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Supplemental Table for “An Expanded Collection and Refined Consensus Model of Glms Ribozymes”

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Supplemental Table for “An Expanded Collection and Refined Consensus Model of Glms Ribozymes” Supplemental Table for “An expanded collection and refined consensus model of glmS ribozymes” Phillip J. McCown1, Adam Roth2, Ronald R. Breaker1,2,3 1Department of Molecular, Cellular and Developmental Biology, 2Howard Hughes Medical Institute, and 3Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520-8103, USA Dr. Ronald R. Breaker Tel: (203) 432-9389 Fax: (203) 432-0753 E-mail: [email protected] Phillip J. McCown E-mail: [email protected] Dr. Adam Roth E-mail: [email protected] Running title: New glmS ribozymes Keywords: glucosamine-6-phosphate (GlcN6P); glutamine synthetase; Infernal; phosphoglucosamine mutase; riboswitch; self-cleaving ribozyme Supplemental Table 1. A list of organisms that carry glmS ribozymes. Nucleotide positions of glmS ribozymes include 10 nucleotides on each end in additional to the nucleotides expected to form the ribozyme. The strand of DNA for the ribozyme coordinates is not given, but can be inferred by examination of the nucleotide positions. Thermobaculum is a genus without a phylum assignment and is noted as “Thermobaculum” within the phylum assignments. Representatives highlighted in yellow are present in human pathogens. glmS Riboswitch Organism Accession # Nucleotide Position Phylum Rubrobacter xylanophilus DSM 9941 NC_008148.1 834457-834619 Actinobacteria Chloroflexus aggregans DSM 9485 NC_011831.1 3930324-3930112 Chloroflexi Chloroflexus sp. Y-400-f1 NC_012032.1 599396-599607 Chloroflexi Herpetosiphon aurantiacus ATCC 23779 NC_009972.1 4951142-4951427 Chloroflexi Roseiflexus castenholzii DSM 13941 NC_009767.1 1561093-1560880 Chloroflexi Roseiflexus sp. RS-1 NC_009523.1 5090849-5091958 Chloroflexi Sphaerobacter thermophilus DSM 20745 NZ_ABUQ01000001.1 659983-660153 Chloroflexi Thermomicrobium roseum DSM 5159 NC_011959.1 734158-733989 Chloroflexi Deinococcus deserti VCD115 NC_012526.1 2595187-2594989 Deinococcus-Thermus Deinococcus geothermalis DSM 11300 NC_008025.1 11682-11482 Deinococcus-Thermus Deinococcus radiodurans R1 NC_001263.1 302515-302747 Deinococcus-Thermus Meiothermus ruber DSM 1279 NZ_ABUF01000001.1 133820-133596 Deinococcus-Thermus Meiothermus silvanus DSM 9946 NZ_ABUG01000002.1 349321-349547 Deinococcus-Thermus Thermus aquaticus Y51MC23 NZ_ABVK02000005.1 59231-59031 Deinococcus-Thermus Thermus thermophilus HB27 NC_005835.1 1457398-1457603 Deinococcus-Thermus Thermus thermophilus HB8 NC_006461.1 1781664-1781865 Deinococcus-Thermus Truepera radiovictrix DSM 17093 NC_014221.1 1452698-1452921 Deinococcus-Thermus Dictyoglomus thermophilum H-6-12 NC_011297.1 869033-869205 Dictyoglomi Dictyoglomus turgidum DSM 6724 NC_011661.1 1036419-1036591 Dictyoglomi Environmental Sample JCVI_SCAF_1096627626282 1014-1171 Environmental Environmental Sample NCBI_BBAY_READ_1106105084023 10-166 Environmental Environmental Sample JCVI_SCAF_1096627702206 1018-861 Environmental Environmental Sample JCVI_SCAF_1096627530586 1021-1160 Environmental Environmental Sample JCVI_SCAF_1096627530586 1021-1178 Environmental Environmental Sample NCBI_BBAY_READ_1106073079910 1021-860 Environmental Environmental Sample NCBI_BBAY_READ_1106073079910 1021-867 Environmental Environmental Sample JCVI_SCAF_1096627389973 1042-885 Environmental Environmental Sample BAAY01004508.1 1046-1200 Environmental Environmental Sample BAAY01004508.1 1046-1208 Environmental Environmental Sample JCVI_SCAF_1101668558568 1048-886 Environmental Environmental Sample JCVI_SCAF_1101668558568 1048-890 Environmental Environmental Sample NCBI_BBAY_READ_1105731255557 1058-904 Environmental Environmental Sample JCVI_SCAF_1101668494034 1144-987 Environmental Environmental Sample JCVI_SCAF_1101667360363 1-151 Environmental Environmental Sample BAAY01005449.1 1-160 Environmental Environmental Sample JCVI_SCAF_1096627129878 1180-1337 Environmental Environmental Sample JCVI_SCAF_1101668304623 1195-1038 Environmental Environmental Sample JCVI_SCAF_1101668497429 1195-1038 Environmental Environmental Sample JCVI_SCAF_1101668304623 1195-1050 Environmental Environmental Sample JCVI_SCAF_1101668117279 1199-1074 Environmental Environmental Sample JCVI_SCAF_1101668117279 1199-1074 Environmental Environmental Sample JCVI_SCAF_1096627074371 120-270 Environmental Environmental Sample JCVI_SCAF_1096627074371 120-277 Environmental Environmental Sample JCVI_SCAF_1096626659782 1211-1368 Environmental Environmental Sample BABD01006914.1 1227-1423 Environmental Environmental Sample JCVI_SCAF_1096627390452 125640-125797 Environmental Environmental Sample NCBI_BBAY_READ_1106073051462 130-2 Environmental Environmental Sample NCBI_BBAY_READ_1106073051462 130-9 Environmental Environmental Sample taComm3_C6645 