhydrase (EC 4.2.1.1) 27 0.0455535 NADH-ubiquinone oxidoreductase chain H (EC 1.6.5.3) 27 0.0455535 3-dehydroquinate dehydratase II (EC 4.2.1.10) 27 0.0455535 Ribosomal RNA small subunit methyltransferase D (EC 2.1.1.-) 27 0.0455535 ATP-dependent DNA helicase; RecQ family 27 0.0455535 MiaB family protein; possibly involved in tRNA or rRNA modification 27 0.0455535 Ammonium transporter family 27 0.0455535
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DNA polymerase III delta subunit (EC 2.7.7.7) 27 0.0455535 Adenylylsulfate kinase (EC 2.7.1.25) 27 0.0455535 Aminodeoxychorismate lyase (EC 4.1.3.38) 27 0.0455535 ubiquinol cytochrome C oxidoreductase; cytochrome C1 subunit 27 0.0455535 Transcription antitermination protein NusG 27 0.0455535 Ribosomal protein L11 methyltransferase (EC 2.1.1.-) 27 0.0455535 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) 27 0.0455535 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) 26 0.0438663 Uroporphyrinogen-III synthase (EC 4.2.1.75) 26 0.0438663 Riboflavin synthase alpha chain (EC 2.5.1.9) 26 0.0438663 Large exoproteins involved in heme utilization or adhesion 26 0.0438663 3'(2');5'-bisphosphateFor nucleotidase Peer (EC 3.1.3.7) Review Only26 0.0438663 Ribosomal protein S12p Asp88 (E. coli) methylthiotransferase 26 0.0438663 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) 26 0.0438663 Guanylate kinase (EC 2.7.4.8) 26 0.0438663 Dephospho-CoA kinase (EC 2.7.1.24) 26 0.0438663 TonB-dependent siderophore receptor 26 0.0438663 Transaldolase (EC 2.2.1.2) 26 0.0438663 Sensor histidine kinase ChvG (EC 2.7.3.-) 26 0.0438663 Quinolinate synthetase (EC 2.5.1.72) 26 0.0438663 Lipopolysaccharide ABC transporter; ATP-binding protein LptB 26 0.0438663 2-octaprenyl-3-methyl-6-methoxy-1;4-benzoquinol hydroxylase (EC 1.14.13.-) 26 0.0438663 Transamidase GatB domain protein 26 0.0438663 LSU ribosomal protein L3p (L3e) 26 0.0438663 Succinate dehydrogenase cytochrome b subunit 26 0.0438663 CDP-diacylglycerol--serine O-phosphatidyltransferase (EC 2.7.8.8) 26 0.0438663 16S rRNA processing protein RimM 26 0.0438663 Cystathionine beta-lyase (EC 4.4.1.8) 26 0.0438663 Sodium/glycine symporter GlyP 26 0.0438663 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) 26 0.0438663 Xanthine/uracil/thiamine/ascorbate permease family protein 26 0.0438663 DNA polymerase III delta prime subunit (EC 2.7.7.7) 26 0.0438663 Phosphoserine aminotransferase (EC 2.6.1.52) 26 0.0438663 SSU ribosomal protein S11p (S14e) 26 0.0438663 Glutamate synthase [NADPH] putative GlxC chain (EC 1.4.1.13) 26 0.0438663 Proline/sodium symporter PutP (TC 2.A.21.2.1) 26 0.0438663 Mannose-1-phosphate guanylyltransferase (GDP) (EC 2.7.7.22) 26 0.0438663 SSU ribosomal protein S13p (S18e) 25 0.0421791 Dihydrofolate reductase (EC 1.5.1.3) 25 0.0421791 Phosphopantetheine adenylyltransferase (EC 2.7.7.3) 25 0.0421791 LSU ribosomal protein L16p (L10e) 25 0.0421791 Sodium/glutamate symport protein 25 0.0421791 TPR repeat containing exported protein 25 0.0421791 Ferric iron ABC transporter; permease protein 25 0.0421791 Serine acetyltransferase (EC 2.3.1.30) 25 0.0421791 Thiamin-phosphate pyrophosphorylase (EC 2.5.1.3) 25 0.0421791 Tryptophan 2;3-dioxygenase (EC 1.13.11.11) 25 0.0421791 Aerobic respiration control sensor protein arcB (EC 2.7.3.-) 25 0.0421791 Queuosine biosynthesis QueD; PTPS-I 25 0.0421791 Phosphoribosylaminoimidazole carboxylase catalytic subunit (EC 4.1.1.21) 25 0.0421791
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Formamidopyrimidine-DNA glycosylase (EC 3.2.2.23) 25 0.0421791 Spermidine synthase (EC 2.5.1.16) 25 0.0421791 SSU ribosomal protein S7p (S5e) 25 0.0421791 Ribonuclease BN (EC 3.1.-.-) 25 0.0421791 NADH dehydrogenase (EC 1.6.99.3) 25 0.0421791 Ribose ABC transport system; permease protein RbsC (TC 3.A.1.2.1) 25 0.0421791 Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) (EC 3.6.1.17) 25 0.0421791 macromolecule synthesis; modification 25 0.0421791 Glutaryl-CoA dehydrogenase (EC 1.3.99.7) 25 0.0421791 SSU ribosomal protein S15p (S13e) 25 0.0421791 DNA recombination and repair protein RecO 25 0.0421791 Septum formationFor protein MafPeer Review Only25 0.0421791 GbcA Glycine betaine demethylase subunit A 25 0.0421791 Cell division protein MraZ 25 0.0421791 Saccharopine dehydrogenase (EC 1.5.1.9) 25 0.0421791 Cell division protein FtsQ 25 0.0421791 4-hydroxybenzoate polyprenyltransferase (EC 2.5.1.-) 25 0.0421791 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) 25 0.0421791 Formiminoglutamase (EC 3.5.3.8) 25 0.0421791 Glycosyl transferase; group 1 family protein 25 0.0421791 Fructose-1;6-bisphosphatase; GlpX type (EC 3.1.3.11) 25 0.0421791 Chitinase (EC 3.2.1.14) 25 0.0421791 Cell division protein FtsX 24 0.040492 Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) 24 0.040492 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (EC 2.7.1.148) 24 0.040492 Methylisocitrate lyase (EC 4.1.3.30) 24 0.040492 Glycerol-3-phosphate cytidylyltransferase (EC 2.7.7.39) 24 0.040492 Glucose-1-phosphate adenylyltransferase (EC 2.7.7.27) 24 0.040492 Cytochrome c heme lyase subunit CcmF 24 0.040492 Rossmann fold nucleotide-binding protein Smf possibly involved in DNA uptake 24 0.040492 Pirin-related protein; coexpressed with pyoverdine biosynthesis regulon 24 0.040492 Putative cytochrome c-type biogenesis protein related to CcmF 24 0.040492 Uridine kinase (EC 2.7.1.48) 24 0.040492 Putative periplasmic phosphate-binding protein PstS (Mycoplasma type) 24 0.040492 Glycerol kinase (EC 2.7.1.30) 24 0.040492 Fructose-bisphosphate aldolase class I (EC 4.1.2.13) 24 0.040492 Cytosine/purine/uracil/thiamine/allantoin permease family protein 24 0.040492 Beta-mannosidase (EC 3.2.1.25) 24 0.040492 Alanine racemase (EC 5.1.1.1) 24 0.040492 D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster24 0.040492 Rhodanese-like domain protein 24 0.040492 Pterin-4-alpha-carbinolamine dehydratase (EC 4.2.1.96) 24 0.040492 Aspartate racemase (EC 5.1.1.13) 24 0.040492 Glycolate dehydrogenase (EC 1.1.99.14); subunit GlcD 24 0.040492 Transcription elongation factor GreA 24 0.040492 Isoquinoline 1-oxidoreductase alpha subunit (EC 1.3.99.16) 24 0.040492 Hypothetical protein PvdX 24 0.040492 Phosphoglycerate mutase (EC 5.4.2.1) 24 0.040492 ABC-type Fe3+ transport system protein 24 0.040492 Shikimate kinase I (EC 2.7.1.71) 24 0.040492
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Pyruvate dehydrogenase E1 component beta subunit (EC 1.2.4.1) 24 0.040492 Malate synthase (EC 2.3.3.9) 24 0.040492 Dihydroflavonol-4-reductase (EC 1.1.1.219) 24 0.040492 Acetate kinase (EC 2.7.2.1) 24 0.040492 Flagellar motor rotation protein MotB 24 0.040492 AmpG permease 24 0.040492 SusD; outer membrane protein 23 0.0388048 ADP-heptose synthase (EC 2.7.-.-) 23 0.0388048 Beta-carotene hydroxylase 23 0.0388048 Oligopeptide ABC transporter; periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1)23 0.0388048 UPF0246 protein YaaA 23 0.0388048 D-tyrosyl-tRNA(Tyr)For deacylase Peer Review Only23 0.0388048 Magnesium and cobalt efflux protein CorC 23 0.0388048 Alternative cytochrome c oxidase polypeptide CoxN (EC 1.9.3.1) 23 0.0388048 LSU ribosomal protein L1p (L10Ae) 23 0.0388048 Cold shock protein CspG 23 0.0388048 Thiol peroxidase; Bcp-type (EC 1.11.1.15) 23 0.0388048 LSU ribosomal protein L6p (L9e) 23 0.0388048 1-deoxy-D-xylulose 5-phosphate reductoisomerase (EC 1.1.1.267) 23 0.0388048 Inorganic pyrophosphatase (EC 3.6.1.1) 23 0.0388048 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) 23 0.0388048 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase (EC 3.5.1.-) 23 0.0388048 Naphthoate synthase (EC 4.1.3.36) 23 0.0388048 N-Acetylneuraminate cytidylyltransferase (EC 2.7.7.43) 23 0.0388048 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) 23 0.0388048 tRNA dihydrouridine synthase A (EC 1.-.-.-) 23 0.0388048 Oxidoreductase; short-chain dehydrogenase/reductase family (EC 1.1.1.-) 23 0.0388048 Taurine-binding periplasmic protein TauA 23 0.0388048 Octaprenyl-diphosphate synthase (EC 2.5.1.-) 23 0.0388048 Glutathione synthetase (EC 6.3.2.3) 23 0.0388048 Na(+)-translocating NADH-quinone reductase subunit E (EC 1.6.5.-) 23 0.0388048 Internalin-like protein (LPXTG motif) Lmo0331 homolog 23 0.0388048 Predictet Brp-like protein Blh 23 0.0388048 Deoxyhypusine synthase 23 0.0388048 Carotenoid cis-trans isomerase (EC 5.2.-.-) 23 0.0388048 Type I secretion outer membrane protein; TolC precursor 22 0.0371176 Cyclopropane-fatty-acyl-phospholipid synthase (EC 2.1.1.79) 22 0.0371176 LSU ribosomal protein L7/L12 (P1/P2) 22 0.0371176 Glutathione-regulated potassium-efflux system ATP-binding protein 22 0.0371176 Biotin carboxyl carrier protein of acetyl-CoA carboxylase 22 0.0371176 SSU ribosomal protein S14p (S29e) 22 0.0371176 Periplasmic thiol:disulfide interchange protein DsbA 22 0.0371176 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) 22 0.0371176 Phytochrome; two-component sensor histidine kinase (EC 2.7.3.-) 22 0.0371176 Molybdopterin biosynthesis protein MoeA 22 0.0371176 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) 22 0.0371176 Guanine deaminase (EC 3.5.4.3) 22 0.0371176 Serine phosphatase RsbU; regulator of sigma subunit 22 0.0371176 Ribonuclease E (EC 3.1.26.12) 22 0.0371176 Microsomal dipeptidase (EC 3.4.13.19) 22 0.0371176
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Betaine aldehyde dehydrogenase (EC 1.2.1.8) 22 0.0371176 Glutamate racemase (EC 5.1.1.3) 22 0.0371176 LSU ribosomal protein L27p 22 0.0371176 IMP cyclohydrolase (EC 3.5.4.10) 22 0.0371176 DNA-binding response regulator ChvI 22 0.0371176 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (EC 2.7.8.5) 22 0.0371176 Ferric siderophore transport system; periplasmic binding protein TonB 22 0.0371176 Alpha-ketoglutarate-dependent taurine dioxygenase (EC 1.14.11.17) 22 0.0371176 Glycyl-tRNA synthetase alpha chain (EC 6.1.1.14) 22 0.0371176 Creatinase (EC 3.5.3.3) 22 0.0371176 S-adenosyl-L-methionine dependent methyltransferase; similar to cyclopropane-fatty-acyl-phospholipid22 0.0371176 synthase Hypothetical membraneFor protein; Peer possible involvement Review in cytochrome functioning/assembly Only22 0.0371176 Spermidine Putrescine ABC transporter permease component PotB (TC 3.A.1.11.1) 22 0.0371176 Dipeptide transport system permease protein DppC (TC 3.A.1.5.2) 22 0.0371176 Glycolate dehydrogenase (EC 1.1.99.14); iron-sulfur subunit GlcF 21 0.0354305 Glycerol-3-phosphate ABC transporter; permease protein UgpA (TC 3.A.1.1.3) 21 0.0354305 Exopolyphosphatase (EC 3.6.1.11) 21 0.0354305 FIG000859: hypothetical protein 21 0.0354305 1;4-alpha-glucan (glycogen) branching enzyme; GH-13-type (EC 2.4.1.18) 21 0.0354305 Deoxyribose-phosphate aldolase (EC 4.1.2.4) 21 0.0354305 COG1565: Uncharacterized conserved protein 21 0.0354305 Muconate cycloisomerase (EC 5.5.1.1) 21 0.0354305 Nitrogen regulation protein NR(I) 21 0.0354305 Di/tripeptide permease YjdL 21 0.0354305 L-allo-threonine aldolase (EC 2.1.2.1) 21 0.0354305 COG0779: clustered with transcription termination protein NusA 21 0.0354305 Ribosome-binding factor A 21 0.0354305 ADP-heptose--lipooligosaccharide heptosyltransferase II (EC 2.4.1.-) 21 0.0354305 Prephenate and/or arogenate dehydrogenase (unknown specificity) (EC 1.3.1.12)(EC 1.3.1.43)21 0.0354305 tmRNA-binding protein SmpB 21 0.0354305 Glutathione reductase (EC 1.8.1.7) 21 0.0354305 FIG001571: Hypothetical protein 21 0.0354305 Major facilitator superfamily (MFS) transporter 21 0.0354305 Manganese superoxide dismutase (EC 1.15.1.1) 21 0.0354305 Methylated-DNA--protein-cysteine methyltransferase (EC 2.1.1.63) 21 0.0354305 Signal peptidase-like protein 21 0.0354305 LSU ribosomal protein L18p (L5e) 21 0.0354305 tRNA-specific adenosine-34 deaminase (EC 3.5.4.-) 21 0.0354305 Protein-L-isoaspartate O-methyltransferase (EC 2.1.1.77) 21 0.0354305 Heavy metal RND efflux outer membrane protein; CzcC family 21 0.0354305 Potassium voltage-gated channel subfamily KQT 21 0.0354305 ClpB protein 21 0.0354305 Mannose-6-phosphate isomerase (EC 5.3.1.8) 21 0.0354305 Galactose-1-phosphate uridylyltransferase (EC 2.7.7.10) 21 0.0354305 Enoyl-[acyl-carrier-protein] reductase [FMN] (EC 1.3.1.9) 20 0.0337433 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent20 0.0337433 protein kinases 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) 20 0.0337433 Muramoyltetrapeptide carboxypeptidase (EC 3.4.17.13) 20 0.0337433 SusC; outer membrane protein involved in starch binding 20 0.0337433 SSU ribosomal protein S10p (S20e) 20 0.0337433
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LSU ribosomal protein L11p (L12e) 20 0.0337433 Phosphoenolpyruvate synthase (EC 2.7.9.2) 20 0.0337433 Predicted 4-hydroxyproline dipeptidase 20 0.0337433 Dihydroneopterin aldolase (EC 4.1.2.25) 20 0.0337433 Ribose 5-phosphate isomerase B (EC 5.3.1.6) 20 0.0337433 Error-prone repair protein UmuD 20 0.0337433 Hypothetical protein i Rubrerythrin cluster 20 0.0337433 LSU ribosomal protein L14p (L23e) 20 0.0337433 Aquaporin Z 20 0.0337433 XdhC protein (assists in molybdopterin insertion into xanthine dehydrogenase) 20 0.0337433 Predicted secreted alpha-N-acetylgalactosaminidase (EC 3.2.1.49) 20 0.0337433 Beta-glucosidaseFor (EC 3.2.1.21) Peer Review Only20 0.0337433 Acetyl-CoA synthetase (ADP-forming) alpha and beta chains; putative 20 0.0337433 RecD-like DNA helicase Atu2026 20 0.0337433 NAD-dependent epimerase/dehydratase 19 0.0320561 4-hydroxybenzoyl-CoA thioesterase family active site 19 0.0320561 Kynurenine 3-monooxygenase (EC 1.14.13.9) 19 0.0320561 FIG146085: 3'-to-5' oligoribonuclease A; Bacillus type 19 0.0320561 Manganese ABC transporter; periplasmic-binding protein SitA 19 0.0320561 Malate synthase G (EC 2.3.3.9) 19 0.0320561 Protein of unknown function DUF81 19 0.0320561 Manganese ABC transporter; inner membrane permease protein SitD 19 0.0320561 Chalcone synthase (EC 2.3.1.74) 19 0.0320561 SSU ribosomal protein S9p (S16e) 19 0.0320561 4Fe-4S ferredoxin; iron-sulfur binding 19 0.0320561 N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25) 19 0.0320561 Type I restriction-modification system; specificity subunit S (EC 3.1.21.3) 19 0.0320561 LSU m3Psi1915 methyltransferase RlmH 19 0.0320561 Ribonuclease P protein component (EC 3.1.26.5) 19 0.0320561 Monoglyceride lipase (EC 3.1.1.23) 19 0.0320561 Isochorismate synthase (EC 5.4.4.2) 19 0.0320561 FIG005069: Hypothetical protein 19 0.0320561 photosystem II protein D1 (PsbA) 19 0.0320561 Kynureninase (EC 3.7.1.3) 19 0.0320561 Uracil phosphoribosyltransferase (EC 2.4.2.9) 19 0.0320561 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) 19 0.0320561 Na+/H+ antiporter NhaA type 19 0.0320561 Homocysteine S-methyltransferase (EC 2.1.1.10) 19 0.0320561 Deoxyguanosine kinase (EC 2.7.1.113) 19 0.0320561 3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase (EC 4.2.1.60) 19 0.0320561 Alpha-1;3-N-acetylgalactosamine transferase PglA (EC 2.4.1.-) 19 0.0320561 Cysteine desulfurase (EC 2.8.1.7); IscS subfamily 18 0.030369 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) 18 0.030369 Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70) 18 0.030369 N-acetyl glucosamine transporter; NagP 18 0.030369 SSU ribosomal protein S20p 18 0.030369 Sodium-dependent phosphate transporter 18 0.030369 Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5) 18 0.030369 Na(+)-translocating NADH-quinone reductase subunit C (EC 1.6.5.-) 18 0.030369 photosystem I P700 chlorophyll a apoprotein subunit Ib (PsaB) 18 0.030369
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Dna binding response regulator PrrA (RegA) 18 0.030369 GMP reductase (EC 1.7.1.7) 18 0.030369 2-octaprenyl-6-methoxyphenol hydroxylase (EC 1.14.13.-) 18 0.030369 UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase (EC 2.6.1.-) 18 0.030369 Uracil-DNA glycosylase; family 1 18 0.030369 5'-nucleotidase YjjG (EC 3.1.3.5) 18 0.030369 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphate synthase I alpha (EC 2.5.1.54) 18 0.030369 Potassium channel protein 18 0.030369 Ribulose bisphosphate carboxylase large chain (EC 4.1.1.39) 18 0.030369 Phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) 18 0.030369 DNA-directed RNA polymerase II second largest subunit (EC 2.7.7.6) 18 0.030369 FIG000233: metal-dependentFor Peer hydrolase Review Only18 0.030369 D-glycerate 3-kinase (EC 2.7.1.31); plant type 18 0.030369 Putative Holliday junction resolvase (EC 3.1.-.-) 18 0.030369 Ferric uptake regulation protein FUR 18 0.030369 LSU ribosomal protein L20p 18 0.030369 2-hydroxy-6-oxo-6-phenylhexa-2;4-dienoate hydrolase (EC 3.7.1.-) 18 0.030369 Biotin synthase (EC 2.8.1.6) 18 0.030369 Sodium/myo-inositol cotransporter 18 0.030369 Vitamin B12 ABC transporter; B12-binding component BtuF 18 0.030369 Segregation and condensation protein B 18 0.030369 DNA-binding protein HU-beta 18 0.030369 Ferredoxin--sulfite reductase (EC 1.8.7.1) 18 0.030369 Choline-sulfatase (EC 3.1.6.6) 18 0.030369 ATPase; AFG1 family 18 0.030369 Fructokinase (EC 2.7.1.4) 18 0.030369 Chaperone protein HscA 18 0.030369 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (EC 6.3.2.-)18 0.030369 1;4-dihydroxy-2-naphthoate octaprenyltransferase (EC 2.5.1.74) 18 0.030369 Cytochrome c-type biogenesis protein CcmE; heme chaperone 17 0.0286818 Dihydropyrimidinase (EC 3.5.2.2) 17 0.0286818 Aerobic glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) 17 0.0286818 LSU ribosomal protein L9p 17 0.0286818 ATPase YjeE; predicted to have essential role in cell wall biosynthesis 17 0.0286818 ATP-dependent DNA helicase pcrA (EC 3.6.1.-) 17 0.0286818 Inner membrane protein YrbG; predicted calcium/sodium:proton antiporter 17 0.0286818 Acyl-CoA dehydrogenase; short-chain specific (EC 1.3.99.2) 17 0.0286818 4-hydroxyproline epimerase (EC 5.1.1.8) 17 0.0286818 TrmH family tRNA/rRNA methyltransferase YacO (EC 2.1.1.-) 17 0.0286818 SSU ribosomal protein S18p 17 0.0286818 Phage tail fibers 17 0.0286818 Salicylate hydroxylase (EC 1.14.13.1) 17 0.0286818 DNA-3-methyladenine glycosylase (EC 3.2.2.20) 17 0.0286818 Segregation and condensation protein A 17 0.0286818 Acylamino-acid-releasing enzyme (EC 3.4.19.1) 17 0.0286818 2;3;4;5-tetrahydropyridine-2;6-dicarboxylate N-acetyltransferase (EC 2.3.1.89) 17 0.0286818 Uracil-DNA glycosylase; family 4 17 0.0286818 Ferredoxin--NADP(+) reductase (EC 1.18.1.2) 17 0.0286818 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) 17 0.0286818 Acyl dehydratase 17 0.0286818
