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Home , EIF5, Eukaryotic translation, Ribosomal protein S6

Supporting Information for Proteomics DOI 10.1002/pmic.200500243

Gustavo A. de Souza, Lyris M. F. Godoy, Veronica R. Teixeira, Andreia H. Otake, Ado Sabino, Jos C. Rosa, Anemari R. Dinarte, Daniel G. Pinheiro, Wilson A. Silva, Jr., Marcos N. Eberlin, Roger Chammas and Lewis J. Greene

Proteomic and SAGE profiling of murine melanoma progression indicates the reduction of responsible for ROS degradation

ª 2005 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.com Up-regulated in Tm1 Difference of Name Simbol Tag Frequence Expression Synaptotagmin 4 syt4 60.55 AATAAACTGC 65 S100 calcium binding A11 (calizzarin) s100a11 37.61 TATCCCACGC 41 Channel-interacting PDZ domain protein cipp 33.94 TGCCAAGGGT 444 Solute carrier family 25 (mitochondrial carrier, adenine nucleotide slc25a13 29.36 GTCAGAGGCT 32 translocator), member 13 Gamma-aminobutyric acid (GABA-A) receptor, subunit delta gabrd 28.44 ACACCAAAAA 31 apoliprotein E apoe 20.18 CATCGCCAGT 44 cytochrome b5 cyb5 12.75 GTGATGTTTC 139 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4 ndufa4 12.08 TTGATTTTTT 79 tubulin, beta 5 tubb5 8.65 GCAGGCACTC 462 LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae) lsm4 8.39 GTGGCTCACC 64 Tubulin, alpha 1 tuba1 8.26 GCTGCCCTAG 63 Nur77 downstream 2 ndg2 7.8 TGACTGGGAG 32 calcyclin binding protein cacybp 6.97 ACGCGAAAAC 38 Nucleophosmin 1 npm1 6.73 TGAAATAAAC 132 Similar to hypothetical protein MGC955 BC035522 5.96 GTGGCTAACA 52 secreted acidic cysteine rich glycoprotein sparc 5.5 CAAACTCTCA 375 Small nuclear ribonucleoprotein polypeptide G snrpg 5.43 TACATTTTCA 77 mitochondrial L33 5.35 GCCTCGGGGG 35 peptidylprolyl isomerase A ppia 5.12 GAGCGTTTTG 162 thymosin beta 10 tmsb10 4.97 GGGGAAATCG 103 Eukaryotic 5 4.59 GAGGTTAACC 30 Leprecan-like 2 leprel2 4.46 GTGGCTCACA 2520 SEC61, gamma subunit sec61 4.38 AAGTAAAGCG 43 proteasome subunit, alpha type 7 psma7 4.19 AGGCGGGATC 32 Retinal S-antigen sag 4.13 ATGGCTCACA 36 Quininoid dihydropteridine reductase qdpr 4.02 TAAAAAAAAA 92 Creatine kinase, brain ckb 3.98 CATCCTTGAT 52 prolyl 4-hydroxylase, beta polypeptide p4hb 3.92 GCCTGTGGCC 47 minichromosome maintenance deficient 7 (Saccharomices cerevisae) mcm7 3.87 CTGCACTTTT 38 Ribosomal protein S3a rps3a 3.81 GGGAAGGCGG 158 lectin, galactose binding, soluble 1 lgals1 3.8 GCGGCGGATG 862 Xylosylprotein beta1,4-galactosyltransferase, polypeptide 7 b4galt7 3.79 TGGTTGCTGG 306 (galactosyltransferase I) ribosomal protein L35 rpl35 3,71 CGCCGCCGGC 