B number Gene name mRNA intensity mRNA present # of tryptic peptides predicted Protein detected - total list # of tryptic peptides detected (total list) Protein detected - short list # of tryptic peptides detected (short list) Protein detected - long list # of tryptic peptides detected (long list) Proteins detected - membrane sample # of tryptic peptides detected (membrane sample) Membrane protein assignment Gene description Functional category b0003 thrB 6781 P 9 P 3 3 P 3 0 homoserine kinase Metabolism of small molecules b0004 thrC 15039 P 18 P 10 P 11 P 10 0 threonine synthase Metabolism of small molecules b0008 talB 20561 P 20 P 13 P 16 P 13 0 transaldolase B Metabolism of small molecules b0009 mog 1296 P 7 0 0 0 0 required for the efficient incorporation of molybdate into molybdoproteins Metabolism of small molecules b0014 dnaK 13283 P 32 P 23 P 24 P 23 0 chaperone Hsp70; DNA biosynthesis; autoregulated heat shock proteins Cell processes b0031 dapB 2348 P 16 P 3 3 P 3 0 dihydrodipicolinate reductase Metabolism of small molecules b0032 carA 9312 P 14 P 8 P 8 P 8 0 "carbamoyl-phosphate synthetase, glutamine (small) subunit" Metabolism of small molecules b0048 folA 1588 P 7 P 1 2 P 1 0 dihydrofolate reductase type I; trimethoprim resistance Metabolism of small molecules b0053 surA 3825 P 19 P 4 P 5 P 4 P(m) 1 GenProt "peptidyl-prolyl cis-trans isomerase (PPIase), involved in maturation of outer membrane proteins (1st module)" Cell processes b0054 imp 2737 P 42 P 5 0 0 P(m) 5 GenProt organic solvent tolerance Cell processes b0071 leuD 4770 P 10 P 9 P 7 P 9 0 isopropylmalate isomerase subunit Metabolism of small molecules b0072 leuC 10437 P 18 P 9 P 7 P 9 0 3-isopropylmalate isomerase (dehydratase) subunit Metabolism of small molecules b0078 ilvH 2778 P 9 P 2 P 5 P 2 0 "acetolactate synthase III, valine sensitive, small subunit" Metabolism of small molecules b0085 murE 1392 P 21 0 1 0 0 meso-diaminopimelate-adding enzyme Structural elements b0095 ftsZ 9268 P 22 P 6 P 7 P 6 P(m) 2 cell division; forms circumferential ring; tubulin-like GTP-binding protein and GTPase Cell processes b0114 aceE 15349 P 44 P 24 P 24 P 24 P(m) 1 pyruvate dehydrogenase (decarboxylase component) Metabolism of small molecules b0115 aceF 8150 P 34 P 13 P 12 P 13 0 pyruvate dehydrogenase (dihydrolipoyltransacetylase component) Metabolism of small molecules b0116 lpdA 21822 P 17 P 15 P 10 P 15 P(m) 4 lipoamide dehydrogenase (NADH); component of 2-oxodehydrogenase and pyruvate complexes; L-protein of glycine cleavage complex Metabolism of small molecules b0118 acnB 4087 P 41 P 22 P 19 P 22 0 aconitate hydrase B Metabolism of small molecules b0121 speE 11091 P 8 P 2 1 P 2 0 spermidine synthase = putrescine aminopropyltransferase Metabolism of small molecules b0125 hpt 2328 P 8 0 1 0 0 hypoxanthine phosphoribosyltransferase Metabolism of small molecules b0133 panC 1978 P 15 P 5 P 6 P 5 0 pantothenate synthetase Metabolism of small molecules b0136 yadK 96 P 4 0 0 0 0 putative fimbrial protein Open reading frames b0145 dksA 5687 P 5 0 1 0 0 dnaK suppressor protein Macromolecule metabolism