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FolM Alternative dihydrofolate reductase 1 17 0.0286818 Alkylphosphonate utilization operon protein PhnA 17 0.0286818 Putative NADP-dependent oxidoreductase PA1648 17 0.0286818 phosphotransbutyrylase (EC 2.3.1.19) 17 0.0286818 Na(+)-translocating NADH-quinone reductase subunit D (EC 1.6.5.-) 17 0.0286818 Deacetylases; including yeast histone deacetylase and acetoin utilization protein 17 0.0286818 SSU ribosomal protein S16p 17 0.0286818 Spermidine Putrescine ABC transporter permease component potC (TC_3.A.1.11.1) 17 0.0286818 Ornithine aminotransferase (EC 2.6.1.13) 16 0.0269947 Allophanate hydrolase 2 subunit 1 (EC 3.5.1.54) 16 0.0269947 Peptidase M48; Ste24p precursor 16 0.0269947 SSU ribosomal Forprotein S19p (S15e)Peer Review Only16 0.0269947 Ferric iron ABC transporter; ATP-binding protein 16 0.0269947 SSU ribosomal protein S6p 16 0.0269947 RNA polymerase sigma factor RpoH 16 0.0269947 Cytidine deaminase (EC 3.5.4.5) 16 0.0269947 Hypothetical nudix hydrolase YeaB 16 0.0269947 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase (EC 3.1.3.45) 16 0.0269947 Isopentenyl-diphosphate delta-isomerase (EC 5.3.3.2) 16 0.0269947 glutamine synthetase family protein 16 0.0269947 Glucans biosynthesis protein C (EC 2.1.-.-) 16 0.0269947 Phosphate:acyl-ACP acyltransferase PlsX 16 0.0269947 Archaeal DNA polymerase I (EC 2.7.7.7) 16 0.0269947 ABC-type polar amino acid transport system; ATPase component 16 0.0269947 RNA pseudouridylate synthase; group 1 16 0.0269947 Copper-translocating P-type ATPase (EC 3.6.3.4) 16 0.0269947 GTP-binding protein EngB 16 0.0269947 GTP pyrophosphokinase (EC 2.7.6.5); (p)ppGpp synthetase I 16 0.0269947 NAD-dependent formate dehydrogenase (EC 1.2.1.2) 16 0.0269947 3-polyprenyl-4-hydroxybenzoate carboxy-lyase (EC 4.1.1.-) 16 0.0269947 Serine--glyoxylate aminotransferase (EC 2.6.1.45) 16 0.0269947 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) 16 0.0269947 Ornithine cyclodeaminase (EC 4.3.1.12) 16 0.0269947 Beta-hexosaminidase (EC 3.2.1.52) 16 0.0269947 Phosphoglycerol transferase I (EC 2.7.8.20) 16 0.0269947 Dipeptide-binding ABC transporter; periplasmic substrate-binding component (TC 3.A.1.5.2)16 0.0269947 Malate Na(+) symporter 16 0.0269947 Adenine phosphoribosyltransferase (EC 2.4.2.7) 16 0.0269947 NADH-ubiquinone oxidoreductase chain I (EC 1.6.5.3) 16 0.0269947 ApaG protein 16 0.0269947 Integration host factor alpha subunit 16 0.0269947 Dipeptidyl peptidase IV in 4-hydroxyproline catabolic gene cluster 16 0.0269947 LSU ribosomal protein L35p 16 0.0269947 Phospholipid-lipopolysaccharide ABC transporter 16 0.0269947 4-keto-6-deoxy-N-Acetyl-D-hexosaminyl-(Lipid carrier) aminotransferase 16 0.0269947 O-succinylbenzoate-CoA synthase (EC 4.2.1.-) 16 0.0269947 Fucose permease 16 0.0269947 ATP phosphoribosyltransferase catalytic subunit (EC 2.4.2.17) 16 0.0269947 Transcription regulator [contains diacylglycerol kinase catalytic domain] 16 0.0269947 Nucleoside triphosphate pyrophosphohydrolase MazG 16 0.0269947
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Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-) 15 0.0253075 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) 15 0.0253075 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) 15 0.0253075 Glycerol-3-phosphate ABC transporter; periplasmic glycerol-3-phosphate-binding protein15 (TC 3.A.1.1.3)0.0253075 Xaa-Pro dipeptidyl-peptidase (EC 3.4.14.11) 15 0.0253075 Transcriptional regulator; IclR family 15 0.0253075 Leucine-responsive regulatory protein; regulator for leucine (or lrp) regulon and high-affinity15 branched-chain0.0253075 amino acid transport system Di-/tripeptide transporter 15 0.0253075 Taurine transport system permease protein TauC 15 0.0253075 Competence protein F homolog; phosphoribosyltransferase domain 15 0.0253075 Autolysis histidine kinase LytS 15 0.0253075 Universal stressFor protein family Peer Review Only15 0.0253075 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (EC 2.7.7.60) 15 0.0253075 Various polyols ABC transporter; periplasmic substrate-binding protein 15 0.0253075 Ribonucleotide reductase transcriptional regulator NrdR 15 0.0253075 Allantoicase (EC 3.5.3.4) 15 0.0253075 Nitrogen regulatory protein P-II 15 0.0253075 Translation initiation factor 1 15 0.0253075 Sulfur carrier protein adenylyltransferase ThiF 15 0.0253075 Oligopeptide transport system permease protein OppC (TC 3.A.1.5.1) 15 0.0253075 Galactokinase (EC 2.7.1.6) 15 0.0253075 Putative preQ0 transporter 15 0.0253075 Predicted sodium-dependent mannose transporter 15 0.0253075 CobN component of cobalt chelatase involved in B12 biosynthesis 15 0.0253075 Dihydrolipoamide dehydrogenase of pyruvate dehydrogenase complex (EC 1.8.1.4) 15 0.0253075 Membrane-bound lytic murein transglycosylase B precursor (EC 3.2.1.-) 15 0.0253075 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) 15 0.0253075 DnaJ-like protein DjlA 15 0.0253075 Thiamin biosynthesis protein ThiC 15 0.0253075 Phage terminase; large subunit 15 0.0253075 LSU ribosomal protein L19p 15 0.0253075 tRNA pseudouridine 13 synthase (EC 4.2.1.-) 15 0.0253075 Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) 15 0.0253075 Molybdenum cofactor biosynthesis protein MoaB 15 0.0253075 Ribonuclease PH (EC 2.7.7.56) 14 0.0236203 Colanic acid biosynthesis acetyltransferase WcaF (EC 2.3.1.-) 14 0.0236203 ATP phosphoribosyltransferase (EC 2.4.2.17) 14 0.0236203 COG3178: Predicted phosphotransferase related to Ser/Thr protein kinases 14 0.0236203 LSU ribosomal protein L13p (L13Ae) 14 0.0236203 Zinc transporter; ZIP family 14 0.0236203 Beta-phosphoglucomutase (EC 5.4.2.6) 14 0.0236203 RNA polymerase sigma factor RpoE 14 0.0236203 Periplasmic thiol:disulfide oxidoreductase DsbB; required for DsbA reoxidation 14 0.0236203 Probable component of the lipoprotein assembly complex (forms a complex with YaeT; YfgL;14 and0.0236203 NlpB) Cytochrome oxidase biogenesis protein Cox11-CtaG; copper delivery to Cox1 14 0.0236203 Phosphomethylpyrimidine kinase (EC 2.7.4.7) 14 0.0236203 Uncharacterized protein; similar to the N-terminal domain of Lon protease 14 0.0236203 Nucleoside-diphosphate sugar epimerase/dehydratase 14 0.0236203 Leucyl/phenylalanyl-tRNA--protein transferase (EC 2.3.2.6) 14 0.0236203 Heat shock protein 60 family co-chaperone GroES 14 0.0236203
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Acyl-CoA thioesterase II (EC 3.1.2.-) 14 0.0236203 Cytochrome c-type biogenesis protein CcmC; putative heme lyase for CcmE 14 0.0236203 Glutaminase (EC 3.5.1.2) 14 0.0236203 LSU ribosomal protein L15p (L27Ae) 14 0.0236203 NADH-ubiquinone oxidoreductase chain J (EC 1.6.5.3) 14 0.0236203 putative esterase 14 0.0236203 Histidine ABC transporter; permease protein HisM (TC 3.A.1.3.1) 14 0.0236203 FIG001721: Predicted N6-adenine-specific DNA methylase 14 0.0236203 Adenylylsulfate reductase beta-subunit (EC 1.8.99.2) 14 0.0236203 FIG042796: Hypothetical protein 14 0.0236203 Transketolase; N-terminal section (EC 2.2.1.1) 14 0.0236203 RibosylnicotinamideFor kinase (ECPeer 2.7.1.22) Review Only14 0.0236203 Dihydropyrimidine dehydrogenase [NADP+] (EC 1.3.1.2) 14 0.0236203 Probable poly(beta-D-mannuronate) O-acetylase (EC 2.3.1.-) 14 0.0236203 NAD-specific glutamate dehydrogenase (EC 1.4.1.2); large form 14 0.0236203 Flavohemoprotein (Hemoglobin-like protein) (Flavohemoglobin) (Nitric oxide dioxygenase)14 (EC0.0236203 1.14.12.17) Phytoene desaturase; neurosporene or lycopene producing (EC 1.3.-.-) 14 0.0236203 16 kDa heat shock protein A 14 0.0236203 3';5'-cyclic-nucleotide phosphodiesterase (EC 3.1.4.17) 14 0.0236203 Xanthine dehydrogenase; iron-sulfur cluster and FAD-binding subunit A (1.17.1.4) 14 0.0236203 RuBisCO operon transcriptional regulator 14 0.0236203 Lycopene cyclase 14 0.0236203 Ribosomal-protein-S18p-alanine acetyltransferase (EC 2.3.1.-) 14 0.0236203 ABC-type nitrate/sulfonate/bicarbonate transport system; ATPase component 14 0.0236203 Iron-sulfur cluster regulator IscR 14 0.0236203 COG2152 predicted glycoside hydrolase 13 0.0219332 Sensor histidine kinase PrrB (RegB) (EC 2.7.3.-) 13 0.0219332 N-acetylmuramic acid 6-phosphate etherase (EC 4.2.-.-) 13 0.0219332 Archaeal DNA polymerase II large subunit (EC 2.7.7.7) 13 0.0219332 intein-containing 13 0.0219332 SSU ribosomal protein S21p 13 0.0219332 Rubrerythrin 13 0.0219332 Mn-dependent transcriptional regulator MntR 13 0.0219332 Iron-sulfur cluster assembly scaffold protein IscU 13 0.0219332 Alternative cytochrome c oxidase polypeptide CoxO (EC 1.9.3.1) 13 0.0219332 Lysyl endopeptidase (EC 3.4.21.50) 13 0.0219332 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) 13 0.0219332 Ribonucleotide reductase of class III (anaerobic); large subunit (EC 1.17.4.2) 13 0.0219332 Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) 13 0.0219332 Poly(A) polymerase (EC 2.7.7.19) 13 0.0219332 Lmbe-related protein 13 0.0219332 Oligopeptide transport ATP-binding protein OppD (TC 3.A.1.5.1) 13 0.0219332 N-Acetyl-D-glucosamine ABC transport system; sugar-binding protein 13 0.0219332 Digeranylgeranylglycerophospholipid reductase 13 0.0219332 Inositol transport system sugar-binding protein 13 0.0219332 Cobalt-zinc-cadmium resistance protein 13 0.0219332 Epi-inositol hydrolase (EC 3.7.1.-) 13 0.0219332 Ribosomal large subunit pseudouridine synthase F (EC 4.2.1.70) 13 0.0219332 Curli production assembly/transport component CsgG 13 0.0219332 Oxaloacetate decarboxylase alpha chain (EC 4.1.1.3) 13 0.0219332
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DinG family ATP-dependent helicase YoaA 13 0.0219332 Glucose-1-phosphate cytidylyltransferase (EC 2.7.7.33) 13 0.0219332 Polysaccharide deacetylase 13 0.0219332 Site-specific tyrosine recombinase 13 0.0219332 Cytochrome oxidase biogenesis protein Surf1; facilitates heme A insertion 13 0.0219332 Dipeptide transport system permease protein DppB (TC 3.A.1.5.2) 13 0.0219332 SOS-response repressor and protease LexA (EC 3.4.21.88) 13 0.0219332 Similar to coenzyme PQQ synthesis protein B 13 0.0219332 Thiazole biosynthesis protein ThiG 13 0.0219332 FKBP-type peptidyl-prolyl cis-trans isomerase SlyD (EC 5.2.1.8) 13 0.0219332 Membrane protein associated with methylmalonyl-CoA decarboxylase 13 0.0219332 Hypothetical proteinFor YaeJ with Peer similarity to translation Review release factor Only13 0.0219332 Putative permease PerM (= YfgO) 13 0.0219332 Lactoylglutathione lyase (EC 4.4.1.5) 13 0.0219332 (R)-2-hydroxyacid dehydrogenase; similar to L-sulfolactate dehydrogenase (EC 1.1.1.272)13 0.0219332 LSU ribosomal protein L31p 13 0.0219332 C4-type zinc finger protein; DksA/TraR family 13 0.0219332 Proline iminopeptidase (EC 3.4.11.5) 13 0.0219332 ATP synthase B' chain (EC 3.6.3.14) 13 0.0219332 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) 13 0.0219332 Manganese ABC transporter; ATP-binding protein SitB 13 0.0219332 FKBP-type peptidyl-prolyl cis-trans isomerase FkpA precursor (EC 5.2.1.8) 12 0.020246 Integral membrane protein YggT; involved in response to extracytoplasmic stress (osmotic12 shock)0.020246 Response regulator of zinc sigma-54-dependent two-component system 12 0.020246 Various polyols ABC transporter; permease component 2 12 0.020246 Putative TEGT family carrier/transport protein 12 0.020246 ATP synthase epsilon chain (EC 3.6.3.14) 12 0.020246 Alpha-galactosidase (EC 3.2.1.22) 12 0.020246 Haemin uptake system outer membrane receptor 12 0.020246 Phosphatidylglycerophosphatase A (EC 3.1.3.27) 12 0.020246 Cyclohexadienyl dehydratase (EC 4.2.1.51)(EC 4.2.1.91) 12 0.020246 Indolepyruvate ferredoxin oxidoreductase; alpha and beta subunits 12 0.020246 Phosphate starvation-inducible ATPase PhoH with RNA binding motif 12 0.020246 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) 12 0.020246 Glutathione S-transferase; omega (EC 2.5.1.18) 12 0.020246 DNA-directed RNA polymerase delta (= beta'') subunit (EC 2.7.7.6) 12 0.020246 Vitamin B12 ABC transporter; permease component BtuC 12 0.020246 FKBP-type peptidyl-prolyl cis-trans isomerase fklB (EC 5.2.1.8) 12 0.020246 Predicted nucleoside ABC transporter; ATP-binding component 12 0.020246 Translation elongation factor 2 12 0.020246 Thermosome subunit 12 0.020246 mandelate racemase/muconate lactonizing enzyme family protein 12 0.020246 DUF1022 domain-containing protein 12 0.020246 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) 12 0.020246 Fumarate hydratase class I; aerobic (EC 4.2.1.2) 12 0.020246 Threonine dehydratase biosynthetic (EC 4.3.1.19) 12 0.020246 3-keto-5-aminohexanoate cleavage enzyme 12 0.020246 UPF0301 protein YqgE 12 0.020246 Iron-responsive regulator Irr 12 0.020246 [Protein-PII] uridylyltransferase (EC 2.7.7.59) 12 0.020246
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FIG007959: peptidase; M16 family 12 0.020246 Beta-carotene ketolase (EC 1.14.-.-) 12 0.020246 pyrrolysine-containing 12 0.020246 Oligopeptide transport ATP-binding protein OppF (TC 3.A.1.5.1) 12 0.020246 Inositol transport system permease protein 12 0.020246 S-adenosylhomocysteine nucleosidase (EC 3.2.2.9) 12 0.020246 tRNA pseudouridine synthase C (EC 4.2.1.70) 12 0.020246 7;8-didemethyl-8-hydroxy-5-deazariboflavin synthase subunit 2 12 0.020246 LSU ribosomal protein L33p 12 0.020246 O-succinylbenzoic acid--CoA ligase (EC 6.2.1.26) 12 0.020246 Molybdenum cofactor biosynthesis protein MoaC 12 0.020246 LSU ribosomal proteinFor L32p Peer Review Only12 0.020246 Macrolide export ATP-binding/permease protein MacB (EC 3.6.3.-) 12 0.020246 Oligopeptidase A (EC 3.4.24.70) 12 0.020246 Large-conductance mechanosensitive channel 12 0.020246 Cold shock protein CspA 12 0.020246 LSU ribosomal protein L28p 12 0.020246 Nucleoside diphosphate kinase (EC 2.7.4.6) 12 0.020246 Trehalose phosphorylase (EC 2.4.1.64) 12 0.020246 Phosphoheptose isomerase 1 (EC 5.3.1.-) 12 0.020246 LSU ribosomal protein L24p (L26e) 12 0.020246 SSU ribosomal protein S17p (S11e) 12 0.020246 Outer membrane vitamin B12 receptor BtuB 12 0.020246 LSU ribosomal protein L23p (L23Ae) 11 0.0185588 SoxH protein; homolog 11 0.0185588 Hydrolase; alpha/beta fold family functionally coupled to Phosphoribulokinase 11 0.0185588 DNA-binding protein HU 11 0.0185588 Betaine--homocysteine S-methyltransferase (EC 2.1.1.5) 11 0.0185588 VgrG protein 11 0.0185588 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) 11 0.0185588 Replication factor C small subunit 11 0.0185588 Molybdopterin-guanine dinucleotide biosynthesis protein MobA 11 0.0185588 Para-aminobenzoate synthase; amidotransferase component (EC 2.6.1.85) 11 0.0185588 ATP-dependent DNA helicase Rep 11 0.0185588 Twin-arginine translocation protein TatA 11 0.0185588 Vancomycin B-type resistance protein VanX 11 0.0185588 Zinc uptake regulation protein ZUR 11 0.0185588 Indoleamine 2;3-dioxygenase (EC 1.13.11.52) 11 0.0185588 ABC transporter; transmembrane region:ABC transporter:Peptidase C39; bacteriocin processing11 0.0185588 D-xylose proton-symporter XylE 11 0.0185588 ABC transporter; periplasmic spermidine putrescine-binding protein PotD (TC 3.A.1.11.1)11 0.0185588 Similar to 5-oxoprolinase (EC 3.5.2.9) and Methylhydantoinases A; B (EC 3.5.2.14); contradiction11 0.0185588 in experimental data (see Annotation) Bacillosamine/Legionaminic acid biosynthesis aminotransferase PglE 11 0.0185588 Succinate dehydrogenase cytochrome b-556 subunit 11 0.0185588 Protein secretion chaperonin CsaA 11 0.0185588 Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) 11 0.0185588 Esterase ybfF (EC 3.1.-.-) 11 0.0185588 Cell division protein BolA 11 0.0185588 Acyl carrier protein phosphodiesterase (EC 3.1.4.14) 11 0.0185588 Type IV pilus biogenesis protein PilQ 11 0.0185588
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Sulfite reduction-associated complex DsrMKJOP protein DsrK (=HmeD) 11 0.0185588 Sulfatase modifying factor 1 precursor (C-alpha-formyglycine- generating enzyme 1) 11 0.0185588 Sulfate adenylyltransferase; dissimilatory-type (EC 2.7.7.4) 11 0.0185588 6-pyruvoyl tetrahydrobiopterin synthase (EC 4.2.3.12) 11 0.0185588 Aspartyl-tRNA(Asn) amidotransferase subunit C (EC 6.3.5.6) 11 0.0185588 Sarcosine oxidase delta subunit (EC 1.5.3.1) 11 0.0185588 Pseudolysin; extracellular zinc protease (EC 3.4.24.26) 11 0.0185588 DNA-directed RNA polymerase II largest subunit (EC 2.7.7.6) 11 0.0185588 YjeF protein; function unknown 11 0.0185588 Sarcosine oxidase gamma subunit (EC 1.5.3.1) 11 0.0185588 ElaA protein 11 0.0185588 General secretionFor pathway proteinPeer D Review Only11 0.0185588 Glutamine amidotransferase chain of NAD synthetase 11 0.0185588 Cell division protein FtsJ 11 0.0185588 D-Lactate dehydrogenase; cytochrome c-dependent (EC 1.1.2.4) 11 0.0185588 Lipid carrier : UDP-N-acetylgalactosaminyltransferase (EC 2.4.1.-) 11 0.0185588 Ribose ABC transport system; ATP-binding protein RbsA (TC 3.A.1.2.1) 11 0.0185588 photosystem I P700 chlorophyll a apoprotein subunit Ia (PsaA) 11 0.0185588 FIG005080: Possible exported protein 11 0.0185588 ATP-dependent protease HslV (EC 3.4.25.-) 11 0.0185588 Thiamin pyrophosphokinase (EC 2.7.6.2) 10 0.0168717 V-type ATP synthase subunit B (EC 3.6.3.14) 10 0.0168717 Protein RtcB 10 0.0168717 Biopolymer transport protein ExbD/TolR 10 0.0168717 Xanthine permease 10 0.0168717 conserved hypothetical membrane protein; paralogue of Y20848 10 0.0168717 Putrescine transport system permease protein PotI (TC 3.A.1.11.2) 10 0.0168717 Transcriptional regulator BkdR of isoleucine and valine catabolism operon 10 0.0168717 Molybdenum cofactor biosynthesis protein MoaE 10 0.0168717 Phosphonoacetate hydrolase (EC 3.11.1.2) 10 0.0168717 Menaquinone via futalosine step 4 10 0.0168717 Inositol transport system ATP-binding protein 10 0.0168717 Hypothetical protein in ApbE locus 10 0.0168717 uncharacterized domain 10 0.0168717 ATP synthase C chain (EC 3.6.3.14) 10 0.0168717 Thiol:disulfide oxidoreductase related to ResA 10 0.0168717 Translation initiation factor SUI1-related protein 10 0.0168717 N-acetylhexosamine 1-kinase 10 0.0168717 Substrate-specific component BioY of biotin ECF transporter 10 0.0168717 N-methylhydantoinase A (EC 3.5.2.14) 10 0.0168717 tungsten-containing formate dehydrogenase alpha subunit 10 0.0168717 Glutamine synthetase (EC 6.3.1.2) 10 0.0168717 Acyl-homoserine lactone acylase PvdQ (EC 3.5.1.-); quorum-quenching 10 0.0168717 Cytochrome c-type biogenesis protein Ccs1/ResB 10 0.0168717 N-carbamoylputrescine amidase (3.5.1.53) 10 0.0168717 Outer membrane protein A precursor 10 0.0168717 NAD-dependent protein deacetylase of SIR2 family 10 0.0168717 Threonine dehydratase; catabolic (EC 4.3.1.19) 10 0.0168717 Glucokinase (EC 2.7.1.2) 10 0.0168717 cytosolic long-chain acyl-CoA thioester hydrolase family protein 10 0.0168717