296 cystatin E/M cst6 3.67 GTGGAGGCGC 36 enolase 1, alpha non-neuron eno1 3.58 CAAAAATAAA 351 Etoposide induced 2.4 mRNA ei24 3.56 GGTGGGGGGG 31 Poly(rC) binding protein 1 pcbp1 3.49 GATTTTATTT 38 expressed in non-metastatic cells 2, protein nme2 3.48 AAGAAACCAG 72 initiation factor 4A1 3.44 GTGACCGAAG 30 LSM5 homolog, U6 small nuclear RNA associated (S. cerevisiae) lsm5 3.44 GTTATTTTGG 30 Malic enzyme, supernatant mod1 3.44 TTGTCAGGTA 45 cytochrome c oxidase subunit VIIb cox7b 3.34 TACTCATTAT 80 diazepam binding inhibitor dbi 3.34 AAGACCTATG 40 Baculoviral IAP repeat-containing 1b birc1b 3.16 GTGGTTCACA 31 Transcribed locus, moderately similar to XP_342194.1 similar to GCAATCTGAT 275 Phosphoglycerate kinase, testis specific [Rattus norvegicus] pgk1 3.15 hypoxia induced gene 1 hig1 3.11 TGGGTTTAGA 44 RIO kinase 2 (yeast) riok2 3.04 TAATAAATAA 72 glucose phosphate isomerase 1 gpi1 3.01 GGGGCTCAGC 69 fatty acid binding protein 5, epidermal fabp5 2.96 TCAAACTTGG 213 Ectonucleoside triphosphate diphosphohydrolase 8 entpd8 2.95 GTAAAAAAA 122 Profilin 1 pfn1 2.94 GGCTGGGGGC 112 Matrilin 3 matn3 2.94 GCTGCCAGCA 32 Ribosomal protein S27a 2.93 GGAAGCCACT 354 heat shock protein 8 hspa8 2.92 GAATAATAAA 267 prothymosin alpha ptma 2.91 TTCATTATAA 54 D18Wsu98e 2.75 GCGAGGGAGC 75 DEAD (Asp-Glu-Ala-Asp) box polypeptide 5 ddx5 2.75 GCCTTCCAAT 117

Cont. Genes Up-regulated in Tm1 Difference of Name Simbol Tag Frequence Expression Glyoxalase 1 glo1 2.67 TCATCTTCAG 32 ribosomal protein S4, X-linked 2.61 GTGAAACTAA 884 Tropomyosin 1, alpha tpm1 2.59 CCCGTAGCCC 31 ribosomal protein L36 2.55 AGGAAGGCGG 453 nucleolar protein family A, member 3 nola3 2.54 CCAGGTTATT 61 carbonic anhydrase 6 car6 2.54 GTAGAGAGCT 105 ribosomal protein L17 rpl17 2.53 GCCCGGGAAT 375 Heat shock protein 1 (chaperonin 10) hspe1 2.5 CCTCCCTTTT 68 split hand/foot deleted gene 1 shfdg1 2.47 TTTATTTCAT 35 cytochrome c, somatic cycs 2.45 AATGGCTAGC 40 ribosomal protein, large, P1 rplp1 2.42 GGCTTCGGTC 1901 RNA polymerase 1-4 rpo1-4 2.38 GCTGGAACTG 57 heterogeneous nuclear ribonucleoprotein A1 hnrpa1 2.37 TGTACTCAAT 62 expressed in non-metastatic cells 1, protein nme1 2.36 GCAGCGATTC 36 ribosomal protein L31 rlp31 2.32 AAGGAAATGG 48 calnexin canx 2.29 TAACAGTTGT 70 Ribosomal protein 10 rpl10 2.27 GTTGCTGAGA 84 beta-glucuronidase gusb 2.26 CAAAATAAAA 59 Ribosomal protein L38 rpl38 2.24 CCTCGGAAAA 39 actin, gamma, cytoplasmic actg1 2.23 TGGCTCGGTC 51 ribosomal protein L11 rpl11 2.23 CGCTGGTTCC 187 eukaryotic translation 1 beta 2 2.21 GATGTGGCTG 325 Cyclin D3 ccnd3 2.21 CTGCCTTAAT 82 NADH dehydrogenase (ubiquinone) Fe-S protein 1 ndufs1 2.2 TTAAAAAAAA 36 heat shock 70kD protein 5 (glucose-regulated protein) hspa5 2.18 TGGTGTAGGA 121 Tumor rejection antigen gp96 tra1 2.14 TGTATAAAAA 42 cyclin D1 ccnd1 2.12 GTCCAGGAAA 37 Esterase D/formylglutathione hydrolase esd 2.09 CTCCTGCAGC 50 Similar to 60S ribosomal protein L32 rpl32 2.07 GCTGCCCTCC 657 ATP synthase, H+ transporting, mitochondrial F0 complex, subunit f, atp5j2 2.07 GCCGAGCATA 52 isoform 2 ubiquitin-activating enzyme E1, Chr X ube1x 2.06 TAGCCAAGCC 45 ribosomal protein L4 rpl4 2.02 TGGTGACAAA 407 ribosomal protein L26 rpl26 2.02 TGGGCATCCA 128

Genes Down-regulated in Tm1 Difference of Name Simbol Tag Frequence Expression lectin, galactose binding, soluble 3 lgals3 300.84 CTGAGAGATA 300.84 metallothionein 2 mt2 14.06 TAACTGACAA 140.61 glutamate receptor, ionotropic, N-methyl D-asparate-associated grina 12.17 TTTCAAGGGA 146.06 protein 1 (glutamate binding) amyloid beta (A4) precursor protein app 9.34 ATAGCTTTCT 130.8 Phosphofructokinase, platelet pfkp 9.16 TGTATGTCTT 45.78 histone cell cycle regulation defective homolog A (S. cerevisiae) hira 8.99 CATTGGATAC 35.97 DNA-damage inducible transcript 3 ddit3 8.81 TCCAGTAAAG 105.73 Glycogenin 1 gyg1 8.28 CAGACTTGTT 41.42 Procollagen, type III, alpha 1 col3a1 7.32 TCTTCATTTA 102.46 Tetratricopeptide repeat domain 3 ttc3 7.19 CCTTACACTT 35.97 Eukaryotic translation initiation factor 1A, Y-linked 6.54 TAGATAGCAT 32.70 Selenoprotein W, muscle 1 sepw1 5.81 TTTCCAGGTG 34.88 protease, serine, 15 prss15 5.67 AATAAAGAAA 56.68 Mitochondrial ribosomal protein L38 mrpl38 5.27 CTGGCCTCTC 31.61 arginine vasopressin-induced 1 avpi1 4.81 GCGTTCCTCT 81.75 LPS-induced TN factor litaf 4.67 ACTTTGATAT 32.70 cathepsin B ctsb 4.63 GTTTGCTGTG 37.06 zinc finger, DHHC domain containing 14 zdhhc14 4.47 TAGTTACTTA 44.69 Stress-70 protein, mitochondrial precursor hspa9a 4.32 GGCCTGAGGC 120.99 lectin, galactoside-binding, soluble, 3 binding protein lgals3bp 4.27 AGGTCCTGTG 51.23 deleted in polyposis 1 dp1 4.19 CTAGGGACAG 54.50 Fgfr1 oncogene partner fgfr1op 4.09 GCTCCAAGGA 32.70 Phosphoserine aminotransferase 1 psat1 3.89 GAAAACATTA 81.75 mitochondrial 3.82 ACTTTATCAA 38.15 Zinc finger protein 180 zfp180 3.82 GTACAAGGAA 30.52 MAF1 homolog (yeast) maf1 3.77 CACTGAGTGT 49.05 Activating factor 4 atf4 3.72 TGTAAAGGAG 44.69 Rho/rac guanine nucleotide exchange factor (GEF) 2 arhgef2 3.63 AATGGATGCA 43.60 acetyl-Coenzyme A acyltransferase 1 acaa1 3.6 GGACACCCTG 35.97 protein phosphatase 1F (PP2C domain containing) ppm1f 3.54 GGGCCCTGTA 36.68 Macrophage erythroblast attacher