b0159 pfs 1457 P 8 P 1 2 P 1 0 PHD "orf, hypothetical protein" Metabolism of small molecules b0161 htrA 1016 P 17 P 4 P 5 P 4 P(m) 1 periplasmic serine protease Do; heat shock protein HtrA Macromolecule metabolism b0166 dapD 4162 P 13 P 9 P 9 P 9 0 "2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase" Metabolism of small molecules b0168 map 3407 P 16 P 2 2 P 2 0 methionine aminopeptidase Macromolecule metabolism b0169 rpsB 22176 P 11 P 10 P 8 P 10 0 30S ribosomal subunit protein S2 Structural elements b0170 tsf 9865 P 18 P 13 P 9 P 13 0 protein chain elongation factor EF-Ts Macromolecule metabolism b0172 frr 3673 P 9 P 3 3 P 3 0 ribosome releasing factor Macromolecule metabolism b0177 yaeT 4380 P 40 P 12 1 P 1 P(m) 12 GenProt "orf, hypothetical protein" Open reading frames b0194 proS 1361 P 29 P 11 P 12 P 11 0 proline tRNA synthetase Macromolecule metabolism b0197 yaeC 16241 P 13 P 7 0 0 P(m) 7 putative lipoprotein Miscellaneous b0215 dnaQ 756 P 9 0 0 0 0 "DNA polymerase III, epsilon subunit" Macromolecule metabolism b0220 ykfE 3358 P 8 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b0237 pepD 1500 P 19 P 8 P 7 P 8 0 aminoacyl-histidine dipeptidase (peptidase D) Macromolecule metabolism b0238 gpt 2952 P 5 0 1 0 0 guanine-hypoxanthine phosphoribosyltransferase Metabolism of small molecules b0241 phoE 126 P 18 0 0 0 0 MP-GenProt "outer membrane pore protein E (E,Ic,NmpAB)" Structural elements b0243 proA 794 P 20 P 4 P 5 P 4 0 gamma-glutamylphosphate reductase Metabolism of small molecules b0273 argF 3188 P 13 P 6 P 5 P 6 0 "ornithine carbamoyltransferase 2, chain F" Metabolism of small molecules b0296 ykgM 82 A 5 0 0 0 0 putative ribosomal protein Miscellaneous b0325 yahK 2065 P 16 P 5 P 7 P 5 0 putative oxidoreductase Miscellaneous b0369 hemB 963 P 14 P 2 2 P 2 0 5-aminolevulinate dehydratase = porphobilinogen synthase Metabolism of small molecules b0415 ribH 3781 P 5 P 2 3 P 2 0 "riboflavin synthase, beta chain" Metabolism of small molecules b0421 ispA 2792 P 12 0 0 0 0 geranyltranstransferase (farnesyldiphosphate synthase) Metabolism of small molecules b0436 tig 7545 P 24 P 17 P 12 P 17 0 trigger factor; a molecular chaperone involved in cell division Cell processes b0437 clpP 4300 P 7 0 1 0 0 "ATP-dependent proteolytic subunit of clpA-clpP serine protease, heat shock protein F21.5" Macromolecule metabolism b0450 glnK 98 A 7 P 2 2 P 2 0 nitrogen regulatory protein P-II 2 Metabolism of small molecules b0459 ylaD 1197 P 8 0 1 0 0 putative transferase Miscellaneous b0469 apt 3354 P 8 P 4 2 P 4 0 adenine phosphoribosyltransferase Metabolism of small molecules b0473 htpG 970 P 37 P 14 P 16 P 14 0 "chaperone Hsp90, heat shock protein C 62.5" Cell processes b0474 adk 7814 P 13 P 4 P 4 P 4 0 adenylate kinase activity; pleiotropic effects on glycerol-3-phosphate acyltransferase activity Metabolism of small molecules b0492 ybbN 2692 P 12 P 4 P 6 P 4 0 putative thioredoxin-like protein Miscellaneous b0494 tesA 1200 P 12 P 1 2 P 1 0 acyl-CoA thioesterase I; also functions as protease I Metabolism of small molecules b0522 purK 1507 P 12 P 2 P 4 P 2 