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Alternative cytochrome c oxidase polypeptide CoxM (EC 1.9.3.1) 10 0.0168717 Serine/threonine protein kinase PrkC; regulator of stationary phase 10 0.0168717 Two-component sensor kinase YesM (EC 2.7.3.-) 10 0.0168717 RNA methyltransferase; TrmA family 10 0.0168717 Dipeptide transport ATP-binding protein DppD (TC 3.A.1.5.2) 10 0.0168717 L-threonine 3-O-phosphate decarboxylase (EC 4.1.1.81) 10 0.0168717 O-antigen flippase Wzx 10 0.0168717 Histidine utilization repressor 10 0.0168717 Ribonuclease HI-related protein 3 10 0.0168717 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH10 domain0.0168717 Cytochrome c heme lyase subunit CcmH 10 0.0168717 MazG nucleotideFor pyrophosphohydrolase Peer Review Only10 0.0168717 Ribosome hibernation protein YhbH 10 0.0168717 Minor curlin subunit CsgB; nucleation component of curlin monomers 10 0.0168717 1;4-alpha-glucan branching enzyme (EC 2.4.1.18) 9 0.0151845 Outer membrane protein YfgL; lipoprotein component of the protein assembly complex (forms9 0.0151845 a complex with YaeT; YfiO; and NlpB) Glutaredoxin 9 0.0151845 Transcriptional activator RfaH 9 0.0151845 Predicted sialic acid transporter 9 0.0151845 Phosphoserine phosphatase (EC 3.1.3.3) 9 0.0151845 Cyanophycin synthase (EC 6.3.2.29)(EC 6.3.2.30) 9 0.0151845 Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27) 9 0.0151845 Holo-[acyl-carrier protein] synthase (EC 2.7.8.7) 9 0.0151845 Chorismate--pyruvate lyase (EC 4.1.3.40) 9 0.0151845 Ribosomal RNA small subunit methyltransferase B (EC 2.1.1.-) 9 0.0151845 LSU ribosomal protein L34p 9 0.0151845 ATP-dependent Clp protease adaptor protein ClpS 9 0.0151845 Glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) 9 0.0151845 2-methylcitrate synthase (EC 2.3.3.5) 9 0.0151845 Ribosyl nicotinamide transporter; PnuC-like 9 0.0151845 GTP cyclohydrolase III (methanopterin) 9 0.0151845 Microbial collagenase; secreted (EC 3.4.24.3) 9 0.0151845 3'-to-5' oligoribonuclease (orn) 9 0.0151845 Dihydropteridine reductase (EC 1.5.1.34) 9 0.0151845 Phosphopentomutase (EC 5.4.2.7) 9 0.0151845 Transcriptional regulator of rhamnose utilization; GntR family 9 0.0151845 Uracil-DNA glycosylase; family 5 9 0.0151845 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) 9 0.0151845 Ribonuclease D (EC 3.1.26.3) 9 0.0151845 Signal transduction histidine kinase CheA (EC 2.7.3.-) 9 0.0151845 Methyl-accepting chemotaxis protein I (serine chemoreceptor protein) 9 0.0151845 Ribonuclease HI (EC 3.1.26.4) 9 0.0151845 Photosystem II CP43 protein (PsbC) 9 0.0151845 Thiaminase II (EC 3.5.99.2) 9 0.0151845 Thiol:disulfide oxidoreductase TlpA 9 0.0151845 Benzoate 1;2-dioxygenase (EC 1.14.12.10) 9 0.0151845 COG2363 9 0.0151845 Erythronate-4-phosphate dehydrogenase (EC 1.1.1.290) 9 0.0151845 Stringent starvation protein A 9 0.0151845 Myo-inositol 2-dehydrogenase 1 (EC 1.1.1.18) 9 0.0151845
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Diacylglycerol kinase (EC 2.7.1.107) 9 0.0151845 Putrescine transport ATP-binding protein PotG (TC 3.A.1.11.2) 9 0.0151845 Lipoprotein releasing system transmembrane protein LolE 9 0.0151845 Sensor protein torS (EC 2.7.3.-) 9 0.0151845 DNA-directed RNA polymerase omega subunit (EC 2.7.7.6) 9 0.0151845 Thymidine phosphorylase (EC 2.4.2.4) 9 0.0151845 Flagellar biosynthesis protein FlhA 9 0.0151845 Legionaminic acid biosynthesis protein PtmG 9 0.0151845 Isocitrate dehydrogenase phosphatase (EC 2.7.11.5)/kinase (EC 3.1.3.-) 9 0.0151845 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) 9 0.0151845 Exonuclease SbcC 9 0.0151845 6-phosphogluconolactonaseFor Peer(EC 3.1.1.31); eukaryotic Review type Only9 0.0151845 LSU ribosomal protein L29p (L35e) 9 0.0151845 Predicted cobalt transporter CbtA 8 0.0134973 FIG027190: Putative transmembrane protein 8 0.0134973 Putative permease often clustered with de novo purine synthesis 8 0.0134973 Putative Nudix hydrolase YfcD (EC 3.6.-.-) 8 0.0134973 Tol biopolymer transport system; TolR protein 8 0.0134973 Beta-1;4-galactosyltransferase 8 0.0134973 Electron transport complex protein RnfC 8 0.0134973 Electron transport complex protein RnfB 8 0.0134973 DNA-directed RNA polymerase subunit B (EC 2.7.7.6) 8 0.0134973 Cobalt-precorrin-4 C11-methyltransferase (EC 2.1.1.133) 8 0.0134973 V-type ATP synthase subunit A (EC 3.6.3.14) 8 0.0134973 Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) 8 0.0134973 Transport ATP-binding protein CydC 8 0.0134973 NADPH dependent preQ0 reductase 8 0.0134973 Rrf2 family transcriptional regulator 8 0.0134973 FIG086212: Putative lipoprotein 8 0.0134973 Acyl-CoA hydrolase (EC 3.1.2.20) 8 0.0134973 Osmosensitive K+ channel histidine kinase KdpD (EC 2.7.3.-) 8 0.0134973 Putative deoxyribonuclease YjjV 8 0.0134973 Phage tail assembly 8 0.0134973 N-acetylglucosamine related transporter; NagX 8 0.0134973 4-hydroxyphenylacetate 3-monooxygenase (EC 1.14.13.3) 8 0.0134973 BatA (Bacteroides aerotolerance operon) 8 0.0134973 NADH-ubiquinone oxidoreductase chain K (EC 1.6.5.3) 8 0.0134973 Biotin synthesis protein bioC 8 0.0134973 Ureidoglycolate/malate/sulfolactate dehydrogenase family (EC 1.1.1.-) 8 0.0134973 Putative chaperon-like protein Ycf39 for quinone binding in Photosystem II 8 0.0134973 Pyridine nucleotide-disulphide oxidoreductase associated with reductive pyrimidine catabolism8 0.0134973 Selenide;water dikinase (EC 2.7.9.3) 8 0.0134973 Valine--pyruvate aminotransferase (EC 2.6.1.66) 8 0.0134973 Pyrimidine ABC transporter; substrate-binding component 8 0.0134973 Phosphate transport regulator (distant homolog of PhoU) 8 0.0134973 Deoxyribodipyrimidine photolyase; type II (EC 4.1.99.3) 8 0.0134973 Mutator mutT protein (7;8-dihydro-8-oxoguanine-triphosphatase) (EC 3.6.1.-) 8 0.0134973 Thioredoxin 8 0.0134973 Predicted ATPase related to phosphate starvation-inducible protein PhoH 8 0.0134973 Adenosine deaminase (EC 3.5.4.4) 8 0.0134973
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Anaerobic dehydrogenases; typically selenocysteine-containing 8 0.0134973 3-hydroxyisobutyrate dehydrogenase (EC 1.1.1.31) 8 0.0134973 Translation elongation factor G paralog 8 0.0134973 Rod shape-determining protein MreD 8 0.0134973 Serine endopeptidase ScpC (EC 3.4.21.-) 8 0.0134973 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol; A-3-L-rhamnosyl transferase WbbL 8 0.0134973 photosystem II protein D2 (PsbD) 8 0.0134973 Cytochrome c-type biogenesis protein CcdA (DsbD analog) 8 0.0134973 Uncharacterized ABC transporter; auxiliary component YrbC 8 0.0134973 L-lysine permease 8 0.0134973 Biotin synthesis protein bioH 8 0.0134973 HydroxymethylpyrimidineFor ABC Peer transporter; transmembrane Review component Only8 0.0134973 Lysine-arginine-ornithine-binding periplasmic protein precursor (TC 3.A.1.3.1) 8 0.0134973 Phosphoheptose isomerase (EC 5.3.1.-) 8 0.0134973 Fumarate reductase flavoprotein subunit (EC 1.3.99.1) 8 0.0134973 Flagellar hook protein FlgE 8 0.0134973 DNA polymerase II (EC 2.7.7.7) 8 0.0134973 Protoporphyrinogen IX oxidase; aerobic (EC 1.3.3.4) 8 0.0134973 Pantothenate:Na+ symporter (TC 2.A.21.1.1) 8 0.0134973 LSU ribosomal protein L22p (L17e) 8 0.0134973 Aromatic-L-amino-acid decarboxylase (EC 4.1.1.28) 8 0.0134973 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) 8 0.0134973 Integration host factor beta subunit 8 0.0134973 Glutathione peroxidase (EC 1.11.1.9) 8 0.0134973 D;D-heptose 7-phosphate kinase 8 0.0134973 Formiminoglutamic iminohydrolase (EC 3.5.3.13) 8 0.0134973 2;4-dihydroxyhept-2-ene-1;7-dioic acid aldolase (EC 4.1.2.-) 8 0.0134973 Thiol:disulfide interchange protein DsbC 8 0.0134973 Glutamate formiminotransferase (EC 2.1.2.5) 8 0.0134973 3-ketoacyl-CoA thiolase (EC 2.3.1.16) 8 0.0134973 Putative Zn-dependent oxidoreductase PA5234 8 0.0134973 Cobyric acid synthase 8 0.0134973 Replicative DNA helicase (EC 3.6.1.-) [SA14-24] 8 0.0134973 Polyphosphate glucokinase (EC 2.7.1.63) 8 0.0134973 High-affinity choline uptake protein BetT 8 0.0134973 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC 2.4.2.21) 8 0.0134973 Queuosine Biosynthesis QueC ATPase 8 0.0134973 Succinylarginine dihydrolase (EC 3.5.3.23) 8 0.0134973 Sugar/maltose fermentation stimulation protein homolog 8 0.0134973 membrane c-type cytochrome cy 8 0.0134973 Maleate cis-trans isomerase (EC 5.2.1.1) 8 0.0134973 Cytochrome c heme lyase subunit CcmL 8 0.0134973 Glycolate dehydrogenase (EC 1.1.99.14); FAD-binding subunit GlcE 8 0.0134973 NAD(P)H oxidoreductase YRKL (EC 1.6.99.-) 8 0.0134973 NADH pyrophosphatase (EC 3.6.1.22) 8 0.0134973 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) 8 0.0134973 FIG004599: Hypothetical protein 8 0.0134973 Flagellar hook-associated protein FlgK 7 0.0118102 ADP-ribose pyrophosphatase (EC 3.6.1.13) 7 0.0118102 Phosphoenolpyruvate phosphomutase (EC 5.4.2.9) 7 0.0118102
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Cytochrome c551/c552 7 0.0118102 Predicted nucleoside ABC transporter; permease 1 component 7 0.0118102 Nitrate/nitrite transporter 7 0.0118102 2-C-methyl-D-erythritol 2;4-cyclodiphosphate synthase (EC 4.6.1.12) 7 0.0118102 Cytochrome c-type biogenesis protein ResA 7 0.0118102 Glucose dehydrogenase; PQQ-dependent (EC 1.1.5.2) 7 0.0118102 glutamyl-Q-tRNA synthetase 7 0.0118102 COG2047: Uncharacterized protein (ATP-grasp superfamily) 7 0.0118102 DNA-directed RNA polymerase gamma subunit (EC 2.7.7.6) 7 0.0118102 tRNA(Cytosine32)-2-thiocytidine synthetase 7 0.0118102 Alpha-aspartyl dipeptidase Peptidase E (EC 3.4.13.21) 7 0.0118102 Sulfite reductaseFor [NADPH] flavoproteinPeer alpha-component Review (EC 1.8.1.2) Only7 0.0118102 UPF0234 protein YajQ 7 0.0118102 Cytochrome b6-f complex subunit; apocytochrome f 7 0.0118102 Maltose/maltodextrin ABC transporter; substrate binding periplasmic protein MalE 7 0.0118102 Cysteine synthase B (EC 2.5.1.47) 7 0.0118102 Beta-ureidopropionase (EC 3.5.1.6) 7 0.0118102 Cobalt-precorrin-6 synthase; anaerobic 7 0.0118102 Gentisate 1;2-dioxygenase (EC 1.13.11.4) 7 0.0118102 Cytochrome c4 7 0.0118102 Predicted nucleoside ABC transporter; substrate-binding component 7 0.0118102 putative uricase 7 0.0118102 FIG001568: Amine oxidase; flavin-containing 7 0.0118102 Acyl-phosphate:glycerol-3-phosphate O-acyltransferase PlsY 7 0.0118102 2-dehydropantoate 2-reductase (EC 1.1.1.169) 7 0.0118102 Zinc ABC transporter; ATP-binding protein ZnuC 7 0.0118102 Flagellar hook-associated protein FliD 7 0.0118102 Ribosomal protein S6 glutaminyl transferase 7 0.0118102 FIG097052: Sugar transporter 7 0.0118102 Multicopper oxidase 7 0.0118102 Transcription initiation factor B 7 0.0118102 Dihydroorotate dehydrogenase; catalytic subunit (EC 1.3.3.1) 7 0.0118102 Glycerophosphoryl diester phosphodiesterase; periplasmic (EC 3.1.4.46) 7 0.0118102 NADH-dependent butanol dehydrogenase A (EC 1.1.1.-) 7 0.0118102 Phosphoethanolamine transferase EptA specific for the 1 phosphate group of core-lipid A7 0.0118102 Cob(I)alamin adenosyltransferase (EC 2.5.1.17) 7 0.0118102 Phosphoribosylformylglycinamidine synthase; PurS subunit (EC 6.3.5.3) 7 0.0118102 Osmolarity sensory histidine kinase EnvZ 7 0.0118102 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) 7 0.0118102 GTP cyclohydrolase I (EC 3.5.4.16) type 2 7 0.0118102 DNA repair protein RadC 7 0.0118102 Cobalt-precorrin-3b C17-methyltransferase 7 0.0118102 Aspartate 1-decarboxylase (EC 4.1.1.11) 7 0.0118102 N-formylglutamate deformylase (EC 3.5.1.68) 7 0.0118102 Low molecular weight protein tyrosine phosphatase (EC 3.1.3.48) 7 0.0118102 Galactonate dehydratase (EC 4.2.1.6) 7 0.0118102 FIG002571: 4-hydroxybenzoyl-CoA thioesterase domain protein 7 0.0118102 Carbohydrate Esterase Family 4 7 0.0118102 ADP compounds hydrolase NudE (EC 3.6.1.-) 7 0.0118102 Uncharacterized monothiol glutaredoxin ycf64-like 7 0.0118102
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Cobalt-precorrin-8x methylmutase (EC 5.4.1.2) 7 0.0118102 Flagellar basal-body rod modification protein FlgD 7 0.0118102 Transcriptional regulator; MecI family 7 0.0118102 LSU m5C1962 methyltransferase RlmI 7 0.0118102 ATP-dependent RNA helicase RhlB 7 0.0118102 Triacylglycerol lipase precursor (EC 3.1.1.3) 7 0.0118102 S-formylglutathione hydrolase (EC 3.1.2.12) 7 0.0118102 FIG017823: ATPase; MoxR family 7 0.0118102 Phage tail length tape-measure protein 7 0.0118102 Glycosyl transferase; group 1 7 0.0118102 Electron transport complex protein RnfA 7 0.0118102 Phage capsid andFor scaffold Peer Review Only7 0.0118102 Nitrogen regulation protein NR(II) (EC 2.7.3.-) 7 0.0118102 Altronate hydrolase (EC 4.2.1.7) 7 0.0118102 Periplasmic beta-glucosidase (EC 3.2.1.21) 7 0.0118102 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) 7 0.0118102 probable cytochrome oxidase (cbb3-type) 6 0.010123 Poly(glycerol-phosphate) alpha-glucosyltransferase (EC 2.4.1.52) 6 0.010123 Glutathione S-transferase family protein 6 0.010123 Gene SCO4494; often clustered with other genes in menaquinone via futalosine pathway 6 0.010123 Cobalt-zinc-cadmium resistance protein CzcD 6 0.010123 Tyrosine recombinase XerC 6 0.010123 S-(hydroxymethyl)glutathione dehydrogenase (EC 1.1.1.284) 6 0.010123 Ribonuclease T (EC 3.1.13.-) 6 0.010123 N-acyl homoserine lactone hydrolase 6 0.010123 Glycerol-3-phosphate regulon repressor; DeoR family 6 0.010123 putative 4-hydroxybenzoyl-CoA thioesterase 6 0.010123 Sulfur acceptor protein SufE for iron-sulfur cluster assembly 6 0.010123 Iron-regulated protein A precursor 6 0.010123 Polyphosphate kinase (EC 2.7.4.1) 6 0.010123 Putative membrane protein YeiH 6 0.010123 Dihydrolipoamide dehydrogenase of branched-chain alpha-keto acid dehydrogenase (EC 1.8.1.4)6 0.010123 Leucine-; isoleucine-; valine-; threonine-; and alanine-binding protein 6 0.010123 Na+/H+ antiporter NhaB 6 0.010123 Putative predicted metal-dependent hydrolase 6 0.010123 Peptidoglycan-associated lipoprotein precursor 6 0.010123 DNA replication helicase protein MCM 6 0.010123 LSU ribosomal protein L30p (L7e) 6 0.010123 Alkyl hydroperoxide reductase protein C (EC 1.6.4.-) 6 0.010123 Carbon monoxide dehydrogenase large chain (EC 1.2.99.2) 6 0.010123 C-terminal domain of CinA type S homolog 6 0.010123 Hydroxymethylglutaryl-CoA synthase (EC 2.3.3.10) 6 0.010123 Glutaredoxin-related protein 6 0.010123 Exodeoxyribonuclease VII large subunit (EC 3.1.11.6) 6 0.010123 tRNA (Uracil54-C5-)-methyltransferase (EC 2.1.1.35) 6 0.010123 Ornithine decarboxylase (EC 4.1.1.17) 6 0.010123 Neopullulanase (EC 3.2.1.135) 6 0.010123 soluble [2Fe-2S] ferredoxin 6 0.010123 Pyrophosphate-specific outer membrane porin OprO 6 0.010123 Photosystem II CP47 protein (PsbB) 6 0.010123
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tRNA nucleotidyltransferase; archaeal type (EC 2.7.7.21) (EC 2.7.7.25) 6 0.010123 FIG006542: Phosphoesterase 6 0.010123 Flagellar motor rotation protein MotA 6 0.010123 Isovaleryl-CoA dehydrogenase (EC 1.3.99.10) 6 0.010123 probable RuBisCo-expression protein CbbX 6 0.010123 Late competence protein ComEC; DNA transport 6 0.010123 Predicted transcriptional regulator of the myo-inositol catabolic operon 6 0.010123 Ribose operon repressor 6 0.010123 FIG018329: 1-acyl-sn-glycerol-3-phosphate acyltransferase 6 0.010123 Transcriptional activator MetR 6 0.010123 archaeosine tRNA-ribosyltransferase (EC 2.4.2.-) type 1 6 0.010123 Putative inner membraneFor protein Peer YjeT (clustered Review with HflC) Only6 0.010123 Ferredoxin reductase 6 0.010123 Phosphate transport system permease protein PstC (TC 3.A.1.7.1) 6 0.010123 FIG004454: RNA binding protein 6 0.010123 Peptidyl-prolyl cis-trans isomerase ppiB (EC 5.2.1.8) 6 0.010123 COGs COG3146 6 0.010123 Glycerol-3-phosphate ABC transporter; permease protein UgpE (TC 3.A.1.1.3) 6 0.010123 Vancomycin B-type resistance protein VanW 6 0.010123 NADH:ubiquinone oxidoreductase 17.2 kD subunit 6 0.010123 Oxaloacetate decarboxylase beta chain (EC 4.1.1.3) 6 0.010123 Response regulator NasT 6 0.010123 Replication factor A (ssDNA-binding protein) 6 0.010123 Pirin-like protein YhaK 6 0.010123 Various polyols ABC transporter; ATP-binding component 6 0.010123 Homoserine O-succinyltransferase (EC 2.3.1.46) 6 0.010123 Bis(5'-nucleosyl)-tetraphosphatase; symmetrical (EC 3.6.1.41) 6 0.010123 photosystem I iron-sulfur center subunit VII (PsaC) 6 0.010123 Flap structure-specific endonuclease (EC 3.-.-.-) 6 0.010123 YrbA protein 6 0.010123 Legionaminic acid biosynthesis protein PtmF 6 0.010123 Creatinine amidohydrolase (EC 3.5.2.10) 6 0.010123 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S46 paralog)0.010123 Protoporphyrinogen IX oxidase; oxygen-independent; HemG (EC 1.3.-.-) 6 0.010123 Predicted transcriptional regulator of N-Acetylglucosamine utilization; GntR family 6 0.010123 Archaeal DNA polymerase II small subunit (EC 2.7.7.7) 6 0.010123 Xanthine-guanine phosphoribosyltransferase (EC 2.4.2.22) 6 0.010123 Beta-lactamase 6 0.010123 Organic solvent tolerance protein precursor 6 0.010123 putative sodium-dependent bicarbonate transporter 6 0.010123 RNase L inhibitor 6 0.010123 Methanol dehydrogenase large subunit protein (EC 1.1.99.8) 6 0.010123 Uncharacterized ABC transporter; permease component YrbE 6 0.010123 3-hydroxyanthranilate 3;4-dioxygenase (EC 1.13.11.6) 6 0.010123 Flagellin protein FlaB 6 0.010123 Sodium-Choline Symporter 6 0.010123 Proteasome subunit alpha (EC 3.4.25.1); archaeal 5 0.00843583 Subtilase family domain protein 5 0.00843583 Cytochrome c-type biogenesis protein CcmD; interacts with CcmCE 5 0.00843583 Non-specific DNA-binding protein Dps 5 0.00843583