1309-1603 Environmental Environmental Sample JCVI_SCAF_1096628402690 1339-1182 Environmental Environmental Sample JCVI_SCAF_1096627509286 1372-1216 Environmental Environmental Sample JCVI_SCAF_1096627569502 1378-1535 Environmental Environmental Sample BABG01002602.1 1393-1587 Environmental Environmental Sample BABG01002602.1 1393-1590 Environmental Environmental Sample JCVI_SCAF_1096627379958 1417-1493 Environmental Environmental Sample JCVI_SCAF_1096627379958 1417-1574 Environmental Environmental Sample BISONP_C10886 1461-1674 Environmental Environmental Sample BAAV01001407.1 1484-1650 Environmental Environmental Sample BAAV01001407.1 1484-1669 Environmental Environmental Sample JCVI_SCAF_1096626721928 1551-1708 Environmental Environmental Sample JCVI_SCAF_1096627724495 1561-1404 Environmental Environmental Sample BABG01000670.1 1644-1800 Environmental Environmental Sample BABG01000670.1 1644-1840 Environmental Environmental Sample JCVI_SCAF_1101668546709 165-8 Environmental Environmental Sample JCVI_SCAF_1096626873264 1693-1537 Environmental Environmental Sample JCVI_SCAF_1096626873264 1693-1550 Environmental Environmental Sample JCVI_SCAF_1096627300508 1740-1584 Environmental Environmental Sample JCVI_SCAF_1096627300508 1740-1590 Environmental Environmental Sample BAAX01029836.1 174-360 Environmental Environmental Sample BAAX01029836.1 174-370 Environmental Environmental Sample JCVI_SCAF_1096628173402 1762-1605 Environmental Environmental Sample JCVI_SCAF_1101668165627 17-79 Environmental Environmental Sample JCVI_SCAF_1101668165627 17-79 Environmental Environmental Sample JCVI_SCAF_1096627100108 1791-1948 Environmental Environmental Sample JCVI_SCAF_1096627514634 1816-1754 Environmental Environmental Sample BAAX01001155.1 1849-2000 Environmental Environmental Sample BAAX01001155.1 1849-2020 Environmental Environmental Sample JCVI_SCAF_1101668278218 185-28 Environmental Environmental Sample JCVI_SCAF_1096627069711 1862-1705 Environmental Environmental Sample BABA01005912.1 1884-1848 Environmental Environmental Sample BABA01005912.1 1884-1848 Environmental Environmental Sample taComm3_C10330 18905-18717 Environmental Environmental Sample BAAX01000133.1 1930-2090 Environmental Environmental Sample BAAX01000133.1 1930-2100 Environmental Environmental Sample BAAU01016423.1 196-18 Environmental Environmental Sample JCVI_SCAF_1101667155457 197-340 Environmental Environmental Sample JCVI_SCAF_1101667155457 197-353 Environmental Environmental Sample JCVI_SCAF_1096627323430 197-40 Environmental Environmental Sample JCVI_SCAF_1101668277692 198-41 Environmental Environmental Sample BABD01023909.1 200-358 Environmental Environmental Sample BABD01023909.1 200-360 Environmental Environmental Sample JCVI_SCAF_1096626917510 200-44 Environmental Environmental Sample BABB01000050.1 2059-1887 Environmental Environmental Sample BABB01000050.1 2059-1900 Environmental Environmental Sample soil_Contig41404 209-42 Environmental Environmental Sample JCVI_SCAF_1096626976292 21-178 Environmental Environmental Sample BAAY01005449.1 2-169 Environmental Environmental Sample JCVI_SCAF_1096626976292 21-97 Environmental Environmental Sample BABG01007711.1 227-65 Environmental Environmental Sample BABG01007711.1 227-80 Environmental Environmental Sample BAAX01002691.1 2416-2594 Environmental Environmental Sample BAAX01002691.1 2416-2600 Environmental Environmental Sample JCVI_SCAF_109662655060 273-132 Environmental Environmental Sample taComm3_FFOI6928_x1 276-462 Environmental Environmental Sample BAAU01000764.1 3007-3200 Environmental Environmental Sample BAAU01000764.1 3007-3203 Environmental Environmental Sample JCVI_SCAF_1096627870492 301-457 Environmental Environmental Sample JCVI_SCAF_1096628402605 306-450 Environmental Environmental Sample JCVI_SCAF_1096628302605 306-463 Environmental Environmental Sample JCVI_SCAF_1096627341207 309-153 Environmental Environmental Sample JCVI_SCAF_1096627924341 310-470 Environmental Environmental Sample JCVI_SCAF_1096627924341 310-474 Environmental Environmental Sample BISONQ_C805 313-526 Environmental Environmental Sample JCVI_SCAF_1096627170587 3231-3388 Environmental Environmental Sample NCBI_BBAY_READ_1106073088876 325-481 Environmental Environmental Sample hgutS8_s8_170046 326-482 Environmental Environmental Sample JCVI_SCAF_1096627188595 34066-33910 Environmental Environmental Sample BISONP_FGGH31677_b1 382-595 Environmental Environmental Sample BABF01000480.1 3881-3709 Environmental Environmental Sample BABF01000480.1 3881-3793 Environmental Environmental Sample BAAX01001227.1 401-575 Environmental Environmental Sample BAAX01001227.1 401-580 Environmental Environmental Sample wf2_AHAA9108_y1 417-232 Environmental Environmental Sample contig45086 417-531 Environmental Environmental Sample BABE01000473.1 42-199 Environmental Environmental Sample BABE01000473.1 42-200 Environmental Environmental
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