0 "phosphoribosylaminoimidazole carboxylase = AIR carboxylase, CO(2)-fixing subunit" Metabolism of small molecules b0523 purE 3543 P 5 0 1 0 0 PHD "phosphoribosylaminoimidazole carboxylase = AIR carboxylase, catalytic subunit" Metabolism of small molecules b0525 ppiB 8209 P 7 P 1 3 P 1 0 peptidyl-prolyl cis-trans isomerase B (rotamase B) Macromolecule metabolism b0565 ompT 47106 P 17 P 6 0 0 P(m) 6 MP-GenProt "outer membrane protein 3b (a), protease VII" Structural elements b0578 nfnB 2638 P 11 P 4 P 4 P 4 0 oxygen-insensitive NAD(P)H nitroreductase Cell processes b0584 fepA 911 P 27 P 2 0 0 P(m) 2 MP-GenProt outer membrane receptor for ferric enterobactin (enterochelin) and colicins B and D Cell processes b0595 entB 1279 P 13 P 3 3 P 3 0 "2,3-dihydro-2,3-dihydroxybenzoate synthetase, isochroismatase" Metabolism of small molecules b0605 ahpC 38698 P 9 P 9 P 6 P 9 0 "alkyl hydroperoxide reductase, C22 subunit; detoxification of hydroperoxides" Cell processes b0606 ahpF 3105 P 24 P 6 P 6 P 6 0 "alkyl hydroperoxide reductase, F52a subunit; detoxification of hydroperoxides" Cell processes b0607 ybdQ 1709 P 6 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b0642 leuS 3675 P 41 P 11 P 13 P 11 0 leucine tRNA synthetase Macromolecule metabolism b0655 gltI 5452 P 14 P 5 P 4 P 5 0 glutamate/aspartate transport system periplasmic binding transport protein Cell processes b0680 glnS 1254 P 31 P 6 P 7 P 6 0 glutamine tRNA synthetase Macromolecule metabolism b0683 fur 4618 P 8 P 4 3 P 4 0 negative regulator Global functions b0723 sdhA 18927 P 29 P 12 P 12 P 12 P(m) 11 "succinate dehydrogenase, flavoprotein subunit" Metabolism of small molecules b0726 sucA 11040 P 39 P 12 P 13 P 12 P(m) 1 2-oxoglutarate dehydrogenase (decarboxylase component) Metabolism of small molecules b0727 sucB 20532 P 15 P 5 3 P 5 0 2-oxoglutarate dehydrogenase (dihydrolipoyltranssuccinase E2 component) Metabolism of small molecules b0728 sucC 40902 P 24 P 21 P 19 P 21 P(m) 3 "succinyl-CoA synthetase, beta subunit" Metabolism of small molecules b0729 sucD 7268 P 15 P 5 P 9 P 5 0 "succinyl-CoA synthetase, alpha subunit" Metabolism of small molecules b0740 tolB 6246 P 15 P 5 P 6 P 5 0 periplasmic protein involved in the tonb-independent uptake of group A colicins Extrachromosomal b0754 aroG 5196 P 17 P 5 P 5 P 5 0 "3-deoxy-D-arabinoheptulosonate-7-phosphate synthase (DAHP synthetase, phenylalanine repressible)" Metabolism of small molecules b0755 gpmA 5169 P 13 P 13 P 9 P 13 0 phosphoglyceromutase 1 Metabolism of small molecules b0756 galM 4960 P 13 P 6 P 7 P 6 0 galactose-1-epimerase (mutarotase) Metabolism of small molecules b0759 galE 1742 P 15 P 2 P 5 P 2 0 UDP-galactose-4-epimerase Metabolism of small molecules b0763 modA 999 P 17 0 2 0 0 molybdate-binding periplasmic protein; permease Cell processes b0782 moaB 3559 P 9 P 4 3 P 4 0 "molybdopterin biosynthesis, protein B" Metabolism of small molecules b0811 glnH 16120 P 14 P 5 P 7 P 5 0 periplasmic glutamine-binding protein; permease Cell processes b0812 dps 22609 P 12 P 6 P 7 P 6 0 "global regulator, starvation conditions" Global functions