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Menaquinone via futalosine step 3 5 0.00843583 Phosphoribosylglycinamide formyltransferase 2 (EC 2.1.2.-) 5 0.00843583 Spheroidene monooxygenase 5 0.00843583 6-phosphogluconolactonase (EC 3.1.1.31) 5 0.00843583 Integrase/recombinase clustered with segregation and condensation protein B 5 0.00843583 Type IV pilus biogenesis protein PilM 5 0.00843583 Periplasmic protein torT precursor 5 0.00843583 Sulfate permease; Trk-type 5 0.00843583 V-type ATP synthase subunit I (EC 3.6.3.14) 5 0.00843583 FIG005495: hypothetical protein 5 0.00843583 Alpha-D-GlcNAc alpha-1;2-L-rhamnosyltransferase (EC 2.4.1.-) 5 0.00843583 5-deoxy-glucuronateFor isomerase Peer (EC 5.3.1.-) Review Only5 0.00843583 DNA helicase (Rad25 homolog) 5 0.00843583 tRNA:Cm32/Um32 methyltransferase 5 0.00843583 Arsenical resistance operon repressor 5 0.00843583 Photosystem II 10 kDa phosphoprotein (PsbH) 5 0.00843583 Cystine ABC transporter; permease protein 5 0.00843583 Membrane proteins related to metalloendopeptidases 5 0.00843583 Putative membrane protein YfcA 5 0.00843583 Ribulose bisphosphate carboxylase small chain (EC 4.1.1.39) 5 0.00843583 3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3) 5 0.00843583 Two-component oxygen-sensor histidine kinase FixL 5 0.00843583 Hypoxanthine-guanine phosphoribosyltransferase (EC 2.4.2.8) 5 0.00843583 Phosphoenolpyruvate-protein phosphotransferase of PTS system (EC 2.7.3.9) 5 0.00843583 Molybdenum transport system permease protein ModB (TC 3.A.1.8.1) 5 0.00843583 Mitochondrial processing peptidase-like protein (EC 3.4.24.64) 5 0.00843583 Galactoside O-acetyltransferase (EC 2.3.1.18) 5 0.00843583 UPF0434 protein YcaR 5 0.00843583 Probable acyl-CoA dehydrogenase (EC 1.3.99.3) 5 0.00843583 Dethiobiotin synthetase (EC 6.3.3.3) 5 0.00843583 Glycine oxidase ThiO (EC 1.4.3.19) 5 0.00843583 Thiamin-phosphate pyrophosphorylase-like protein 5 0.00843583 Cobyrinic acid A;C-diamide synthase 5 0.00843583 Glycine cleavage system transcriptional activator 5 0.00843583 Predicted maltose transporter MalT 5 0.00843583 CopG protein 5 0.00843583 Inosine-uridine preferring nucleoside hydrolase (EC 3.2.2.1) 5 0.00843583 Putative deoxyribose-specific ABC transporter; permease protein 5 0.00843583 FIG026291: Hypothetical periplasmic protein 5 0.00843583 D-mannose isomerase (EC 5.3.1.7) 5 0.00843583 Putrescine ABC transporter putrescine-binding protein PotF (TC 3.A.1.11.2) 5 0.00843583 Outer membrane protein Imp; required for envelope biogenesis 5 0.00843583 RNA polymerase sigma factor SigW 5 0.00843583 Spermidine N1-acetyltransferase (EC 2.3.1.57) 5 0.00843583 2;3-bisphosphoglycerate-independent phosphoglycerate mutase; archaeal type (EC 5.4.2.1)5 0.00843583 Predicted lactaldehyde dehydrogenase (EC 1.2.1.22) 5 0.00843583 Lipopolysaccharide heptosyltransferase III (EC 2.4.1.-) 5 0.00843583 Radical SAM family enzyme; similar to coproporphyrinogen III oxidase; oxygen-independent;5 0.00843583 clustered with nucleoside-triphosphatase RdgB 2-Methylcitrate dehydratase AcnD 5 0.00843583 Methylenetetrahydrofolate dehydrogenase (NADP+) (EC 1.5.1.5) / Methenyltetrahydrofolate5 0.00843583 cyclohydrolase (EC 3.5.4.9)
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Glutathione S-transferase; zeta (EC 2.5.1.18) 5 0.00843583 Autoinducer 2 (AI-2) aldolase LsrF (EC 4.2.1.-) 5 0.00843583 Thermostable carboxypeptidase 1 (EC 3.4.17.19) 5 0.00843583 Conserved hypothetical protein probably involved in assimilatory sulfate reduction 5 0.00843583 NLP/P60 family protein 5 0.00843583 Protein of unknown function DUF1009 clustered with KDO2-Lipid A biosynthesis genes 5 0.00843583 Alginate lyase precursor (EC 4.2.2.3) 5 0.00843583 DNA primase small subunit (EC 2.7.7.-) 5 0.00843583 Proofreading thioesterase in enterobactin biosynthesis EntH 5 0.00843583 Adenosylcobinamide-phosphate guanylyltransferase (EC 2.7.7.62) 5 0.00843583 5-keto-D-gluconate 5-reductase (EC 1.1.1.69) 5 0.00843583 DNA topoisomeraseFor VI subunit Peer B (EC 5.99.1.3) Review Only5 0.00843583 Beta N-acetyl-glucosaminidase (EC 3.2.1.52) 5 0.00843583 Flagellar motor switch protein FliM 5 0.00843583 Ribose ABC transporter; periplasmic ribose-binding protein RbsB (TC 3.A.1.2.1) 5 0.00843583 Dihydroorotate dehydrogenase electron transfer subunit (EC 1.3.3.1) 5 0.00843583 Signal transduction histidine kinase HoxJ (hydrogenase regulation) 5 0.00843583 Mercuric transport protein; MerT 5 0.00843583 2-hydroxychromene-2-carboxylate isomerase 5 0.00843583 Endoglucanase (EC 3.2.1.4) 5 0.00843583 putative Glutathione-regulated potassium-efflux system protein KefB 5 0.00843583 Flagellar motor switch protein FliG 5 0.00843583 Putative nucleoside transporter YegT 5 0.00843583 Deblocking aminopeptidase (EC 3.4.11.-) 5 0.00843583 D-glycerate 2-kinase (EC 2.7.1.-) 5 0.00843583 Aspartate ammonia-lyase (EC 4.3.1.1) 5 0.00843583 Phage endonuclease 5 0.00843583 5-carboxymethyl-2-oxo-hex-3- ene-1;7-dioate decarboxylase (EC 4.1.1.68) 5 0.00843583 Pyruvate carboxyl transferase subunit A (EC 6.4.1.1) 5 0.00843583 D-glycero-D-manno-heptose 1-phosphate guanosyltransferase 5 0.00843583 Multidrug resistance transporter; Bcr/CflA family 5 0.00843583 Polymyxin resistance protein ArnT; undecaprenyl phosphate-alpha-L-Ara4N transferase 5 0.00843583 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) 5 0.00843583 Cyanophycinase (EC 3.4.15.6) 5 0.00843583 Rubisco activation protein CbbO 5 0.00843583 Lysine decarboxylase (EC 4.1.1.18) 5 0.00843583 Short chain fatty acids transporter 5 0.00843583 T7-like phage DNA Polymerase (EC 2.7.7.7) 5 0.00843583 Fructose-1;6-bisphosphatase; type V; archaeal (EC 3.1.3.11) 5 0.00843583 2-keto-3-deoxy-L-fuconate dehydrogenase 5 0.00843583 tungsten-containing formate dehydrogenase beta subunit 5 0.00843583 L-fuconate dehydratase (EC 4.2.1.68) 5 0.00843583 Hydroxypyruvate reductase (EC 1.1.1.81) 5 0.00843583 Selenophosphate-dependent tRNA 2-selenouridine synthase 5 0.00843583 Methylthioadenosine deaminase 5 0.00843583 Inosose dehydratase (EC 4.2.1.44) 5 0.00843583 Hydroxypyruvate isomerase (EC 5.3.1.22) 5 0.00843583 DNA repair and recombination protein RadA 5 0.00843583 Transcriptional regulator RutR of pyrimidine catabolism (TetR family) 5 0.00843583 COG0613; Predicted metal-dependent phosphoesterases (PHP family) 5 0.00843583
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Urea ABC transporter; urea binding protein 5 0.00843583 Phosphogluconate dehydratase (EC 4.2.1.12) 5 0.00843583 Twin-arginine translocation protein TatB 5 0.00843583 ABC-type tungstate transport system; permease protein 5 0.00843583 Lactyl (2) diphospho-(5')guanosine:7;8-didemethyl-8-hydroxy-5-deazariboflavin 2-phospho-L-lactate5 0.00843583 transferase Cob(I)alamin adenosyltransferase PduO (EC 2.5.1.17) 5 0.00843583 Membrane-bound lytic murein transglycosylase A precursor (EC 3.2.1.-) 5 0.00843583 Malyl-CoA lyase (EC 4.1.3.24) 5 0.00843583 Nicotinamide phosphoribosyltransferase (EC 2.4.2.12) 5 0.00843583 prolyl oligopeptidase family protein 5 0.00843583 DNA primase large subunit (EC 2.7.7.-) 5 0.00843583 (S)-3-O-geranylgeranylglycerylFor Peer phosphate synthase Review Only4 0.00674866 Methyl-directed repair DNA adenine methylase (EC 2.1.1.72) 4 0.00674866 ABC transporter involved in cytochrome c biogenesis; ATPase component CcmA 4 0.00674866 Flagellar biosynthesis protein FliP 4 0.00674866 Protein of unknown function DUF484 4 0.00674866 Polymyxin resistance protein ArnC; glycosyl transferase (EC 2.4.-.-) 4 0.00674866 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) 4 0.00674866 Alkylated DNA repair protein AlkB 4 0.00674866 Phosphate ABC transporter; periplasmic phosphate-binding protein PstS (TC 3.A.1.7.1) 4 0.00674866 Succinate dehydrogenase hydrophobic membrane anchor protein 4 0.00674866 Inosose isomerase (EC 5.3.99.-) 4 0.00674866 Gluconate dehydratase (EC 4.2.1.39) 4 0.00674866 Superfamily II DNA/RNA helicases; SNF2 family 4 0.00674866 Glycerol-1-phosphate dehydrogenase [NAD(P)] (EC 1.1.1.261) 4 0.00674866 photosystem I subunit XI (PsaL) 4 0.00674866 Peptidase; M23/M37 family 4 0.00674866 Nucleoside-diphosphate-sugar epimerases 4 0.00674866 CRISPR-associated protein; Csn1 family 4 0.00674866 23S rRNA (guanosine-2'-O-) -methyltransferase rlmB (EC 2.1.1.-) 4 0.00674866 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) 4 0.00674866 GlpG protein (membrane protein of glp regulon) 4 0.00674866 Putative stomatin/prohibitin-family membrane protease subunit aq_911 4 0.00674866 Nickel responsive regulator NikR 4 0.00674866 Microbial collagenase (EC 3.4.24.3) 4 0.00674866 Putative glycosyltransferase 4 0.00674866 Similar to eukaryotic Peptidyl prolyl 4-hydroxylase; alpha subunit (EC 1.14.11.2) 4 0.00674866 2-aminoethylphosphonate:pyruvate aminotransferase (EC 2.6.1.37) 4 0.00674866 Tryptophanase (EC 4.1.99.1) 4 0.00674866 DNA sulfur modification protein DndD 4 0.00674866 Zinc ABC transporter; inner membrane permease protein ZnuB 4 0.00674866 Protease III precursor (EC 3.4.24.55) 4 0.00674866 Benzoate transport protein 4 0.00674866 Dimethylsulfoniopropionate (DMSP) acyl CoA transferase DddD 4 0.00674866 ATP-dependent helicase DinG/Rad3 4 0.00674866 N-succinyl-L;L-diaminopimelate aminotransferase alternative (EC 2.6.1.17) 4 0.00674866 Aconitate hydratase X; predicted 4 0.00674866 Sensor protein of zinc sigma-54-dependent two-component system 4 0.00674866 Thiamin ABC transporter; substrate-binding component 4 0.00674866 N-methylhydantoinase B (EC 3.5.2.14) 4 0.00674866
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Glycerate kinase (EC 2.7.1.31) 4 0.00674866 Tetrathionate reductase two-component response regulator 4 0.00674866 Phytoene dehydrogenase and related proteins 4 0.00674866 General secretion pathway protein F 4 0.00674866 DMSP breakdown hydrolase protein 4 0.00674866 5-keto-2-deoxygluconokinase (EC 2.7.1.92) 4 0.00674866 Putative dipeptidase; pyoverdin biosynthesis PvdM 4 0.00674866 Cys regulon transcriptional activator CysB 4 0.00674866 Molybdopterin biosynthesis Mog protein; molybdochelatase 4 0.00674866 Malate permease 4 0.00674866 Predicted signal-transduction protein containing cAMP-binding and CBS domains 4 0.00674866 Peptidoglycan N-acetylglucosamineFor Peer deacetylase Review (EC 3.5.1.-) Only4 0.00674866 Sigma factor RpoE negative regulatory protein RseA 4 0.00674866 Eukaryotic translation initiation factor 6 4 0.00674866 Sirohydrochlorin ferrochelatase (EC 4.99.1.4) 4 0.00674866 rRNA biogenesis protein Nop5/Nop56 4 0.00674866 D-alanine aminotransferase (EC 2.6.1.21) 4 0.00674866 PqqC-like protein 4 0.00674866 21 kDa hemolysin precursor 4 0.00674866 Excinuclease ABC subunit A paralog of unknown function 4 0.00674866 Sulfate and thiosulfate import ATP-binding protein CysA (EC 3.6.3.25) 4 0.00674866 Serine protease (EC 3.4.21.-) 4 0.00674866 Glutamyl-tRNA(Gln) amidotransferase asparaginase subunit (EC 6.3.5.7) 4 0.00674866 Rhodanese-related sulfurtransferase 4 0.00674866 ABC-type transport system involved in resistance to organic solvents; permease component4 USSDB6A0.00674866 Thiol peroxidase; Tpx-type (EC 1.11.1.15) 4 0.00674866 ATP-dependent DNA ligase (EC 6.5.1.1) 4 0.00674866 Transthyretin family protein 4 0.00674866 SSU ribosomal protein S9e (S4p) 4 0.00674866 tRNA (adenine57/58-N1)-methyltransferase (EC 2.1.1.36) 4 0.00674866 Putative oxidoreductase SMc00968 4 0.00674866 Intracellular septation protein IspA 4 0.00674866 4-aminobutyraldehyde dehydrogenase (EC 1.2.1.19) 4 0.00674866 Beta-1;3-glucosyltransferase 4 0.00674866 Ribosomal-protein-L7p-serine acetyltransferase 4 0.00674866 Spore cortex-lytic enzyme; lytic transglycosylase SleB 4 0.00674866 High-affinity leucine-specific transport system; periplasmic binding protein LivK (TC 3.A.1.4.1)4 0.00674866 Macrolide-specific efflux protein MacA 4 0.00674866 Cytochrome b6-f complex subunit; cytochrome b6 4 0.00674866 Carbon monoxide dehydrogenase small chain (EC 1.2.99.2) 4 0.00674866 Endoplasmic reticulum chaperon grp78 (BiP) 4 0.00674866 Histidine triad (HIT) nucleotide-binding protein; similarity with At5g48545 and yeast YDL125C4 0.00674866 (HNT1) ADP-L-glycero-D-manno-heptose-6-epimerase (EC 5.1.3.20) 4 0.00674866 RNA polymerase sigma factor for flagellar operon 4 0.00674866 LppC putative lipoprotein 4 0.00674866 2-aminomuconate deaminase (EC 3.5.99.5) 4 0.00674866 FIG003620: Proteophosphoglycan precursor (Fragment) 4 0.00674866 2-dehydro-3-deoxygalactonokinase (EC 2.7.1.58) 4 0.00674866 Exopolysaccharide biosynthesis glycosyltransferase EpsF (EC 2.4.1.-) 4 0.00674866 DNA polymerase-like protein PA0670 4 0.00674866
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Xanthine and CO dehydrogenases maturation factor; XdhC/CoxF family 4 0.00674866 Predicted gluconate TRAP family transporter; DctM subunit 4 0.00674866 Flavodoxin 2 4 0.00674866 Nucleotide pyrophosphatase (EC 3.6.1.9) 4 0.00674866 Putative two-domain glycosyltransferase 4 0.00674866 Vitamin B12 ABC transporter; ATPase component BtuD 4 0.00674866 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase 4 0.00674866 Internalin-like protein (LPXTG motif) Lmo2821 homolog 4 0.00674866 Alanyl-tRNA synthetase domain protein 4 0.00674866 Gluconolactonase (EC 3.1.1.17) 4 0.00674866 Ribose 5-phosphate isomerase A (EC 5.3.1.6) 4 0.00674866 hypothetical proteinFor PA3071 Peer Review Only4 0.00674866 Copper sensory histidine kinase CpxA 4 0.00674866 Putative N-acetylgalactosaminyl-diphosphoundecaprenol glucuronosyltransferase 4 0.00674866 Glucokinase; ROK family (EC 2.7.1.2) 4 0.00674866 General secretion pathway protein A 4 0.00674866 Aerobic cobaltochelatase CobS subunit (EC 6.6.1.2) 4 0.00674866 Isopentenyl-diphosphate delta-isomerase; FMN-dependent (EC 5.3.3.2) 4 0.00674866 2-haloalkanoic acid dehalogenase (EC 3.8.1.2) 4 0.00674866 Tartrate decarboxylase (EC 4.1.1.73) 4 0.00674866 Putative oxidoreductase YncB 4 0.00674866 DNA-directed RNA polymerase subunit A' (EC 2.7.7.6) 4 0.00674866 Circadian input kinase A 4 0.00674866 Gamma-glutamyl-putrescine oxidase (EC1.4.3.-) 4 0.00674866 SSU ribosomal protein S15e (S19p) 4 0.00674866 Chitin binding protein 4 0.00674866 GDSL-like lipase/acylhydrolase 4 0.00674866 ATP-dependent RNA helicase DbpA 4 0.00674866 Flagellar motor switch protein FliN 4 0.00674866 4-carboxymuconolactone decarboxylase (EC 4.1.1.44) 4 0.00674866 Chorismate mutase I (EC 5.4.99.5) 4 0.00674866 Mlr7403 protein 4 0.00674866 putative cytochrome P450 hydroxylase 4 0.00674866 Cytochrome c-type biogenesis protein CcsA/ResC 4 0.00674866 Proteasome subunit beta (EC 3.4.25.1); archaeal 4 0.00674866 Taurine transport ATP-binding protein TauB 4 0.00674866 Predicted nucleoside ABC transporter; permease 2 component 4 0.00674866 FIG003879: Predicted amidohydrolase 4 0.00674866 Protoporphyrin IX Mg-chelatase subunit I (EC 6.6.1.1) 4 0.00674866 Urease beta subunit (EC 3.5.1.5) 4 0.00674866 2-deoxy-D-gluconate 3-dehydrogenase (EC 1.1.1.125) 4 0.00674866 3-hydroxybutyryl-CoA dehydratase (EC 4.2.1.55) 4 0.00674866 Catalyzes the cleavage of p-aminobenzoyl-glutamate to p-aminobenzoate and glutamate; 4subunit0.00674866 B Pyruvate phosphate dikinase 4 0.00674866 Capsular polysaccharide biosynthesis protein CapD 4 0.00674866 ABC-type probable sulfate transporter; permease protein 4 0.00674866 Type III restriction-modification system methylation subunit (EC 2.1.1.72) 4 0.00674866 RecD-like DNA helicase YrrC 4 0.00674866 Chemotaxis protein methyltransferase CheR (EC 2.1.1.80) 4 0.00674866 Adenosylcobinamide-phosphate synthase 4 0.00674866
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4'-phosphopantetheinyl transferase (EC 2.7.8.-) 4 0.00674866 Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) 4 0.00674866 tRNA pseudouridine 55 synthase (EC 4.2.1.70) 4 0.00674866 Thiamin ABC transporter; ATPase component 4 0.00674866 Ribosomal-protein-S5p-alanine acetyltransferase 4 0.00674866 FIG005666: putative helicase 4 0.00674866 Non-ribosomal peptide synthetase modules; pyoverdine 3 0.0050615 Stringent starvation protein B 3 0.0050615 Flagellar P-ring protein FlgI 3 0.0050615 Phosphohistidine phosphatase SixA 3 0.0050615 Phage-associated recombinase 3 0.0050615 Pseudaminic acidFor biosynthesis Peer protein PseA; possibleReview Pse5Ac7Ac acetamidino Only synthase 3 0.0050615 DNA recombinase; phage-associated 3 0.0050615 Believed to be involved in assembly of Fe-S clusters 3 0.0050615 Ribonuclease P protein component 4 (EC 3.1.26.5) 3 0.0050615 Urea carboxylase-related aminomethyltransferase (EC 2.1.2.10) 3 0.0050615 Pyrophosphate--fructose 6-phosphate 1-phosphotransferase; alpha subunit (EC 2.7.1.90) 3 0.0050615 Hypothetical; distant similarity with heme-degrading oxygenase IsdG 3 0.0050615 Phage-encoded chromosome degrading nuclease YokF 3 0.0050615 5-carboxymethyl-2-hydroxymuconate delta-isomerase (EC 5.3.3.10) 3 0.0050615 PutR; transcriptional activator of PutA and PutP 3 0.0050615 LSU ribosomal protein L11e (L5p) 3 0.0050615 UDP-galactopyranose mutase (EC 5.4.99.9) 3 0.0050615 Ectoine hydroxylase (EC 1.17.-.-) 3 0.0050615 capsular polysaccharide biosynthesis protein 3 0.0050615 Translation elongation factor 1 alpha subunit 3 0.0050615 Nicotinamidase (EC 3.5.1.19) 3 0.0050615 Protein of unknown function Smg 3 0.0050615 Glucoamylase (EC 3.2.1.3) 3 0.0050615 Chaperone protein HscB 3 0.0050615 Sigma-fimbriae usher protein 3 0.0050615 F420-dependent N(5);N(10)-methylenetetrahydromethanopterin reductase (EC 1.5.99.11)3 0.0050615 Cystathionine gamma-synthase (EC 2.5.1.48) 3 0.0050615 Nitric oxide reductase activation protein NorQ 3 0.0050615 Arginine N-succinyltransferase (EC 2.3.1.109) 3 0.0050615 Nitric oxide reductase activation protein NorD 3 0.0050615 2-dehydro-3-deoxyphosphogalactonate aldolase (EC 4.1.2.21) 3 0.0050615 Succinylglutamic semialdehyde dehydrogenase (EC 1.2.1.71) 3 0.0050615 Exonuclease SbcD 3 0.0050615 Similar to phosphoglycolate phosphatase; clustered with ribosomal large subunit pseudouridine3 0.0050615 synthase C N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) AmpD 3 0.0050615 Integrase 3 0.0050615 5-methylaminomethyl-2-thiouridine-forming enzyme mnmC 3 0.0050615 Cobalamin biosynthesis protein CbiG 3 0.0050615 Outer membrane stress sensor protease DegS 3 0.0050615 Agmatine deiminase (EC 3.5.3.12) 3 0.0050615 2-Oxobutyrate oxidase; putative 3 0.0050615 photosystem I subunit IV (PsaE) 3 0.0050615 Mg-protoporphyrin IX monomethyl ester oxidative cyclase (anaerobic) (EC 1.14.13.81) 3 0.0050615 Probable thiol oxidoreductase with 2 cytochrome c heme-binding sites 3 0.0050615