maea 3.51 TTGATGTTGA 31.61 ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit atp5o 3.38 CGGGAGATGC 236.53 brevican bcan 3.33 TCAGCTGCCT 63.22 NADH dehydrogenase (ubiquinone) Fe-S protein 2 ndufs2 3.27 AACTAGAAAA 42.51 mitochondrial ribosomal protein L44 mrpl44 3.07 CCATATGTGA 33.79 lysyl-tRNA synthetase kars 3 CAACTATGGT 47.96 Alanyl-tRNA synthetase aars 3 TGCAATAAAA 107.91 calumenin calu 2.93 TCTATAGAGT 38.15 Lysosomal-associated protein transmembrane 4B laptm4b 2.88 TCTCTGAATG 40.33 basigin bsg 2.83 CTCTGACTTA 127.53 Tyrosinase-related protein 1 tyrp1 2.77 AAACTGCCTG 260.51 Adaptor-related protein complex 3, delta 1 subunit ap3d1 2.77 TGAAGAGAGA 30.52 protease 26S subunit, ATPase 5 psmc5 2.76 TCCATCAAGA 41.42 polymerase (RNA) II (DNA directed) polypeptide G polr2g 2.73 GAAATGTTGT 49.05 ATPase, H+ transporting, V1 subunit G isoform 1 atp6v1g1 2.73 TTTTTGGTGT 43.60 seryl-aminoacyl-tRNA synthetase 1 sars1 2.66 GAGGTCACTG 42.51 Dr1 associated protein 1 (negative cofactor 2 alpha) drap1 2.63 CTCTCTTCTA 44.69 DNA segment, Chr 8, ERATO Doi 325, expressed D8Ertd325e 2.6 TAGTCAGGGA 54.50 eukaryotic translation termination factor 1 etf1 2.57 CAACTTAAGT 35.97 Asparagine synthetase asns 2.56 AAAAGAAATA 74.12 Storage granule protein 23 gars 2.47 TCCACTACAC 37.06 psmd7 2.35 TATTGTTTAC 30.52 Golgi associated, gamma adaptin ear containing, ARF binding protein gga2 2.33 TGGTGACTAA 51.23 2 DNA segment, Chr 10, Wayne State University 52, expressed D10Wsu52e 2.32 CTATTAAATA 37.06 nischarin nisch 2.31 GGTCCAAGAG 39.24 Proteasome (prosome, macropain) 26S subunit, ATPase 3 psmc3 2.29 GAGGGCATCC 66.49 Superoxide dismutase 1, soluble sod1 2.26 AGAAACAAGA 31.61 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 7 (B14.5a) ndufa7 2.25 ACTGCTTTTC 33.79 insulin induced gene 1 insig1 2.25 TCCGTGCTAA 33.79 tribbles homolog 3 (Drosophila) trib3 2.24 TGCCCAATAA 42.51 Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously 2.21 CTAATAAAGC 457.8 expressed (fox derived) CDC28 protein kinase 1 cks1 2.18 TTACAAGCCT 39.24 Cysteine and glycine-rich protein 1 csrp1 2.17 GGCTGTTGAA 208.19 peroxisome biogenesis factor 7 pex7 2.13 GACAGTAATA 42.51 Solute carrier family 7 (cationic transporter, y+ system), slc7a1 2.12 CTCCTGCAGA 35.97 member 1 Genes associated with retinoid-IFN-induced mortality 19 grim19 2.11 AAGGATGTGC 33.79 ribosomal protein S8 rps8 2.06 TGTAGTGTAA 777.17 X-prolyl aminopeptidase (aminopeptidase P) 1, soluble xpnpep1 2.06 AGACCCTCCT 55.59 Ornithine decarboxylase antizyme oaz1 2.05 TCGTGATTGT 51.23 FK506 binding protein 9 fkbp9 2.04 CAAATGCTGT 110.09