b0814 ompX 6175 P 6 P 2 0 0 P(m) 2 MP-GenProt outer membrane protein X Structural elements b0830 b0830 1054 P 21 P 3 P 4 P 3 0 putative transport protein Cell processes b0854 potF 2781 P 14 0 0 0 0 periplasmic putrescine-binding protein; permease protein Cell processes b0860 artJ 4456 P 12 P 6 P 7 P 6 0 arginine 3rd transport system periplasmic binding protein Cell processes b0863 artI 4421 P 12 P 2 P 4 P 2 0 arginine 3rd transport system periplasmic binding protein Cell processes b0871 poxB 3121 P 23 P 4 P 4 P 4 0 pyruvate oxidase Metabolism of small molecules b0881 yljA 5279 P 7 0 0 0 0 "orf, hypothetical protein" Open reading frames b0888 trxB 1462 P 12 P 4 P 5 P 4 0 thioredoxin reductase Metabolism of small molecules b0891 lolA 2667 P 12 P 3 P 5 P 3 0 periplasmic protein effects translocation of lipoproteins from inner membrane to outer Cell processes b0893 serS 643 P 22 P 9 P 9 P 9 0 serine tRNA synthetase; also charges selenocystein tRNA with serine Macromolecule metabolism b0903 pflB 5044 P 38 P 15 P 14 P 15 P(m) 1 formate acetyltransferase 1 Metabolism of small molecules b0907 serC 5838 P 17 P 10 P 9 P 10 0 3-phosphoserine aminotransferase Metabolism of small molecules b0908 aroA 3622 P 19 P 3 3 P 3 0 5-enolpyruvylshikimate-3-phosphate synthetase Metabolism of small molecules b0911 rpsA 29325 P 23 P 20 P 14 P 20 P(m) 3 30S ribosomal subunit protein S1 Structural elements b0918 kdsB 2010 P 15 P 2 P 4 P 2 0 CTP:CMP-3-deoxy-D-manno-octulosonate transferase Structural elements b0928 aspC 8281 P 23 P 16 P 16 P 16 0 aspartate aminotransferase Metabolism of small molecules b0929 ompF 32813 P 16 P 6 2 P 2 P(m) 6 MP-GenProt outer membrane protein 1a (Ia;b;F) Structural elements b0930 asnS 670 P 23 P 12 P 10 P 12 P(m) 1 asparagine tRNA synthetase Macromolecule metabolism b0945 pyrD 1955 P 20 P 2 2 P 1 P(m) 2 dihydro-orotate dehydrogenase Metabolism of small molecules b0957 ompA 36891 P 16 P 19 P 7 P 5 P(m) 19 MP-GenProt outer membrane protein 3a (II*;G;d) Structural elements b0980 appA 289 A 18 0 0 0 0 phosphoanhydride phosphorylase; pH 2.5 acid phosphatase; periplasmic Metabolism of small molecules b1004 wrbA 6589 P 9 P 7 P 5 P 7 0 trp repressor binding protein; affects association of trp repressor and operator Metabolism of small molecules b1048 mdoG 3791 P 25 P 7 P 9 P 7 0 periplasmic glucans biosynthesis protein Cell processes b1056 yceI 2261 P 11 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b1063 yceB 758 P 7 P 1 0 0 P(m) 1 "orf, hypothetical protein" Open reading frames b1083 flgL 68 A 17 0 0 0 0 flagellar biosynthesis; hook-filament junction protein Structural elements b1092 fabD 8101 P 11 P 2 3 P 2 0 malonyl-CoA-[acyl-carrier-protein] transacylase Metabolism of small molecules b1123 potD 5107 P 14 P 2 P 5 P 2 0 spermidine/putrescine periplasmic transport protein Cell processes b1136 icdA 42636 P 21 P 13 P 10 P 13 0 "isocitrate dehydrogenase, specific for NADP+" Metabolism of small molecules b1175 minD 5617 P 14 P 5 P 7 P 5 0 MP-GenProt "cell division inhibitor, a membrane ATPase, activates minC" Cell processes b1178 ycgK 1361 P 7 