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Sialic acid utilization regulator; RpiR family 3 0.0050615 Phage rIIA lysis inhibitor 3 0.0050615 Serine protease precursor MucD/AlgY associated with sigma factor RpoE 3 0.0050615 Putative transcription antitermination protein NusG 3 0.0050615 Asparagine synthetase [glutamine-hydrolyzing] (EC 6.3.5.4) AsnH 3 0.0050615 PlcB; ORFX; ORFP; ORFB; ORFA; ldh gene 3 0.0050615 YjbQ (alternate ThiE) 3 0.0050615 Phosphate transport system permease protein PstA (TC 3.A.1.7.1) 3 0.0050615 Cell division protein FtsL 3 0.0050615 Maltose/maltodextrin transport ATP-binding protein MalK (EC 3.6.3.19) 3 0.0050615 MSHA biogenesis protein MshL 3 0.0050615 LSU rRNA For Peer Review Only3 0.0050615 Uncharacterized ABC transporter; ATP-binding protein YrbF 3 0.0050615 2-amino-3;7-dideoxy-D-threo-hept-6-ulosonate synthase (EC 2.5.1.-) 3 0.0050615 5-aminopentanamidase (EC 3.5.1.30) 3 0.0050615 Exodeoxyribonuclease VII small subunit (EC 3.1.11.6) 3 0.0050615 FIG001341: Probable Fe(2+)-trafficking protein YggX 3 0.0050615 Pseudouridine kinase (EC 2.7.1.83) 3 0.0050615 COG1496: Uncharacterized conserved protein 3 0.0050615 Putative deoxyribose-specific ABC transporter; ATP-binding protein 3 0.0050615 Phenylacetate-CoA oxygenase; PaaG subunit 3 0.0050615 Uracil-xanthine permease 3 0.0050615 Arginase (EC 3.5.3.1) 3 0.0050615 Hemin ABC transporter; permease protein 3 0.0050615 Purine nucleotide synthesis repressor 3 0.0050615 Ureidoglycolate hydrolase (EC 3.5.3.19) 3 0.0050615 Urea ABC transporter; ATPase protein UrtD 3 0.0050615 tRNA (Guanosine18-2'-O-) -methyltransferase (EC 2.1.1.34) 3 0.0050615 Phage DNA binding protein 3 0.0050615 Phenylacetate-coenzyme A ligase (EC 6.2.1.30) 3 0.0050615 HTH-type transcriptional regulator BetI 3 0.0050615 Phage portal 3 0.0050615 Glutathione-regulated potassium-efflux system protein KefB 3 0.0050615 Urea ABC transporter; ATPase protein UrtE 3 0.0050615 Methylmalonyl-CoA epimerase (EC 5.1.99.1) 3 0.0050615 Peptide transport system permease protein sapC (TC 3.A.1.5.5) 3 0.0050615 Coenzyme F420-1:L-glutamate ligase 3 0.0050615 Alpha-L-fucosidase (EC 3.2.1.51) 3 0.0050615 Xaa-Pro dipeptidase PepQ (EC 3.4.13.9) 3 0.0050615 Carbon storage regulator 3 0.0050615 Flagellar biosynthesis protein FliL 3 0.0050615 Sulfatase 3 0.0050615 Cobalamin synthase 3 0.0050615 Phage head completion protein 3 0.0050615 DNA topoisomerase I; eukaryotic-type (EC 5.99.1.2) 3 0.0050615 Sensory histidine kinase AtoS 3 0.0050615 Molybdenum cofactor biosynthesis protein MoaD 3 0.0050615 5-keto-2-deoxy-D-gluconate-6 phosphate aldolase (EC 4.1.2.29) 3 0.0050615 DNA-directed RNA polymerase III 12.5 kDa polypeptide (EC 2.7.7.6) 3 0.0050615 Predicted aldo/keto reductase in CelR regulon; COG4989 3 0.0050615
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Nitrous oxide reductase maturation protein NosF (ATPase) 3 0.0050615 Putative outer membrane lipoprotein YmcA 3 0.0050615 LSU ribosomal protein L10e (L16p) 3 0.0050615 Anaerobic dimethyl sulfoxide reductase chain B (EC 1.8.99.-) 3 0.0050615 Uncharacterized protein YtfM precursor 3 0.0050615 DNA topoisomerase VI subunit A (EC 5.99.1.3) 3 0.0050615 Flagellar M-ring protein FliF 3 0.0050615 MSM (multiple sugar metabolism) operon regulatory protein 3 0.0050615 Alkanesulfonates ABC transporter ATP-binding protein 3 0.0050615 AMP nucleosidase (EC 3.2.2.4) 3 0.0050615 Geranylgeranyl pyrophosphate synthetase (EC 2.5.1.29) 3 0.0050615 L-fuconolactoneFor hydrolase Peer Review Only3 0.0050615 Asp-X dipeptidase 3 0.0050615 Pyruvate carboxyl transferase subunit B (EC 6.4.1.1) 3 0.0050615 ThiJ/PfpI family protein 3 0.0050615 Muconolactone isomerase (EC 5.3.3.4);putative 3 0.0050615 tRNA (guanine46-N7-)-methyltransferase (EC 2.1.1.33) 3 0.0050615 Homoprotocatechuate degradative operon repressor 3 0.0050615 Putative deoxyribonuclease similar to YcfH; type 3 3 0.0050615 Glycerol-3-phosphate acyltransferase (EC 2.3.1.15) 3 0.0050615 Siderophore biosynthesis L-2;4-diaminobutyrate decarboxylase 3 0.0050615 Oligosaccharide repeat unit polymerase Wzy 3 0.0050615 Histidine ABC transporter; permease protein HisQ (TC 3.A.1.3.1) 3 0.0050615 Threonine dehydrogenase and related Zn-dependent dehydrogenases 3 0.0050615 Outer membrane lipoprotein SmpA; a component of the essential YaeT outer-membrane 3protein0.0050615 assembly complex General secretion pathway protein E 3 0.0050615 Arsenical-resistance protein ACR3 3 0.0050615 Signal transduction histidine kinase SypF 3 0.0050615 Aminopeptidase C (EC 3.4.22.40) 3 0.0050615 D-Lactate dehydrogenase (EC 1.1.2.5) 3 0.0050615 Acetoin dehydrogenase E1 component beta-subunit (EC 1.2.4.-) 3 0.0050615 General secretion pathway protein K 3 0.0050615 Flagellar regulatory protein FleQ 3 0.0050615 Branched-chain alpha-keto acid dehydrogenase; E1 component; alpha subunit (EC 1.2.4.4)3 0.0050615 NAD-dependent formate dehydrogenase beta subunit 3 0.0050615 Phosphatidylglycerophosphatase B (EC 3.1.3.27) 3 0.0050615 Legionaminic acid cytidylyltransferase (EC 2.7.7.43) 3 0.0050615 Iron-sulfur cluster assembly ATPase protein SufC 3 0.0050615 Glutamate-ammonia-ligase adenylyltransferase (EC 2.7.7.42) 3 0.0050615 D-glycero-D-manno-heptose 1;7-bisphosphate phosphatase (EC 3.1.1.-) 3 0.0050615 RND efflux system; inner membrane transporter CmeB 3 0.0050615 Carbon starvation protein A 3 0.0050615 tRNA N6-threonylcarbamoyladenosine 2-methylthiotransferase (putative) 3 0.0050615 Chemotaxis regulator - transmits chemoreceptor signals to flagelllar motor components CheY3 0.0050615 FIG000557: hypothetical protein co-occurring with RecR 3 0.0050615 High-affnity carbon uptake protein Hat/HatR 3 0.0050615 N-methyltransferase (EC 2.1.1.-) 3 0.0050615 Formate dehydrogenase-O; major subunit (EC 1.2.1.2) 3 0.0050615 Predicted P-loop ATPase fused to an acetyltransferase COG1444 3 0.0050615 MoxR-like ATPase in aerotolerance operon 3 0.0050615
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Flagellar biosynthesis protein FlhB 3 0.0050615 V-type ATP synthase subunit C (EC 3.6.3.14) 3 0.0050615 Translation initiation factor 1A 3 0.0050615 YciL protein 3 0.0050615 FMN reductase (EC 1.5.1.29) 3 0.0050615 Pyrimidine ABC transporter; transmembrane component 2 3 0.0050615 Peptidase M23B precursor 3 0.0050615 Arginine/ornithine ABC transporter; ATP-binding protein AotP 3 0.0050615 Heat-inducible transcription repressor HrcA 3 0.0050615 InterPro IPR001440 COGs COG0457 3 0.0050615 Predicted b-glucoside-specific TonB-dependent outer membrane receptor 3 0.0050615 Gamma-glutamyl-GABAFor hydrolase Peer (EC 3.5.1.94) Review Only3 0.0050615 N-methylhydantoinase (ATP-hydrolyzing) (EC 3.5.2.14) 3 0.0050615 ADA regulatory protein 3 0.0050615 Thiamin ABC transporter; transmembrane component 3 0.0050615 Methylase of polypeptide chain release factors 3 0.0050615 2;3-dihydro-2;3-dihydroxybenzoate dehydrogenase (EC 1.3.1.28) [bacillibactin] siderophore3 0.0050615 D-beta-hydroxybutyrate dehydrogenase (EC 1.1.1.30) 3 0.0050615 Cyn operon transcriptional activator 3 0.0050615 Geranylgeranyl reductase (EC 1.3.1.83) 3 0.0050615 Glutamine amidotransferase; class-II 3 0.0050615 Phosphopantothenate synthetase; archaeal 3 0.0050615 UDP-glucuronate 5'-epimerase (EC 5.1.3.12) 3 0.0050615 Xylulose kinase (EC 2.7.1.17) 3 0.0050615 Superoxide dismutase [Cu-Zn] (EC 1.15.1.1) 3 0.0050615 LysR family transcriptional regulator PA0133 3 0.0050615 Photosystem II 13 kDa protein Psb28 (PsbW) 3 0.0050615 LSU ribosomal protein P0 (L10p) 3 0.0050615 Capsular polysaccharide synthesis enzyme CpsD; exopolysaccharide synthesis 3 0.0050615 LysR family transcriptional regulator YnfL 3 0.0050615 MSHA biogenesis protein MshQ 3 0.0050615 7;8-didemethyl-8-hydroxy-5-deazariboflavin synthase subunit 1 3 0.0050615 RNA polymerase associated protein RapA (EC 3.6.1.-) 3 0.0050615 Enterobactin exporter EntS 3 0.0050615 Propionyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.3) 3 0.0050615 Archaeal transcription factor E 3 0.0050615 Eukaryotic translation initiation factor 2 gamma subunit 3 0.0050615 NADPH-dependent methylglyoxal reductase (D-lactaldehyde dehydrogenase) 3 0.0050615 Glutaredoxin 3 (Grx3) 3 0.0050615 Universal stress protein family COG0589 3 0.0050615 Putrescine transport system permease protein PotH (TC 3.A.1.11.2) 3 0.0050615 Replication factor C large subunit 3 0.0050615 ABC transporter ATP-binding protein YvcR 3 0.0050615 Carbon monoxide dehydrogenase medium chain (EC 1.2.99.2) 3 0.0050615 Photosystem II protein PsbK 3 0.0050615 Possible hypoxanthine oxidase XdhD (EC 1.-.-.-) 3 0.0050615 RND efflux system; outer membrane lipoprotein; NodT family 3 0.0050615 Lipoate-protein ligase A 3 0.0050615 Arginine utilization regulatory protein RocR 3 0.0050615 Anaerobic dimethyl sulfoxide reductase chain A (EC 1.8.99.-) 3 0.0050615
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Leucine dehydrogenase (EC 1.4.1.9) 3 0.0050615 Glutathione S-transferase domain protein 3 0.0050615 Lysine/cadaverine antiporter membrane protein CadB 3 0.0050615 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) 3 0.0050615 Acetaldehyde dehydrogenase (EC 1.2.1.10) 3 0.0050615 Two-component response regulator CreC 3 0.0050615 LSU ribosomal protein L36p 3 0.0050615 photosystem I assembly related protein Ycf3 3 0.0050615 Glutaredoxin 3 (Grx2) 3 0.0050615 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases; large terminal3 subunit0.0050615 DNA polymerase X family 3 0.0050615 Multiple sugar ForABC transporter; Peer ATP-binding proteinReview Only3 0.0050615 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase (EC 1.2.1.60) 3 0.0050615 FIG045374: Type II restriction enzyme; methylase subunit YeeA 3 0.0050615 Pyrimidine ABC transporter; ATP-binding protein 3 0.0050615 SSU rRNA 3 0.0050615 NAD(P)-dependent glyceraldehyde 3-phosphate dehydrogenase archaeal (EC 1.2.1.59) 2 0.00337433 Phage baseplate-tail tube initiator 2 0.00337433 General secretion pathway protein G 2 0.00337433 RNA-binding protein Hfq 2 0.00337433 Urea ABC transporter; permease protein UrtB 2 0.00337433 Putative sulfate permease 2 0.00337433 PrpF protein involved in 2-methylcitrate cycle 2 0.00337433 Twitching motility protein PilT 2 0.00337433 Glycine/D-amino acid oxidase (deaminating) in putrescine utilization cluster 2 0.00337433 histone acetyltransferase; ELP3 family 2 0.00337433 C4 aminotransferase specific for PseB product (PseC; second step of pseudaminic acid biosynthesis)2 0.00337433 Urate oxidase (EC 1.7.3.3) 2 0.00337433 Arsenic efflux pump protein 2 0.00337433 LptA; protein essential for LPS transport across the periplasm 2 0.00337433 Ferredoxin-dependent glutamate synthase (EC 1.4.7.1) 2 0.00337433 Cytochrome O ubiquinol oxidase subunit II (EC 1.10.3.-) 2 0.00337433 Efflux pump Lde 2 0.00337433 Thiol:disulfide oxidoreductase associated with MetSO reductase 2 0.00337433 Heme biosynthesis protein related to NirL and NirH 2 0.00337433 DNA-directed RNA polymerase III largest subunit (EC 2.7.7.6) 2 0.00337433 Molybdopterin biosynthesis protein MoeB 2 0.00337433 Transcription factor S 2 0.00337433 Gluconokinase (EC 2.7.1.12) 2 0.00337433 Putative esterase; FIGfam005057 2 0.00337433 decarboxylase 2 0.00337433 Transcriptional regulator; MerR family; near polyamine transporter 2 0.00337433 Murein-DD-endopeptidase (EC 3.4.99.-) 2 0.00337433 Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) 2 0.00337433 3-dehydroquinate dehydratase I (EC 4.2.1.10) 2 0.00337433 Transcription initiation factor IIB 2 0.00337433 Electron transport complex protein RnfG 2 0.00337433 Light-dependent protochlorophyllide reductase (EC 1.3.1.33) 2 0.00337433 Chromosome (plasmid) partitioning protein ParB 2 0.00337433 Very-short-patch mismatch repair endonuclease (G-T specific) 2 0.00337433
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Pectin degradation protein KdgF 2 0.00337433 Acetoin dehydrogenase E1 component alpha-subunit (EC 1.2.4.-) 2 0.00337433 Sensor histidine protein kinase UhpB; glucose-6-phosphate specific (EC 2.7.13.3) 2 0.00337433 COG1306 predicted glycoside hydrolase 2 0.00337433 Regulatory sensor-transducer; BlaR1/MecR1 family 2 0.00337433 ABC-type probable sulfate transporter; ATPase component 2 0.00337433 Propionyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.3) 2 0.00337433 2-dehydro-3-deoxygluconate kinase (EC 2.7.1.45) 2 0.00337433 DNA primase (EC 2.7.7.-); phage-associated 2 0.00337433 Hemolysin activation/secretion protein associated with VreARI signalling system 2 0.00337433 2;3-dihydroxybiphenyl 1;2-dioxygenase 2 0.00337433 Alpha-glucosidaseFor (EC 3.2.1.20) Peer Review Only2 0.00337433 His repressor 2 0.00337433 Cobalt-precorrin-6x reductase (EC 1.3.1.54) 2 0.00337433 FIGfam010717 2 0.00337433 Predicted regulator of galactoside utilization; LacI family 2 0.00337433 Extracellular deoxyribonuclease Xds 2 0.00337433 Ferric enantio-pyochelin transport system periplasmic substrate-binding protein 2 0.00337433 CblX; a non-orthologous displasment for Alpha-ribazole-5'-phosphate phosphatase 2 0.00337433 photosystem I subunit III precursor; plastocyanin (cyt c553) docking protein (PsaF) 2 0.00337433 FIG037995: Hypothetical protein 2 0.00337433 Endonuclease IV (EC 3.1.21.2) 2 0.00337433 Nitrite reductase accessory protein NirV 2 0.00337433 Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4) 2 0.00337433 Coproporphyrinogen III oxidase; oxygen-independent (EC 1.3.99.22) 2 0.00337433 Outer membrane receptor proteins; mostly Fe transport 2 0.00337433 Pyridoxine biosynthesis glutamine amidotransferase; glutaminase subunit (EC 2.4.2.-) 2 0.00337433 FIG033680: Hypothetical protein 2 0.00337433 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA 2 0.00337433 SSU ribosomal protein S18e (S13p) 2 0.00337433 Aromatic hydrocarbon utilization transcriptional regulator CatR (LysR family) 2 0.00337433 ABC transporter involved in cytochrome c biogenesis; CcmB subunit 2 0.00337433 FIG143828: Hypothetical protein YbgA 2 0.00337433 Translation elongation factor 1 alpha-related protein 2 0.00337433 Acetoacetyl-CoA reductase (EC 1.1.1.36) 2 0.00337433 Xylanase 2 0.00337433 Urea ABC transporter; permease protein UrtC 2 0.00337433 Universal stress protein G 2 0.00337433 hemimethylated DNA binding protein YccV 2 0.00337433 Lipopolysaccharide biosynthesis protein WzxC 2 0.00337433 GTP cyclohydrolase III (EC 3.5.4.29) 2 0.00337433 Flagellar synthesis regulator FleN 2 0.00337433 Exopolysaccharide production protein ExoZ 2 0.00337433 Alkanesulfonates transport system permease protein 2 0.00337433 Respiratory nitrate reductase beta chain (EC 1.7.99.4) 2 0.00337433 Thiamine biosynthesis protein thiI 2 0.00337433 Transcriptional regulator HxlR; formaldehyde assimilation 2 0.00337433 ATP-dependent RNA helicase VC1407 2 0.00337433 Selenocysteine-specific translation elongation factor 2 0.00337433 Eukaryotic translation initiation factor 2 alpha subunit 2 0.00337433
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Unspecified gene from subsystem Pyruvate_metabolism_II:_acetyl-CoA;_acetogenesis_from_pyruvate2 0.00337433 Putative activity regulator of membrane protease YbbK 2 0.00337433 BatD 2 0.00337433 Sulfopyruvate decarboxylase - alpha subunit (EC 4.1.1.79) 2 0.00337433 Sulfide dehydrogenase [flavocytochrome C] flavoprotein chain precursor (EC 1.8.2.-) 2 0.00337433 Chemotaxis protein CheV (EC 2.7.3.-) 2 0.00337433 Acetyltransferase YpeA 2 0.00337433 Transcriptional regulator in cluster with beta-lactamase; GntR family 2 0.00337433 Arginine ABC transporter; permease protein ArtQ 2 0.00337433 Curli production assembly/transport component CsgF 2 0.00337433 Transcriptional repressor of PutA and PutP 2 0.00337433 Phenylacetate-CoAFor oxygenase; Peer PaaI subunit Review Only2 0.00337433 Aminopeptidase S (Leu; Val; Phe; Tyr preference) (EC 3.4.11.24) 2 0.00337433 benzoate degradation ring-cleavage hydrolase 2 0.00337433 Phage shock protein E 2 0.00337433 Phosphopantetheine adenylyltransferase; type II eukaryotic (EC 2.7.7.3) 2 0.00337433 Flagellar protein FlgJ [peptidoglycan hydrolase] (EC 3.2.1.-) 2 0.00337433 Anaerobic glycerol-3-phosphate dehydrogenase subunit C (EC 1.1.5.3) 2 0.00337433 Aerobic cobaltochelatase CobT subunit (EC 6.6.1.2) 2 0.00337433 Lin2022 protein 2 0.00337433 Hypothetical protein; DUF192 family 2 0.00337433 internalin; putative (LPXTG motif) 2 0.00337433 Photosystem II stability/assembly factor HCF136/Ycf48 2 0.00337433 Glutamyl-tRNA(Gln) amidotransferase transferase subunit (EC 6.3.5.7) 2 0.00337433 Mercuric ion reductase (EC 1.16.1.1) 2 0.00337433 Outer membrane protein/protective antigen OMA87 2 0.00337433 2-succinyl-6-hydroxy-2;4-cyclohexadiene-1-carboxylate synthase (EC 4.2.99.20) 2 0.00337433 Sirohydrochlorin cobaltochelatase (EC 4.99.1.3) 2 0.00337433 Pyrimidine ABC transporter; transmembrane component 1 2 0.00337433 Putative heat shock protein YegD 2 0.00337433 Nicotinamide-nucleotide adenylyltransferase; NadM family (EC 2.7.7.1) 2 0.00337433 DedA protein 2 0.00337433 toluenesulfonate zinc-independent alcohol dehydrogenase 2 0.00337433 Vanillate O-demethylase oxidoreductase (EC 1.14.13.-) 2 0.00337433 Cytochrome b6-f complex subunit VIII (PetN) 2 0.00337433 Sulfite reductase; dissimilatory-type gamma subunit (EC 1.8.99.3) 2 0.00337433 Positive regulator of CheA protein activity (CheW) 2 0.00337433 Nudix hydrolase family protein PA3470 2 0.00337433 Copper resistance protein D 2 0.00337433 SSU ribosomal protein S15Ae (S8p) 2 0.00337433 Copper tolerance protein 2 0.00337433 FIG002708: Protein SirB1 2 0.00337433 Flagellar biosynthesis protein FlhF 2 0.00337433 HTH-type transcriptional regulator IlvY 2 0.00337433 CO dehydrogenases maturation factor; CoxF family 2 0.00337433 Zinc ABC transporter; periplasmic-binding protein ZnuA 2 0.00337433 Coenzyme F420-dependent oxidoreductase 2 0.00337433 CDS_ID OB2202 2 0.00337433 Similar to TadZ/CpaE; associated with Flp pilus assembly 2 0.00337433 lignostilbene-alpha;beta-dioxygenase 2 0.00337433
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transcriptional regulator; Crp/Fnr family 2 0.00337433 Copper-sensing two-component system response regulator CpxR 2 0.00337433 Pyridoxine biosynthesis glutamine amidotransferase; synthase subunit (EC 2.4.2.-) 2 0.00337433 Carboxynorspermidine dehydrogenase; putative (EC 1.1.1.-) 2 0.00337433 Maltose/maltodextrin ABC transporter; permease protein MalG 2 0.00337433 Similar to phosphoglycolate phosphatase; clustered with ubiquinone biosynthesis SAM-dependent2 0.00337433 O-methyltransferase Flavodoxin 1 2 0.00337433 Arginine pathway regulatory protein ArgR; repressor of arg regulon 2 0.00337433 Dipeptide transport ATP-binding protein DppF (TC 3.A.1.5.2) 2 0.00337433 Predicted rhamnogalacturonan lyase in rhamnose utilization cluster 2 0.00337433 L-fucose mutarotase 2 0.00337433 Predicted regulatorFor PutR for Peerproline utilization; Review GntR family Only2 0.00337433 DNA-binding HTH domain in riboflavin kinase 2 0.00337433 CRISPR-associated helicase Cas3 2 0.00337433 Beta-xylosidase (EC 3.2.1.37) 2 0.00337433 N-Acetyl-D-glucosamine ABC transport system; permease protein 2 2 0.00337433 Predicted signal transduction protein 2 0.00337433 Sulfur oxidation protein SoxB 2 0.00337433 TrkA-N:Sodium/hydrogen exchanger 2 0.00337433 Alpha-galactosidase precursor (EC 3.2.1.22) 2 0.00337433 Integral membrane protein CcmA involved in cell shape determination 2 0.00337433 Peptide transport system permease protein sapB (TC 3.A.1.5.5) 2 0.00337433 Acetaldehyde dehydrogenase; ethanolamine utilization cluster 2 0.00337433 Sulfate transporter; CysZ-type 2 0.00337433 Putative antibiotic transport-associated protein 2 0.00337433 CobW GTPase involved in cobalt insertion for B12 biosynthesis 2 0.00337433 Phosphoethanolamine transferase specific for the outer Kdo residue of lipopolysaccharide2 0.00337433 Aspartate carbamoyltransferase regulatory chain (PyrI) 2 0.00337433 Phage portal protein 2 0.00337433 Uncharacterized ATP-dependent helicase MJ0294 2 0.00337433 Cytosine deaminase (EC 3.5.4.1) 2 0.00337433 Cell division control protein 6 2 0.00337433 Membrane Protein Functionally coupled to the MukBEF Chromosome Partitioning Mechanism2 0.00337433 Death on curing protein; Doc toxin 2 0.00337433 Dephospho-CoA kinase archaeal; predicted (EC 2.7.1.24) 2 0.00337433 Isocitrate dehydrogenase [NAD] (EC 1.1.1.41) 2 0.00337433 Iron-uptake factor PiuB 2 0.00337433 conserved protein associated with acetyl-CoA C-acyltransferase 2 0.00337433 Organic hydroperoxide resistance transcriptional regulator 2 0.00337433 Phage integrase 2 0.00337433 Lysophospholipase L2 (EC 3.1.1.5) 2 0.00337433 DNA-directed RNA polymerase subunit E' (EC 2.7.7.6) 2 0.00337433 ABC-type protease exporter; membrane fusion protein (MFP) family component PrtE/AprE2 0.00337433 Polyhydroxyalkanoic acid synthase 2 0.00337433 Ferredoxin--NADP(+) reductase; actinobacterial (eukaryote-like) type (EC 1.18.1.2) 2 0.00337433 TesB-like acyl-CoA thioesterase 1 2 0.00337433 Functional role page for Anaerobic nitric oxide reductase transcription regulator NorR 2 0.00337433 Maltose/maltodextrin ABC transporter; permease protein MalF 2 0.00337433 Erythritol transcriptional regulator EryD 2 0.00337433 Rubredoxin 2 0.00337433
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4-oxalocrotonate tautomerase (EC 5.3.2.-) 2 0.00337433 Outer membrane lipoprotein LolB precursor 2 0.00337433 Gluconate permease; Bsu4004 homolog 2 0.00337433 Glycine dehydrogenase [decarboxylating] (glycine cleavage system P1 protein) (EC 1.4.4.2)2 0.00337433 Isochorismatase (EC 3.3.2.1) 2 0.00337433 3-polyprenyl-4-hydroxybenzoate carboxy-lyase UbiX (EC 4.1.1.-) 2 0.00337433 photosystem I subunit IX (PsaJ) 2 0.00337433 Legionaminic acid synthase (EC 2.5.1.56) 2 0.00337433 ATP-dependent RNA helicase SrmB 2 0.00337433 Sulfopyruvate decarboxylase - beta subunit (EC 4.1.1.79) 2 0.00337433 Rubisco activation protein CbbQ 2 0.00337433 D-erythrose-4-phosphateFor dehydrogenase Peer (EC 1.2.1.72)Review Only2 0.00337433 ATP synthase protein I 2 0.00337433 D-alanine--poly(phosphoribitol) ligase subunit 1 (EC 6.1.1.13) 2 0.00337433 Citronellyl-CoA dehydrogenase 2 0.00337433 Flagellar basal-body rod protein FlgF 2 0.00337433 Bacterioferritin 2 0.00337433 Nitrate/nitrite sensor protein (EC 2.7.3.-) 2 0.00337433 benABC operon transcriptional activator BenR 2 0.00337433 Translation elongation factor 3 2 0.00337433 Outer membrane protein W precursor 2 0.00337433 Phage collar 2 0.00337433 Exodeoxyribonuclease V alpha chain (EC 3.1.11.5) 2 0.00337433 Propionate catabolism operon transcriptional regulator of GntR family [predicted] 2 0.00337433 Flagellar basal-body rod protein FlgG 2 0.00337433 Cephalosporin hydroxylase 2 0.00337433 SSU ribosomal protein S3e (S3p) 2 0.00337433 Alpha-1;4-N-acetylgalactosamine transferase PglH (EC 2.4.1.-) 2 0.00337433 S-adenosylmethionine decarboxylase proenzyme (EC 4.1.1.50); prokaryotic class 1B 2 0.00337433 Predicted endonuclease distantly related to archaeal Holliday junction resolvase 2 0.00337433 Chromosome (plasmid) partitioning protein ParA 2 0.00337433 ammonium/methylammonium permease 2 0.00337433 Putative coproporphyrinogen III oxidase of BS HemN-type; oxygen-independent (EC 1.3.99.22);2 0.00337433 in heat shock gene cluster Flp pilus assembly protein TadD; contains TPR repeat 2 0.00337433 Hydroxymethylpyrimidine ABC transporter; ATPase component 2 0.00337433 Putative dioxygenase; alpha subunit (EC 1.-.-.-) 2 0.00337433 Xanthine dehydrogenase; FAD binding subunit (EC 1.17.1.4) 2 0.00337433 Phospholipase/carboxylesterase family protein; sll1284 homolog 2 0.00337433 Choline kinase (EC 2.7.1.32) 2 0.00337433 FIG138315: Putative alpha helix protein 2 0.00337433 Glycerol uptake facilitator protein 2 0.00337433 Foldase protein PrsA precursor (EC 5.2.1.8) 2 0.00337433 Transport ATP-binding protein CydCD 2 0.00337433 Multiple antibiotic resistance protein MarC 2 0.00337433 Cytochrome O ubiquinol oxidase subunit I (EC 1.10.3.-) 2 0.00337433 COG1720: Uncharacterized conserved protein 2 0.00337433 LSU ribosomal protein L1e (L4p) 2 0.00337433 Pantoate kinase; archaeal (EC 2.7.1.-) 2 0.00337433 L-Proline/Glycine betaine transporter ProP 2 0.00337433 5'-methylthioadenosine phosphorylase (EC 2.4.2.28) 2 0.00337433
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ChlI component of cobalt chelatase involved in B12 biosynthesis 2 0.00337433 Fibrillarin 2 0.00337433 Cyclopropane-fatty-acyl-phospholipid synthase-like protein; clusters with FIG005069 2 0.00337433 Flagellar biosynthesis protein FliQ 2 0.00337433 Lysophospholipase (EC 3.1.1.5) 2 0.00337433 Alpha-1;4-N-acetylgalactosamine transferase PglJ (EC 2.4.1.-) 2 0.00337433 BatB 2 0.00337433 Glucosamine 6-phosphate N-acetyltransferase (EC 2.3.1.4) 2 0.00337433 L-seryl-tRNA(Sec) selenium transferase (EC 2.9.1.1) 2 0.00337433 Phage major capsid protein 2 0.00337433 Predicted galactoside ABC transporter; sugar-binding protein 2 0.00337433 LSU ribosomal proteinFor L12a (P1/P2)Peer Review Only2 0.00337433 Phosphonopyruvate decarboxylase (EC 4.1.1.82) 2 0.00337433 FIG001590: Putative conserved exported protein precursor 2 0.00337433 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) 2 0.00337433 Molybdenum transport ATP-binding protein ModC (TC 3.A.1.8.1) 2 0.00337433 2-methylcitrate dehydratase FeS dependent (EC 4.2.1.79) 2 0.00337433 Kup system potassium uptake protein 2 0.00337433 Flagellar basal-body rod protein FlgC 2 0.00337433 Xylose ABC transporter; permease protein XylH 2 0.00337433 Sensor protein basS/pmrB (EC 2.7.3.-) 2 0.00337433 L-pipecolate oxidase (1.5.3.7) 2 0.00337433 DNA-directed RNA polymerase subunit D (EC 2.7.7.6) 2 0.00337433 ABC-type tungstate transport system; periplasmic binding protein 2 0.00337433 Choline binding protein A 2 0.00337433 Mycothiol S-conjugate amidase Mca 2 0.00337433 PTS system; cellobiose-specific IIC component (EC 2.7.1.69) 2 0.00337433 Formate hydrogenlyase transcriptional activator 2 0.00337433 Histidine ABC transporter; ATP-binding protein HisP (TC 3.A.1.3.1) 2 0.00337433 Tetrachloroethene reductive dehalogenase PceA (EC 1.97.1.8) 2 0.00337433 Type IV fimbrial biogenesis protein PilW 2 0.00337433 Integral membrane sensor signal transduction histidine kinase (EC 2.7.13.3); glucose catabolism2 0.00337433 cluster Uridine kinase (EC 2.7.1.48) [C1] 2 0.00337433 N-acetylmannosaminyltransferase (EC 2.4.1.187) 2 0.00337433 Phage endolysin 2 0.00337433 diguanylate cyclase (GGDEF domain) with PAS/PAC sensor 2 0.00337433 Phage terminase large subunit 2 0.00337433 T7-like phage primase/helicase protein 2 0.00337433 DNA-directed RNA polymerases I; II; and III 27 kDa polypeptide (EC 2.7.7.6) 2 0.00337433 Xanthosine permease 2 0.00337433 Photosystem II protein PsbI 2 0.00337433 Predicted L-rhamnose ABC transporter; transmembrane component 1 2 0.00337433 Phosphoribulokinase (EC 2.7.1.19) 2 0.00337433 Radical SAM domain heme biosynthesis protein 2 0.00337433 3-hydroxy-3isohexenylglutaryl-CoA:acetate lyase 2 0.00337433 LuxA; luciferase alpha chain (EC 1.14.14.3) 2 0.00337433 DNA polymerase sliding clamp protein PCNA 2 0.00337433 RNA polymerase sigma factor RpoS 2 0.00337433 Aldehyde dehydrogenase (EC 1.2.1.3); PaaZ 2 0.00337433 Flagellin protein FlaA 2 0.00337433
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Mesaconyl-CoA hydratase 2 0.00337433 Nicotinate phosphoribosyltransferase (EC 2.4.2.11) 2 0.00337433 Histidinol-phosphatase [alternative form] (EC 3.1.3.15) 2 0.00337433 Sensory histidine kinase BaeS 2 0.00337433 N-carbamoylsarcosine amidase (EC 3.5.1.59) 2 0.00337433 Inner membrane protein YhaI 2 0.00337433 Melibiose carrier protein; Na+/melibiose symporter 2 0.00337433 Cytochrome b6-f complex subunit IV (PetD) 2 0.00337433 MSHA pilin protein MshA 2 0.00337433 Trimethylamine-N-oxide reductase (Cytochrome c) (EC 1.7.2.3) 2 0.00337433 4-alpha-glucanotransferase (amylomaltase) (EC 2.4.1.25) 2 0.00337433 Phage terminase;For small subunit Peer Review Only2 0.00337433 Sialidase (EC 3.2.1.18) 2 0.00337433 Bacterial luciferase family protein YtmO; in cluster with L-cystine ABC transporter 2 0.00337433 Phosphoenolpyruvate-dihydroxyacetone phosphotransferase (EC 2.7.1.121); ADP-binding1 subunit0.00168717 DhaL Chromosome partition protein MukB 1 0.00168717 Flagellin protein FlaG 1 0.00168717 Putative Zn-dependent hydrolase in polyisoprenoid biosynthetic cluster 1 0.00168717 Tryptophan 2-monooxygenase (EC 1.13.12.3) 1 0.00168717 Predicted Zn-ribbon RNA-binding protein with a function in translation 1 0.00168717 Manganese uptake regulation protein MUR 1 0.00168717 Alpha-N-arabinofuranosidase (EC 3.2.1.55) 1 0.00168717 Peptidyl-tRNA hydrolase; archaeal type (EC 3.1.1.29) 1 0.00168717 O-acetyltransferase; anthrose biosynthesis 1 0.00168717 Protein YcgL 1 0.00168717 DotC protein 1 0.00168717 Rhodanese-like domain required for thiamine synthesis 1 0.00168717 LuxB; luciferase beta chain (EC 1.14.14.3) 1 0.00168717 TesB-like acyl-CoA thioesterase 3 1 0.00168717 DNA helicase IV 1 0.00168717 Phytochelatin synthase (EC 2.3.2.15); bacterial type 1 0.00168717 3;7-dideoxy-D-threo-hepto-2; 6-diulosonate synthase (EC 4.2.3.-) 1 0.00168717 Multidrug efflux transporter MexF 1 0.00168717 Sulfur oxidation molybdopterin C protein 1 0.00168717 ATP-dependent protease La (EC 3.4.21.53) Type II 1 0.00168717 Cold shock protein CspD 1 0.00168717 Cold shock protein CspB 1 0.00168717 Two-component response regulator yesN; associated with MetSO reductase 1 0.00168717 Chemotaxis response regulator protein-glutamate methylesterase CheB (EC 3.1.1.61) 1 0.00168717 ATPase component of general energizing module of ECF transporters 1 0.00168717 Malate:quinone oxidoreductase (EC 1.1.5.4) 1 0.00168717 DNA-directed RNA polymerase gamma subunit (EC 2.7.7.6); chloroplast 1 0.00168717 Pyrimidine deaminase archaeal predicted (EC 3.5.4.26) 1 0.00168717 Hydrogenase-4 component B (EC 1.-.-.-) 1 0.00168717 LSU ribosomal protein L7Ae 1 0.00168717 DNA-directed RNA polymerase II 13.2 kDa polypeptide (EC 2.7.7.6) 1 0.00168717 Anaerobic dimethyl sulfoxide reductase chain C (EC 1.8.99.-) 1 0.00168717 Uncharacterized protein YphG; TPR-domain containing 1 0.00168717 photosystem I assembly related protein Ycf37 1 0.00168717 Pectate lyase precursor (EC 4.2.2.2) 1 0.00168717
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ABC-type hemin transport system; ATPase component 1 0.00168717 Phosphatidylcholine synthase (EC 2.7.8.24) 1 0.00168717 L-Cystine ABC transporter; permease protein TcyB 1 0.00168717 Na/Pi cotransporter II-related protein 1 0.00168717 LSU ribosomal protein L13Ae (L13p) 1 0.00168717 L-Cystine ABC transporter; periplasmic cystine-binding protein 1 0.00168717 tRNA 2-thiouridine synthesizing protein E (EC 2.8.1.-) 1 0.00168717 4-hydroxyphenylacetate 3-monooxygenase; reductase component (EC 1.6.8.-) 1 0.00168717 Translation elongation factor P-related protein 1 0.00168717 Probable thioesterase involved in non-ribosomal peptide biosynthesis; PA2411 homolog 1 0.00168717 Methyltransferase; anthrose biosynthesis 1 0.00168717 cAMP-dependentFor Kef-type K+Peer transport system Review Only1 0.00168717 Glycine betaine ABC transport system; glycine betaine-binding protein OpuAC 1 0.00168717 Biofilm PGA synthesis N-glycosyltransferase PgaC (EC 2.4.-.-) 1 0.00168717 Outer membrane lipoprotein carrier protein LolA 1 0.00168717 Pyoverdine sidechain non-ribosomal peptide synthetase PvdI 1 0.00168717 Conjugative transfer protein TrbJ 1 0.00168717 Squalene--hopene cyclase (EC 5.4.99.17) 1 0.00168717 Inositol oxygenase (EC 1.13.99.1) 1 0.00168717 omega-3 polyunsaturated fatty acid synthase subunit; PfaB 1 0.00168717 FIG003492: Threonine dehydrogenase and related Zn-dependent dehydrogenases 1 0.00168717 Capsular polysaccharide export system periplasmic protein KpsD 1 0.00168717 Trimethylamine-N-oxide reductase (EC 1.6.6.9) 1 0.00168717 Hydantoin racemase (EC 5.1.99.-) 1 0.00168717 Pole remodelling regulatory diguanylate cyclase 1 0.00168717 Predicted galactoside ABC transporter type II; sugar-binding protein 1 0.00168717 Isopentenyl phosphate kinase 1 0.00168717 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters 1 0.00168717 carbon monoxide dehydrogenase D protein 1 0.00168717 Lactate-responsive regulator LldR in Firmicutes; GntR family 1 0.00168717 DNA recombination-dependent growth factor C 1 0.00168717 Positive regulator of phenol hydroxylase 1 0.00168717 ATPase provides energy for both assembly of type IV secretion complex and secretion of T-DNA1 0.00168717 complex (VirB4) Lipoteichoic acid synthase LtaS Type IVa 1 0.00168717 Endo-beta-1;3-1;4 glucanase (Licheninase) (EC 3.2.1.73) 1 0.00168717 Putative diheme cytochrome c-553 1 0.00168717 tRNA (cm5uracil34-C5-)-methyltranferase (EC 2.1.1.-) 1 0.00168717 Enterobactin synthetase component F; serine activating enzyme (EC 2.7.7.-) 1 0.00168717 Alpha-glucoside transport ATP-binding protein AglK 1 0.00168717 RNA polymerase sigma factor SigZ 1 0.00168717 Possible subunit variant of phosphoribosylaminoimidazolecarboxamide formyltransferase1 [alternate0.00168717 form] Putative regulatory protein associated with the ectoine operon 1 0.00168717 PF00070 family; FAD-dependent NAD(P)-disulphide oxidoreductase 1 0.00168717 2-ketogluconate transporter 1 0.00168717 Cinnamoyl-CoA reductase (EC 1.2.1.44) 1 0.00168717 ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein; LigD 1 0.00168717 DNA repair exonuclease family protein YhaO 1 0.00168717 2-oxo-hepta-3-ene-1;7-dioic acid hydratase (EC 4.2.-.-) 1 0.00168717 CRISPR-associated protein; CT1133 family 1 0.00168717 Trimethylamine:corrinoid methyltransferase 1 0.00168717