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b1198 ycgC 618 P 21 P 7 P 6 P 7 0 putative PTS system enzyme I Miscellaneous b1203 ychF 1146 P 19 P 6 P 6 P 6 0 putative GTP-binding protein Miscellaneous b1215 kdsA 2855 P 15 P 4 P 4 P 4 0 2-dehydro-3-deoxyphosphooctulonate aldolase Structural elements b1237 hns 34541 P 7 P 4 P 4 P 4 0 "DNA-binding protein HLP-II (HU, BH2, HD, NS); pleiotropic regulator" Macromolecule metabolism b1243 oppA 7098 P 26 P 18 P 16 P 18 0 oligopeptide transport; periplasmic binding protein Cell processes b1251 yciI 2853 P 2 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b1260 trpA 1889 P 14 P 9 P 10 P 9 0 "tryptophan synthase, alpha protein" Metabolism of small molecules b1261 trpB 7588 P 18 P 4 P 6 P 4 0 "tryptophan synthase, beta protein" Metabolism of small molecules b1263 trpD 3403 P 15 P 2 3 P 2 0 "anthranilate synthase component II, glutamine amidotransferase and phosphoribosylanthranilate transferase" Metabolism of small molecules b1281 pyrF 982 P 10 P 2 2 P 2 0 orotidine-5'-phosphate decarboxylase Metabolism of small molecules b1288 fabI 5468 P 11 P 5 P 4 P 5 0 enoyl-[acyl-carrier-protein] reductase (NADH) Metabolism of small molecules b1324 tpx 7051 P 7 P 9 P 5 P 9 0 thiol peroxidase Cell processes b1329 mppA 457 P 27 P 1 P 4 P 1 0 "periplasmic murein tripeptide transport protein, also negative regulator of multiple antibiotic resistance" Cell processes b1333 ydaA 38 A 16 0 0 0 0 "orf, hypothetical protein" Open reading frames b1376 ynaF 5755 P 7 P 2 2 P 2 P(m) 1 putative filament protein Open reading frames b1406 ydbC 486 P 12 0 1 0 0 putative dehydrogenase Open reading frames b1415 aldA 8892 P 23 P 19 P 13 P 19 P(m) 2 "aldehyde dehydrogenase, NAD-linked" Metabolism of small molecules b1427 rimL 349 P 8 P 1 1 P 1 0 acetylation of N-terminal serine of 30S ribosomal subunit protein L7; acetyl transferase Structural elements b1525 b1525 773 P 19 P 1 1 P 1 0 putative aldehyde dehydrogenase Miscellaneous b1613 manA 1536 P 18 P 6 P 7 P 6 P(m) 1 mannose-6-phosphate isomerase Metabolism of small molecules b1619 hdhA 2814 P 12 P 1 2 P 1 0 "NAD-dependent 7alpha-hydroxysteroid dehydrogenase, dehydroxylation of bile acids" Metabolism of small molecules b1635 gst 2223 P 11 P 2 3 P 2 0 glutathionine S-transferase Metabolism of small molecules b1637 tyrS 2372 P 17 P 7 P 8 P 7 0 tyrosine tRNA synthetase Macromolecule metabolism b1650 nemA 429 P 18 P 1 1 P 1 0 N-ethylmaleimide reductase Metabolism of small molecules b1654 ydhD 6502 P 5 P 3 3 P 3 0 "orf, hypothetical protein" Open reading frames b1656 sodB 12459 P 8 P 2 3 P 2 0 "superoxide dismutase, iron" Cell processes b1662 ribE 628 P 11 P 3 3 P 3 0 "riboflavin synthase, alpha chain" Metabolism of small molecules b1676 pykF 3969 P 27 P 13 P 14 P 13 0 "pyruvate kinase I (formerly F), fructose stimulated" Metabolism of small molecules b1693 aroD 909 P 15 P 1 0 P 1 0 3-dehydroquinate dehydratase Metabolism of small molecules b1702 ppsA 2862 P 36 P 14 P 16 P 14 0 phosphoenolpyruvate synthase Metabolism of small molecules b1713 pheT 10398 P 35 P 12 P 17 P 12 0 "phenylalanine tRNA