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Saccharopine dehydrogenase [NAD+; L-lysine-forming] (EC 1.5.1.7) 1 0.00168717 Chromosome partitioning protein ParA 1 0.00168717 MAP kinase kinase kinase MAP3K1 1 0.00168717 BarA sensory histidine kinase (= VarS = GacS) 1 0.00168717 Flagellar L-ring protein FlgH 1 0.00168717 Response regulator LiaR 1 0.00168717 MAP kinase kinase MAP2K4 1 0.00168717 Heteropolysaccharide repeat unit export protein 1 0.00168717 General secretion pathway protein J 1 0.00168717 Ribosome protection-type tetracycline resistance related proteins; group 2 1 0.00168717 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase (EC 5.3.1.17) 1 0.00168717 Universal stressFor protein E Peer Review Only1 0.00168717 G:T/U mismatch-specific uracil/thymine DNA-glycosylase 1 0.00168717 3-oxoacyl-[ACP] synthase (EC 2.3.1.41) FabV like 1 0.00168717 Glutaredoxin 1 1 0.00168717 Sorbitol-6-phosphate 2-dehydrogenase (EC 1.1.1.140) 1 0.00168717 Inner membrane protein forms channel for type IV secretion of T-DNA complex (VirB3) 1 0.00168717 TniQ 1 0.00168717 SSU ribosomal protein S19e 1 0.00168717 Protein gp63 [Bacteriophage A118] 1 0.00168717 Outer membrane protein C precursor 1 0.00168717 NAD-dependent formate dehydrogenase delta subunit 1 0.00168717 Predicted glucose transporter in maltodextrin utilization gene cluster 1 0.00168717 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) 1 0.00168717 General secretion pathway protein C 1 0.00168717 Type II/IV secretion system protein TadC; associated with Flp pilus assembly 1 0.00168717 Phosphoheptose isomerase 2 (EC 5.3.1.-) 1 0.00168717 Arabinan endo-1;5-alpha-L-arabinosidase (EC 3.2.1.99) 1 0.00168717 fumarate reductase/succinate dehydrogenase flavoprotein; N-terminal:FAD dependent oxidoreductase1 0.00168717 Methylglyoxal synthase (EC 4.2.3.3) 1 0.00168717 Sugar kinase YihV 1 0.00168717 Redox-sensitive transcriptional regulator (AT-rich DNA-binding protein) 1 0.00168717 4-hydroxybenzoyl-CoA reductase; beta subunit (EC 1.3.99.20) 1 0.00168717 DNA topoisomerase IB (poxvirus type) (EC 5.99.1.2) 1 0.00168717 L-fuculose phosphate aldolase (EC 4.1.2.17) 1 0.00168717 L-rhamnose-1-dehydrogenase ( EC 1.1.1.173) 1 0.00168717 Carbamate kinase (EC 2.7.2.2) 1 0.00168717 Phosphonate ABC transporter permease protein phnE2 (TC 3.A.1.9.1) 1 0.00168717 Two-component response regulator SA14-24 1 0.00168717 Outer membrane ferripyoverdine receptor 1 0.00168717 IcmB (DotO) protein 1 0.00168717 ABC-type probable sulfate transporter; periplasmic binding protein 1 0.00168717 Toluene-4-monooxygenase; subunit TmoF 1 0.00168717 Coenzyme PQQ synthesis protein B 1 0.00168717 Thioredoxin-like protein clustered with PA0057 1 0.00168717 PhnB protein 1 0.00168717 Hydrolase (HAD superfamily) in cluster with DUF1447 1 0.00168717 Nudix dNTPase DR0329 (EC 3.6.1.-) 1 0.00168717 LSU ribosomal protein L9e (L6p) 1 0.00168717 Predicted cell-wall-anchored protein SasA (LPXTG motif) 1 0.00168717
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Fructokinase in mannitol utilization gene cluster (EC 2.7.1.4) 1 0.00168717 Iron binding protein IscA for iron-sulfur cluster assembly 1 0.00168717 Catalase (EC 1.11.1.6) 1 0.00168717 Transposase OrfAB; subunit B 1 0.00168717 ABC transporter in pyoverdin gene cluster; ATP-binding component 1 0.00168717 Sigma-54 dependent transcriptional regulator 1 0.00168717 Acetyl-CoA synthetase (ADP-forming) alpha chain (EC 6.2.1.13) 1 0.00168717 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB 1 0.00168717 Predicted cell-wall-anchored protein SasC (LPXTG motif) 1 0.00168717 Protein acetyltransferase 1 0.00168717 Flagellar hook-basal body complex protein FliE 1 0.00168717 Catalyzes the cleavageFor of p-aminobenzoyl-glutamate Peer Review to p-aminobenzoate Onlyand glutamate; 1subunit0.00168717 A Molybdate-binding domain of ModE 1 0.00168717 LSU ribosomal protein L3e (L3p) 1 0.00168717 ABC alpha-glucoside transporter; inner membrane subunit AglF 1 0.00168717 MSHA pilin protein MshD 1 0.00168717 Putative phosphatase YqaB 1 0.00168717 hypothetical protein that often co-occurs with aconitase 1 0.00168717 Clostridium cellulosome enzyme; dockerin type I precursor 1 0.00168717 BatC 1 0.00168717 Transport ATP-binding protein CydD 1 0.00168717 Prophage Clp protease-like protein 1 0.00168717 Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) 1 0.00168717 tRNA-dihydrouridine synthase C (EC 1.-.-.-) 1 0.00168717 Glutaredoxin 2 1 0.00168717 Protein serine/threonine phosphatase PrpC; regulation of stationary phase 1 0.00168717 OpcA; an allosteric effector of glucose-6-phosphate dehydrogenase; actinobacterial 1 0.00168717 Copper resistance protein B 1 0.00168717 BarA-associated response regulator UvrY (= GacA = SirA) 1 0.00168717 Transcriptional regulator of fucose utilization; GntR family 1 0.00168717 Phage-associated cell wall hydrolase 1 0.00168717 Phage lysin; N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) 1 0.00168717 Putative GTP-binding protien TM0445 1 0.00168717 1st GPH family transporter in unknown oligosaccharide utilization Sde 1396 1 0.00168717 Phosphoesterase; DHH family protein 1 0.00168717 Transcriptional regulator FrcR for fructose utilization; ROK family 1 0.00168717 Capsular polysaccharide synthesis enzyme Cap5L 1 0.00168717 Rubredoxin-NAD(+) reductase (EC 1.18.1.1) 1 0.00168717 O-antigen ligase 1 0.00168717 Similar to ribosomal large subunit pseudouridine synthase A 1 0.00168717 Arabinogalactan endo-1;4-beta-galactosidase (EC 3.2.1.89) 1 0.00168717 IcmF-related protein 1 0.00168717 DNA-directed RNA polymerase subunit A'' (EC 2.7.7.6) 1 0.00168717 D-xylose transport ATP-binding protein XylG 1 0.00168717 3-oxoadipate CoA-transferase subunit A (EC 2.8.3.6) 1 0.00168717 Kynurenine formamidase; bacterial (EC 3.5.1.9) 1 0.00168717 Cold shock protein CspC 1 0.00168717 Alpha-ribazole-5'-phosphate phosphatase (EC 3.1.3.73) 1 0.00168717 LSU ribosomal protein L12e (L11p) 1 0.00168717 Paraquat-inducible protein A 1 0.00168717
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Alkanesulfonate utilization operon LysR-family regulator CbI 1 0.00168717 Various polyols ABC transporter; permease component 1 1 0.00168717 Alkanesulfonate monooxygenase (EC 1.14.14.5) 1 0.00168717 Amidase clustered with urea ABC transporter and nitrile hydratase functions 1 0.00168717 Oxidoreductase probably involved in sulfite reduction 1 0.00168717 Type III secretion inner membrane channel protein (LcrD;HrcV;EscV;SsaV) 1 0.00168717 Thiazole biosynthesis protein ThiH 1 0.00168717 Succinyl-CoA synthetase; alpha subunit-related enzymes 1 0.00168717 Mannose-1-phosphate guanylyltransferase (EC 2.7.7.13 ) 1 0.00168717 Alfa-L-rhamnosidase (EC 3.2.1.40) 1 0.00168717 Nitrate ABC transporter; nitrate-binding protein 1 0.00168717 carbon monoxideFor dehydrogenase Peer E protein Review Only1 0.00168717 Long-chain fatty acid transport protein 1 0.00168717 Glycogen debranching enzyme (EC 3.2.1.-) 1 0.00168717 FIG009886: phosphoesterase 1 0.00168717 tRNA-dependent lipid II--amino acid ligase 1 0.00168717 Stage IV sporulation pro-sigma-K processing enzyme (SpoIVFB) 1 0.00168717 Dimeric dUTPase (EC 3.6.1.23) 1 0.00168717 Glucans biosynthesis protein G precursor 1 0.00168717 Alternative Folylglutamate Synthase 1 0.00168717 Type III secretion inner membrane protein (YscT;HrcT;SpaR;EscT;EpaR1;homologous to flagellar1 0.00168717 export components) probable exported protein YPO3233 1 0.00168717 Cytosine permease 1 0.00168717 UDP-Bac2Ac4Ac hydrolyzing 2-epimerase NeuC homolog 1 0.00168717 hypothetical protein ssl1918 1 0.00168717 Methylamine utilization protein MauD 1 0.00168717 Internalin-like protein (LPXTG motif) Lmo0610 homolog 1 0.00168717 Inosine-guanosine kinase (EC 2.7.1.73) 1 0.00168717 Glycine cleavage system transcriptional activator GcvA 1 0.00168717 Flagellar biosynthesis protein FliS 1 0.00168717 Carboxypeptidase T (EC 3.4.17.18) 1 0.00168717 TATA-box binding protein 1 0.00168717 Possible pyrimidine permease in reductive pathway 1 0.00168717 Putative DNA-binding protein in cluster with Type I restriction-modification system 1 0.00168717 Putative cytoplasmic protein clustered with trehalase 1 0.00168717 Dehydrogenase flavoprotein LodB 1 0.00168717 Glucans biosynthesis glucosyltransferase H (EC 2.4.1.-) 1 0.00168717 Probable outer membrane component of multidrug efflux pump 1 0.00168717 Chemotaxis protein CheX 1 0.00168717 FIG002344: Hydrolase (HAD superfamily) 1 0.00168717 Nudix-like NDP and NTP phosphohydrolase YmfB 1 0.00168717 Glycosyl transferase; group 2 family protein 1 0.00168717 Folate transporter 3 1 0.00168717 ABC transporter multidrug efflux pump; fused ATP-binding domains 1 0.00168717 MSHA biogenesis protein MshG 1 0.00168717 Alpha-2-macroglobulin 1 0.00168717 LrgA-associated membrane protein LrgB 1 0.00168717 Not a Proline racemase; nor 4-hydroxyproline epimerase [missing catalytic residues] 1 0.00168717 IncF plasmid conjugative transfer pilus assembly protein TraH 1 0.00168717 hypothetical protein BH3604 1 0.00168717
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Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2)1 0.00168717 Cell envelope-associated transcriptional attenuator LytR-CpsA-Psr; subfamily A1 (as in PMID19099556)1 0.00168717 anti sigma b factor antagonist RsbV 1 0.00168717 Biotin sulfoxide reductase (EC 1.-.-.-) 1 0.00168717 Uncharacterized protein YeaC 1 0.00168717 DNA-directed RNA polymerase subunit P (EC 2.7.7.6) 1 0.00168717 TonB system biopolymer transport component 1 0.00168717 Phage lysozyme 1 0.00168717 LSU ribosomal protein L37e 1 0.00168717 Sucrose operon repressor ScrR; LacI family 1 0.00168717 Ethanolamine utilization protein EutQ 1 0.00168717 SSU ribosomal Forprotein S4e Peer Review Only1 0.00168717 Ferrichrome-binding periplasmic protein precursor (TC 3.A.1.14.3) 1 0.00168717 Universal stress protein A 1 0.00168717 Membrane-bound lytic murein transglycosylase C precursor (EC 3.2.1.-) 1 0.00168717 Conjugative transfer protein TrbN 1 0.00168717 YbbM seven transmembrane helix protein 1 0.00168717 Carnitine racemase (EC 5.-.-.-) 1 0.00168717 YcgN (Fragment) 1 0.00168717 Coenzyme PQQ synthesis protein A 1 0.00168717 UPF0335 protein R02793 1 0.00168717 LSU ribosomal protein L23e (L14p) 1 0.00168717 CMP-N-acetylneuraminate-beta-galactosamide-alpha-2;3-sialyltransferase (EC 2.4.99.-) 1 0.00168717 Protein YhjJ; putative peptidase 1 0.00168717 Electron transport complex protein RnfD 1 0.00168717 Transcriptional regulator NanR 1 0.00168717 LSU ribosomal protein L19e 1 0.00168717 Monoamine oxidase (1.4.3.4) 1 0.00168717 Chorismate mutase II (EC 5.4.99.5) 1 0.00168717 Gamma-glutamyl-putrescine synthetase (EC 6.3.1.11) 1 0.00168717 D-xylose 1-dehydrogenase (EC 1.1.1.175) 1 0.00168717 Putative sugar ABC transport system; ATP-binding protein YtfR (EC 3.6.3.17) 1 0.00168717 3-oxoacyl-[ACP] reductase (EC 1.1.1.100) 1 0.00168717 ABC-type Fe3+-siderophore transport system; permease 2 component 1 0.00168717 Coagulation factor XIa; protease S01.213 1 0.00168717 nonspecific lipid-transfer protein (acethyl CoA synthetase) 1 0.00168717 Coenzyme PQQ synthesis protein C 1 0.00168717 Crotonyl-CoA carboxylase/reductase; ethylmalonyl-CoA producing 1 0.00168717 Phosphoenolpyruvate carboxykinase [GTP] (EC 4.1.1.32) 1 0.00168717 Glutamyl endopeptidase precursor (EC 3.4.21.19); blaSE 1 0.00168717 General secretion pathway protein I 1 0.00168717 Polysaccharide biosynthesis protein CpsM(V) 1 0.00168717 Hemoglobin-like protein HbO 1 0.00168717 Sensor histidine kinase ResE (EC 2.7.3.-) 1 0.00168717 Cytochrome C550 (Soluble cytochrome C) 1 0.00168717 Transcriptional regulator; LysR family; in formaldehyde detoxification operon 1 0.00168717 response regulator in two-component regulatory system with PhoQ 1 0.00168717 putative ATP-dependent DNA helicase YjcD 1 0.00168717 LSU ribosomal protein L8e (L2p) 1 0.00168717 Xylose ABC transporter; substrate-binding component 1 0.00168717
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Inner spore coat protein H 1 0.00168717 IncF plasmid conjugative transfer protein TraD 1 0.00168717 putative glycosyltransferase protein 1 0.00168717 Predicted manganese transporter; 11 TMS 1 0.00168717 benzoyl-CoA-dihydrodiol lyase (BoxC) 1 0.00168717 Benzoate 1;2-dioxygenase alpha subunit (EC 1.14.12.10) 1 0.00168717 Antisigma transmembrane sensor FpvR 1 0.00168717 6-phospho-3-hexuloisomerase 1 0.00168717 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) 1 0.00168717 Acyclic terpenes utilization regulator AtuR; TetR family 1 0.00168717 NAD-dependent malic enzyme (EC 1.1.1.38) 1 0.00168717 Arsenical pump-drivingFor ATPase Peer (EC 3.6.3.16) Review Only1 0.00168717 D-serine/D-alanine/glycine transporter 1 0.00168717 VgrG-3 protein 1 0.00168717 DNA-directed RNA polymerase subunit B' (EC 2.7.7.6) 1 0.00168717 Capsular polysaccharide synthesis enzyme Cap5F 1 0.00168717 Bacteriochlorophyllide c C12 methyltransefase BchR 1 0.00168717 Integron integrase IntIPac 1 0.00168717 4-hydroxybenzoate transporter 1 0.00168717 Putative teichuronic acid biosynthesis glycosyl transferase TuaC 1 0.00168717 Motility accessory factor 1 0.00168717 Isohexenylglutaconyl-CoA hydratase 1 0.00168717 Benzoyl-CoA oxygenase component B 1 0.00168717 2-Keto-D-gluconate dehydrogenase (EC 1.1.99.4); membrane-bound; flavoprotein 1 0.00168717 Predicted thiazole transporter ThiU 1 0.00168717 Phosphoglycolate phosphatase; archaeal type (EC 3.1.3.18) 1 0.00168717 Glucose-6-phosphate isomerase; archaeal II (EC 5.3.1.9) 1 0.00168717 Probable transcriptional activator for leuABCD operon 1 0.00168717 N(5);N(10)-methenyltetrahydromethanopterin cyclohydrolase (EC 3.5.4.27) 1 0.00168717 Allantoate amidohydrolase (EC 3.5.3.9) 1 0.00168717 Pyoverdin biosynthesis protein PvdH; L-2;4-diaminobutyrate:2-oxoglutarate aminotransferase1 0.00168717 (EC 2.6.1.76) Phosphonoacetaldehyde hydrolase (EC 3.11.1.1) 1 0.00168717 Asparagine synthetase [glutamine-hydrolyzing] (EC 6.3.5.4) AsnB 1 0.00168717 Multidrug-efflux transporter; major facilitator superfamily (MFS) (TC 2.A.1) 1 0.00168717 FKBP-type peptidyl-prolyl cis-trans isomerase slpA (EC 5.2.1.8) 1 0.00168717 Putative two-component response regulator and GGDEF family protein YeaJ 1 0.00168717 Formylmethanofuran dehydrogenase subunit A (EC 1.2.99.5) 1 0.00168717 Endonuclease VIII 1 0.00168717 P-hydroxybenzoate hydroxylase (EC 1.14.13.2) 1 0.00168717 Transcriptional regulator AglR; LacI family 1 0.00168717 Phage tail assembly protein 1 0.00168717 putative Cytochrome bd2; subunit II 1 0.00168717 Capsular polysaccharide synthesis enzyme Cap5I 1 0.00168717 RNA polymerase sigma factor SigB 1 0.00168717 virulence cluster protein B VclB 1 0.00168717 TRAP dicarboxylate transporter; DctM subunit; unknown substrate 8 1 0.00168717 Malonate transporter; MadM subunit 1 0.00168717 Thiol:disulfide interchange protein DsbG precursor 1 0.00168717 Glutaredoxin-like protein NrdH; required for reduction of Ribonucleotide reductase class Ib1 0.00168717 Internalin-like protein (LPXTG motif) Lmo0732 homolog 1 0.00168717
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Hydroxylamine reductase (EC 1.7.-.-) 1 0.00168717 Functional role page for TorCAD operon transcriptional regulatory protein TorR 1 0.00168717 Beta-lactamase (Cephalosporinase) (EC 3.5.2.6) 1 0.00168717 Heptosyltransferase family protein; lipopolysaccharide core biosynthesis 1 0.00168717 probable dibenzothiophene desulfurization enzyme 1 0.00168717 Pre-mRNA splicing factor PRP8 1 0.00168717 Phosphonate ABC transporter permease protein phnE (TC 3.A.1.9.1) 1 0.00168717 Xylulose-5-phosphate phosphoketolase (EC 4.1.2.9) 1 0.00168717 FIG003603: membrane protein; putative 1 0.00168717 Tyrosine-protein kinase EpsD (EC 2.7.10.2) 1 0.00168717 16 kDa heat shock protein B 1 0.00168717 Enterobactin receptorFor VctA Peer Review Only1 0.00168717 Ferredoxin--nitrite reductase (EC 1.7.7.1) 1 0.00168717 Arginine ABC transporter; periplasmic arginine-binding protein ArtI 1 0.00168717 Redox-sensitive transcriptional activator SoxR 1 0.00168717 tRNA nucleotidyltransferase; A-adding (EC 2.7.7.25) 1 0.00168717 Hypotehtical protein in Cytochrome oxidase biogenesis cluster 1 0.00168717 Ureidoglycolate dehydrogenase (EC 1.1.1.154) 1 0.00168717 Phage T7 exclusion protein 1 0.00168717 Outer membrane protein NlpB; lipoprotein component of the protein assembly complex (forms1 0.00168717 a complex with YaeT; YfiO; and YfgL) Coenzyme gamma-F420-2:L-glutamate ligase 1 0.00168717 Phage shock protein C 1 0.00168717 Candidate Zn-dependent transcriptional regulator; MntR/DtxR family 1 0.00168717 Protein YigP (COG3165) clustered with ubiquinone biosynthetic genes 1 0.00168717 UDP-GlcNAc-specific C4;6 dehydratase/C5 epimerase (PseB; first step of pseudaminic acid1 biosynthesis)0.00168717 Predicted L-lactate dehydrogenase; Fe-S oxidoreductase subunit YkgE 1 0.00168717 Electron transport complex protein RnfE 1 0.00168717 GTP-binding protein RBG1 1 0.00168717 ATP-dependent RNA helicase Bcep18194_A5658 1 0.00168717 DNA-directed RNA polymerase III second largest subunit (EC 2.7.7.6) 1 0.00168717 Sulfite reduction-associated complex DsrMKJOP protein DsrM (= HmeC) 1 0.00168717 Superoxide dismutase [Fe] (EC 1.15.1.1) 1 0.00168717 YefM protein (antitoxin to YoeB) 1 0.00168717 Pup ligase PafA' paralog; possible component of postulated heterodimer PafA-PafA' 1 0.00168717 selenocysteine-containing 1 0.00168717 L-cystine uptake protein TcyP 1 0.00168717 Two-component system response regulator OmpR 1 0.00168717 Manganese-dependent protein-tyrosine phosphatase (EC 3.1.3.48) 1 0.00168717 DNA mismatch repair endonuclease MutH 1 0.00168717 Phage exonuclease (EC 3.1.11.3) 1 0.00168717 LSU ribosomal protein L18e 1 0.00168717 Predicted sugar dehydrogenase TM0325 1 0.00168717 Uptake hydrogenase large subunit (EC 1.12.99.6) 1 0.00168717 TRAP-type transport system; small permease component; predicted N-acetylneuraminate1 transporter0.00168717 Non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase (NADP) (EC 1.2.1.9) 1 0.00168717 Xanthosine phosphorylase (EC 2.4.2.1) 1 0.00168717 Cytochrome c oxidase (B(O/a)3-type) chain I (EC 1.9.3.1) 1 0.00168717 Hexokinase (EC 2.7.1.1) 1 0.00168717 LSU ribosomal protein L5e (L18p) 1 0.00168717 Glucuronide transporter UidB 1 0.00168717
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5;6-dimethylbenzimidazole synthase; flavin destructase family 1 0.00168717 Chromate transport protein ChrA 1 0.00168717 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family 1 0.00168717 Inner membrane protein CreD-like protein 1 0.00168717 Serine--pyruvate aminotransferase (EC 2.6.1.51) 1 0.00168717 Niacin transporter NiaP 1 0.00168717 Nitric oxide reductase FlRd-NAD(+) reductase (EC 1.18.1.-) 1 0.00168717 Cytochrome c-type heme lyase subunit nrfE; nitrite reductase complex assembly 1 0.00168717 Sulfur carrier protein ThiS 1 0.00168717 Probable peroxiredoxin (EC 1.11.1.15) 1 0.00168717 Coenzyme PQQ synthesis protein E 1 0.00168717 Z-ring-associatedFor protein ZapA Peer Review Only1 0.00168717 Putative oxidoreductase in putrescine utilization cluster 1 0.00168717 Phosphoribosylaminoimidazolecarboxamide formyltransferase [alternate form] 1 0.00168717 dTDP-rhamnosyl transferase RfbF (EC 2.-.-.-) 1 0.00168717 Aldose 1-epimerase (EC 5.1.3.3) 1 0.00168717 Type cbb3 cytochrome oxidase biogenesis protein CcoG; involved in Cu oxidation 1 0.00168717 IncF plasmid conjugative transfer protein TraG 1 0.00168717 Transcription initiation factor IIH cyclin-dependent kinase 7 1 0.00168717 Rhamnogalacturonides degradation protein RhiN 1 0.00168717 Polysaccharide export lipoprotein Wza 1 0.00168717 predicted N-acetylglucosamine kinase; glucokinase-like (EC 2.7.1.59) 1 0.00168717 Streptococcal cell surface hemoprotein receptor Shr 1 0.00168717 Pyrimidine deaminase eukaryotic (EC 3.5.4.26) 1 0.00168717 Recombinational DNA repair protein RecT (prophage associated) 1 0.00168717 Photosystem II protein PsbV; cytochrome c550 1 0.00168717 Arogenate dehydrogenase (EC 1.3.1.43) 1 0.00168717 Methylsuccinyl-CoA dehydrogenase; predicted by (Erb et al; 2007) 1 0.00168717 Aerobactin siderophore receptor IutA 1 0.00168717 Cof protein; HD superfamily hydrolase 1 0.00168717 Two-component sensor protein RcsC (EC 2.7.3.-) 1 0.00168717 Xanthan biosynthesis chain length determinant protein GumC 1 0.00168717 SSU ribosomal protein S14e (S11p) 1 0.00168717 Proposed lipoate regulatory protein YbeD 1 0.00168717 Paraquat-inducible protein B 1 0.00168717 Pyruvate:ferredoxin oxidoreductase; beta subunit (EC 1.2.7.1) 1 0.00168717 Propionyl-CoA carboxylase beta chain (EC 6.4.1.3) 1 0.00168717 Uncharacterized ABC transporter; periplasmic component YrbD 1 0.00168717 Lysophospholipid acyltransferase 1 0.00168717 Protein similar to glutamate synthase [NADPH] small chain; clustered with sulfite reductase1 0.00168717 Methionyl-tRNA synthetase-related protein 2 1 0.00168717 2;3-dihydroxybenzoate-AMP ligase (EC 2.7.7.58) [enterobactin] siderophore 1 0.00168717 Site-specific recombinase 1 0.00168717 Hypothetical protein in cluster with SinR and SinI 1 0.00168717 Predicted erythritol ABC transporter 2; ATP-binding component 1 0.00168717 Predicted mannose transporter; GGP family 1 0.00168717 ABC-type tungstate transport system; ATP-binding protein 1 0.00168717 Capsular polysaccharide export system protein KpsC 1 0.00168717 Nitrogenase (molybdenum-iron)-specific transcriptional regulator NifA 1 0.00168717 Glycerol-3-phosphate transporter 1 0.00168717
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Possible divergent polysaccharide deacetylase 1 0.00168717 4-hydroxy-2-oxovalerate aldolase (EC 4.1.3.-) 1 0.00168717 Inner membrane protein YhaH 1 0.00168717 L-arabonate dehydratase (EC 4.2.1.25) 1 0.00168717 L-lactate permease 1 0.00168717 LysR-family transcriptional regulator clustered with PA0057 1 0.00168717 Hydroxymethylpyrimidine ABC transporter; substrate-binding component 1 0.00168717 Gluconate 2-dehydrogenase (EC 1.1.99.3); membrane-bound; flavoprotein 1 0.00168717 Alanine racemase; catabolic (EC 5.1.1.1) 1 0.00168717 Endo-1;4-beta-mannosidase 1 0.00168717 DNA-binding protein HBsu 1 0.00168717 RNA polymeraseFor sigma factor Peer RpoH-related protein Review Only1 0.00168717 SSU ribosomal protein S20e (S10p) 1 0.00168717 Two-component sensor histidine kinase PleC 1 0.00168717 Ferrous iron transport permease EfeU 1 0.00168717 Maleylacetoacetate isomerase (EC 5.2.1.2) 1 0.00168717 Acetaldehyde dehydrogenase; acetylating; (EC 1.2.1.10) in gene cluster for degradation of1 phenols;0.00168717 cresols; catechol Nitric-oxide reductase subunit B (EC 1.7.99.7) 1 0.00168717 Acyltransferase family protein associated with ethylmalonyl-CoA pathway 1 0.00168717 Probable vanillate O-demethylase oxygenase subunit oxidoreductase protein (EC 1.14.13.-)1 0.00168717 Nickel transporter UreH 1 0.00168717 MSHA biogenesis protein MshE 1 0.00168717 Arginine/ornithine antiporter 1 0.00168717 ATP-dependent nuclease; subunit B 1 0.00168717 Allophanate hydrolase (EC 3.5.1.54) 1 0.00168717 L-lactate dehydrogenase (EC 1.1.1.27) 1 0.00168717 Xanthosine/inosine triphosphate pyrophosphatase 1 0.00168717 Methylthioribose-1-phosphate isomerase (EC 5.3.1.23) 1 0.00168717 IncF plasmid conjugative transfer pilus assembly protein TraC 1 0.00168717 Type IV fimbrial biogenesis protein PilY1 1 0.00168717 SSU ribosomal protein S13e (S15p) 1 0.00168717 General secretion pathway protein H 1 0.00168717 Phage tail assembly protein I 1 0.00168717 Probable GTPase related to EngC 1 0.00168717 Phytoene desaturase (EC 1.14.99.-) 1 0.00168717 Sigma factor RpoE negative regulatory protein RseB precursor 1 0.00168717 Transcriptional (co)regulator CytR 1 0.00168717 Late competence protein ComC; processing protease 1 0.00168717 Lipoteichoic acid synthase LtaS Type IIIb1 1 0.00168717 Cytoplasmic alpha-amylase (EC 3.2.1.1) 1 0.00168717 tRNA 5-methylaminomethyl-2-thiouridine synthase TusD 1 0.00168717 Glycosyl transferase involved in teichoic acid biosynthesis 1 0.00168717 Nitrogenase (iron-iron) transcriptional regulator 1 0.00168717 Urease gamma subunit (EC 3.5.1.5) 1 0.00168717 Conjugative transfer protein TrbE 1 0.00168717 photosystem I biogenesis protein BtpA 1 0.00168717 Flagellar basal-body P-ring formation protein FlgA 1 0.00168717 Alpha-L-arabinofuranosidase II precursor (EC 3.2.1.55) 1 0.00168717 proteasome regulatory subunit p28 1 0.00168717 MSHA pilin protein MshB 1 0.00168717
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Transcription regulator of multidrug efflux pump operon; TetR (AcrR) family 1 0.00168717 Hybrid sensory histidine kinase in two-component regulatory system with EvgA 1 0.00168717 Maltose O-acetyltransferase (EC 2.3.1.79) 1 0.00168717 Amino acid-binding ACT 1 0.00168717 Ferrous iron transport protein A 1 0.00168717 Glutathione-regulated potassium-efflux system protein KefC 1 0.00168717 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) 1 0.00168717 LSU ribosomal protein L1p (L10Ae); mitochondrial 1 0.00168717 Superoxide dismutase SodM-like protein ChrF 1 0.00168717 Cobalt/zinc/cadmium efflux RND transporter; membrane fusion protein; CzcB family 1 0.00168717 Fe(2+)/alpha-ketoglutarate-dependent dioxygenase LpxO 1 0.00168717 SSU ribosomal Forprotein S28e Peer Review Only1 0.00168717 16S rRNA m(5)C 967 methyltransferase (EC 2.1.1.-) 1 0.00168717 Pseudaminic acid synthase (EC 4.1.3.-) 1 0.00168717 YoeB toxin protein 1 0.00168717 Phosphate transport system regulatory protein PhoU 1 0.00168717 Two-component response regulator CreB 1 0.00168717 Chitin catabolic cascade sensor histidine kinase ChiS 1 0.00168717 Transposase for insertion sequence-like element IS431mec 1 0.00168717 omega-3 polyunsaturated fatty acid synthase subunit; PfaA 1 0.00168717 Sortase 1 0.00168717 Enoyl-CoA hydratase [branched-chain amino acid degradation] (EC 4.2.1.17) 1 0.00168717 SSU ribosomal protein S25e 1 0.00168717 Sulfite reductase alpha subunit (EC 1.8.99.1) 1 0.00168717 Hydroxylamine oxidoreductase precursor (EC 1.7.3.4) 1 0.00168717 4-cresol dehydrogenase [hydroxylating] flavoprotein subunit (EC 1.17.99.1) 1 0.00168717 Propionate catabolism operon regulatory protein PrpR 1 0.00168717 CRISPR-associated helicase Cas3; protein 1 0.00168717 SSU ribosomal protein SAe (S2p) 1 0.00168717 Alkanesulfonates-binding protein 1 0.00168717 Two-component system response regulator 1 0.00168717 Quinol oxidase-2; sulfocyanin (blue copper protein) (SoxE) 1 0.00168717 2-dehydro-3-deoxyglucarate aldolase (EC 4.1.2.20) 1 0.00168717 Sigma factor RpoE regulatory protein RseC 1 0.00168717 ATP-dependent RNA helicase Atu1833 1 0.00168717 Arginine/ornithine ABC transporter; periplasmic arginine/ornithine binding protein 1 0.00168717 Type IV pilus biogenesis protein PilN 1 0.00168717 Formate dehydrogenase O alpha subunit (EC 1.2.1.2) 1 0.00168717 L-alanine:glyoxylate aminotransferase (EC 2.6.1.44) 1 0.00168717 COG2078: Uncharacterized ACR 1 0.00168717 Particulate methane monooxygenase C-subunit (EC 1.14.13.25) 1 0.00168717 Catabolite control protein A 1 0.00168717 FIG138056: a glutathione-dependent thiol reductase 1 0.00168717 Nitric oxide-dependent regulator DnrN or NorA 1 0.00168717 Fe-S-cluster-containing hydrogenase components 1 1 0.00168717 [NiFe] hydrogenase metallocenter assembly protein HypF 1 0.00168717 Putative glutathione transporter; permease component 1 0.00168717 Cholinephosphate cytidylyltransferase (EC 2.7.7.15) 1 0.00168717 Enoyl-[acyl-carrier-protein] reductase [FMN] (EC 1.3.1.9); inferred for PFA pathway 1 0.00168717 C-1'-hydroxylase CruF 1 0.00168717
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Type II/IV secretion system secretin RcpA/CpaC; associated with Flp pilus assembly 1 0.00168717 Cyclic AMP receptor protein 1 0.00168717 Metal-dependent hydrolase COG0491 with rhodanese-homology domain (RHOD) 1 0.00168717 Nitrate/nitrite response regulator protein 1 0.00168717 Putative metal chaperone; involved in Zn homeostasis; GTPase of COG0523 family 1 0.00168717 Amino-terminal intein-mediated trans-splice 1 0.00168717 Transcriptional regulator PchR 1 0.00168717 Cell-shape determining protein MreBH 1 0.00168717 Cellobiose phosphotransferase system YdjC-like protein 1 0.00168717 N-Acetyl-D-glucosamine ABC transport system; permease protein 1 1 0.00168717 FIG045085: Hypothetical protein 1 0.00168717 Iron-sulfur clusterFor assembly proteinPeer SufD Review Only1 0.00168717 photosystem I assembly related protein Ycf4 1 0.00168717 L-Aspartate dehydrogenase (EC 1.4.1.21) 1 0.00168717 Unspecified monosaccharide ABC transport system; substrate-binding component 1 0.00168717 Predicted nucleotidyltransferases 1 0.00168717 Sporulation kinase B (EC 2.7.13.3) 1 0.00168717 Biosynthetic arginine decarboxylase (EC 4.1.1.19) 1 0.00168717 Eukaryotic peptide chain release factor subunit 1 1 0.00168717 Conserved protein YcjX with nucleoside triphosphate hydrolase domain 1 0.00168717 DNA-directed RNA polymerase subunit A (EC 2.7.7.6) 1 0.00168717 Phenylacetic acid degradation protein PaaN; ring-opening aldehyde dehydrogenase (EC 1.2.1.3)1 0.00168717 Ferrichrome ABC transporter; periplasmic iron-binding protein PvuB 1 0.00168717 RuBisCO operon transcriptional regulator CbbR 1 0.00168717 Protein gp47; recombination-related [Bacteriophage A118] 1 0.00168717 Carbon monoxide-induced hydrogenase membrane protein CooM 1 0.00168717 L-rhamnose mutarotase 1 0.00168717 Probable MFS transporter in enantio-pyochelin gene cluster 1 0.00168717 DNA-directed RNA polymerase I largest subunit (EC 2.7.7.6) 1 0.00168717 Periplasmic protein p19 involved in high-affinity Fe2+ transport 1 0.00168717 NAD-dependent epimerase/dehydratase family protein 1 0.00168717 SSU ribosomal protein S27e 1 0.00168717 5-aminolevulinate synthase (EC 2.3.1.37) 1 0.00168717 benzoate dioxygenase; ferredoxin reductase component 1 0.00168717 Two-component nitrogen fixation transcriptional regulator FixJ 1 0.00168717 DNA-binding heavy metal response regulator 1 0.00168717 NAD(P)H-quinone oxidoreductase chain 1 1 0.00168717 Quinate/shikimate dehydrogenase [Pyrroloquinoline-quinone] (EC 1.1.99.25) 1 0.00168717 Flagellar protein FlgP 1 0.00168717 Glutamyl-tRNA(Gln) amidotransferase subunit A (EC 6.3.5.7) 1 0.00168717 MSHA biogenesis protein MshP 1 0.00168717 DNA sulfur modification protein DndB 1 0.00168717 poly(beta-D-mannuronate) lyase (EC 4.2.2.3) 1 0.00168717 V-type ATP synthase subunit D (EC 3.6.3.14) 1 0.00168717 Hexuronate utilization operon transcriptional repressor ExuR 1 0.00168717 Chemotaxis protein CheC -- inhibitor of MCP methylation 1 0.00168717 Ribonuclease E inhibitor RraA 1 0.00168717 2;4-diketo-3-deoxy-L-fuconate hydrolase 1 0.00168717 Programmed cell death antitoxin YdcD 1 0.00168717 Putative efflux (PET) family inner membrane protein YccS 1 0.00168717
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LysR family transcriptional regulator YbhD 1 0.00168717 tRNA:m(5)U-54 MTase gid 1 0.00168717 Cytochrome b6-f complex alternative Rieske iron sulfur protein PetC2 1 0.00168717 Acylphosphate phosphohydrolase (EC 3.6.1.7); putative 1 0.00168717 Assimilatory nitrate reductase large subunit (EC:1.7.99.4) 1 0.00168717 DNA-3-methyladenine glycosylase II (EC 3.2.2.21) 1 0.00168717 Type III restriction-modification system DNA endonuclease res (EC 3.1.21.5) 1 0.00168717 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) 1 0.00168717 tRNA-intron endonuclease (EC 3.1.27.9) 1 0.00168717 (S)-2-hydroxy-acid oxidase (EC 1.1.3.15) 1 0.00168717 Peroxide stress regulator PerR; FUR family 1 0.00168717 DeoxyribonucleaseFor TatD Peer Review Only1 0.00168717 Related to Dihydropteroate synthase 1 0.00168717 Predicted gluconate TRAP family transporter; DctP subunit 1 0.00168717 Hemoprotein HemQ; essential component of heme biosynthetic pathway in Gram-positive1 bacteria0.00168717 Fructose ABC transporter; ATP-binding component FrcA 1 0.00168717 Poly [ADP-ribose] polymerase-1 (EC 2.4.2.30) 1 0.00168717 Rare lipoprotein A precursor 1 0.00168717 Beta-fimbriae usher protein 1 0.00168717 Phosphocarrier protein kinase/phosphorylase; nitrogen regulation associated 1 0.00168717 ParD protein (antitoxin to ParE) 1 0.00168717 Gamma-D-Glutamyl-meso-Diaminopimelate Amidase 1 0.00168717 Adhesin of unknown specificity SdrD 1 0.00168717 PvdO; pyoverdine responsive serine/threonine kinase (predicted by OlgaV) 1 0.00168717 NnrS protein involved in response to NO 1 0.00168717 Putative iron-regulated membrane protein; PA2403 homolog 1 0.00168717 Ribosomal large subunit pseudouridine synthase E (EC 4.2.1.70) 1 0.00168717 Export ABC transporter ATP-binding protein 1 0.00168717 Type IV fimbriae expression regulatory protein PilR 1 0.00168717 Predicted transcriptional regulator for fatty acid degradation FadQ; TetR family 1 0.00168717 Fe-S OXIDOREDUCTASE (1.8.-.-) Wyeosine biosynthesis 1 0.00168717 CRISPR-associated protein Cas1 1 0.00168717 Lipoteichoic acid synthase LtaS Type IIIa 1 0.00168717 Vanillate O-demethylase oxygenase subunit (EC 1.14.13.82) 1 0.00168717 Trehalose operon transcriptional repressor 1 0.00168717 Duplicated ATPase component CbrU of energizing module of predicted cobalamin ECF transporter1 0.00168717 FIG043197: Inositol monophosphatase family protein 1 0.00168717 CDP-glycerol:poly(glycerophosphate) glycerophosphotransferase (EC 2.7.8.12) 1 0.00168717 DNA-binding protein H-NS 1 0.00168717 Pyruvate:ferredoxin oxidoreductase; alpha subunit (EC 1.2.7.1) 1 0.00168717 Colanic acid biosynthesis glycosyl transferase WcaL 1 0.00168717 Transcriptional regulatory protein CitB; DpiA 1 0.00168717 Lignostilbene-alpha;beta-dioxygenase and related enzymes 1 0.00168717 Methylmalonate-semialdehyde dehydrogenase [inositol] (EC 1.2.1.27) 1 0.00168717 Transcription repressor of multidrug efflux pump acrAB operon; TetR (AcrR) family 1 0.00168717 Molybdopterin-guanine dinucleotide biosynthesis protein MobB 1 0.00168717 Diaminobutyrate-pyruvate aminotransferase (EC 2.6.1.46) 1 0.00168717 Conjugative transfer protein TrbG 1 0.00168717 MotA/TolQ/ExbB proton channel family protein; probably associated with flagella 1 0.00168717 Glucose 1-dehydrogenase (EC 1.1.1.47) 1 0.00168717
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Glucose ABC transporter; ATP-binding subunit (EC 3.6.3.-) 1 0.00168717 Na(+) H(+) antiporter subunit G 1 0.00168717 GTP pyrophosphokinase 1 0.00168717 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) 1 0.00168717 YpfJ protein; zinc metalloprotease superfamily 1 0.00168717 D-serine dehydratase transcriptional activator 1 0.00168717 SSU ribosomal protein S11e (S17p) 1 0.00168717 conserved protein with predicted RNA binding PUA domain 1 0.00168717 Hypothetical protein in Cyanoglobin locus 1 0.00168717 Ortho-halobenzoate 1;2-dioxygenase beta-ISP protein OhbA 1 0.00168717 Hypothetical protein of L-Asparaginase type 2-like superfamily 1 0.00168717 Resolvase/IntegraseFor TinR protein Peer Review Only1 0.00168717 Proteasome subunit alpha (EC 3.4.25.1); bacterial 1 0.00168717 Hydrolase in cluster with beta-lactamase (HAD superfamily) 1 0.00168717 Hypothetical protein VpsJ 1 0.00168717 Capsular polysaccharide biosynthesis fatty acid synthase WcbR 1 0.00168717 Phosphomevalonate kinase (EC 2.7.4.2) 1 0.00168717 Nitrilase 1 (EC 3.5.5.1) 1 0.00168717 3-oxoadipate enol-lactone hydrolase/4-carboxymuconolactone decarboxylase 1 0.00168717 Periplasmic molybdate-binding domain 1 0.00168717 ABC-type protease exporter; ATP-binding component PrtD/AprD 1 0.00168717 AA3-600 quinol oxidase subunit I 1 0.00168717 Gluconate transporter family protein 1 0.00168717 Cystine ABC transporter; periplasmic cystine-binding protein FliY 1 0.00168717 Predicted N-Acetyl-D-galactosamine oligosaccharide permease 1 0.00168717 Fructose-1;6-bisphosphatase; Bacillus type (EC 3.1.3.11) 1 0.00168717 Integron integrase IntI2 1 0.00168717 Shikimate kinase II (EC 2.7.1.71) 1 0.00168717 Positive regulator of L-idonate catabolism 1 0.00168717 LPS-assembly lipoprotein RlpB precursor (Rare lipoprotein B) 1 0.00168717 Alpha-glucosides-binding periplasmic protein AglE precursor 1 0.00168717 tRNA 5-methylaminomethyl-2-thiouridine synthase TusC 1 0.00168717 Phenylacetate-CoA oxygenase/reductase; PaaK subunit 1 0.00168717 Ferric siderophore transport system; biopolymer transport protein ExbB 1 0.00168717 Iron-sulfur cluster assembly scaffold protein NifU 1 0.00168717 Nitrogen assimilation regulatory protein Nac 1 0.00168717 2';3'-cyclic-nucleotide 2'-phosphodiesterase (EC 3.1.4.16) 1 0.00168717 Methylene tetrahydromethanopterin dehydrogenase (EC 1.5.99.9) 1 0.00168717 Secreted alkaline metalloproteinase (EC 3.4.24.-); PrtA/B/C/G homolog 1 0.00168717 Putative gluthatione transporter;solute-binding component 1 0.00168717 Alkaline phosphatase synthesis transcriptional regulatory protein PhoP 1 0.00168717 Flagellar biosynthesis protein FliR 1 0.00168717 3-(3-hydroxy-phenyl)propionate hydroxylase (EC 1.14.13.-) 1 0.00168717 probable beta-D-galactosidase 1 0.00168717 FIG018229: hypothetical protein 1 0.00168717 59271
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Percentage (%)
For Peer Review Only
Wiley-Blackwell and Society for Applied Microbiology