synthetase, beta-subunit" Macromolecule metabolism b1714 pheS 4088 P 18 P 8 P 8 P 8 0 "phenylalanine tRNA synthetase, alpha-subunit" Macromolecule metabolism b1723 pfkB 4224 P 16 P 3 P 4 P 3 0 6-phosphofructokinase II; suppressor of pfkA Metabolism of small molecules b1727 yniC 1079 P 13 P 1 1 P 1 0 putative phosphatase Open reading frames b1732 katE 2791 P 30 P 7 P 7 P 7 0 catalase; hydroperoxidase HPII(III) Cell processes b1740 nadE 2929 P 15 P 8 P 11 P 8 0 "NAD synthetase, prefers NH3 over glutamine" Metabolism of small molecules b1749 xthA 1584 P 16 P 2 2 P 2 0 exonuclease III Macromolecule metabolism b1761 gdhA 2794 P 23 P 8 P 7 P 8 0 NADP-specific glutamate dehydrogenase Metabolism of small molecules b1779 gapA 41263 P 20 P 13 P 10 P 13 P(m) 2 glyceraldehyde-3-phosphate dehydrogenase A Metabolism of small molecules b1817 manX 5528 P 15 P 1 2 P 1 P(m) 1 "PTS enzyme IIAB, mannose-specific" Cell processes b1823 cspC 30711 P 5 P 4 2 P 4 P(m) 1 cold shock protein Miscellaneous b1832 b1832 4057 P 10 P 2 2 P 2 0 "orf, hypothetical protein" Open reading frames b1850 eda 1831 P 9 P 2 3 P 2 0 2-keto-3-deoxygluconate 6-phosphate aldolase and 2-keto-4-hydroxyglutarate aldolase Metabolism of small molecules b1852 zwf 2415 P 28 P 15 P 14 P 15 0 glucose-6-phosphate dehydrogenase Metabolism of small molecules b1857 yebL 1559 P 14 P 2 3 P 2 0 PHD putative adhesin Miscellaneous b1866 aspS 3503 P 33 P 13 P 11 P 13 0 aspartate tRNA synthetase Macromolecule metabolism b1870 yecO 997 P 15 P 2 2 P 2 0 "orf, hypothetical protein" Open reading frames b1876 argS 689 P 29 P 5 P 7 P 5 0 arginine tRNA synthetase Macromolecule metabolism b1881 cheZ 157 A 10 0 0 0 0 chemotactic response; CheY protein phophatase; antagonist of CheY as switch regulator Cell processes b1882 cheY 231 A 5 0 0 0 0 chemotaxis regulator transmits chemoreceptor signals to flagelllar motor components Cell processes b1897 otsB 4018 P 14 P 2 2 P 2 0 "trehalose-6-phosphate phophatase, biosynthetic" Cell processes b1920 fliY 5516 P 18 P 6 P 9 P 6 0 putative periplasmic binding transport protein Cell processes b1923 fliC 392 P 22 0 0 0 0 "flagellar biosynthesis; flagellin, filament structural protein" Structural elements b1924 fliD 103 A 19 0 0 0 0 flagellar biosynthesis; filament capping protein; enables filament assembly Structural elements b1967 yedU 3393 P 10 P 3 3 P 3 0 "orf, hypothetical protein" Open reading frames b1973 b1973 89 A 8 P 3 P 4 P 3 0 "orf, hypothetical protein" Open reading frames b2019 hisG 5358 P 14 P 2 P 5 P 2 0 ATP phosphoribosyltransferase Metabolism of small molecules b2020 hisD 3584 P 12 P 5 P 6 P 5 0 L-histidinal:NAD+ oxidoreductase; L-histidinol:NAD+ oxidoreductase Metabolism of small molecules b2022 hisB 3091 P 16 P 3 P 4 P 3 0 imidazoleglycerolphosphate dehydratase and histidinol-phosphate phosphatase Metabolism of small molecules b2023 hisH 2569 P 9 P 1 3 P 1 0 glutamine amidotransferase subunit of heterodimer with HisF = imidazole glycerol phosphate synthase holoenzyme Metabolism of small molecules b2024 hisA 4310 P 13 P 1 1 P 1 0 N-(5'-phospho-L-ribosyl-formimino)-5-amino-1-(5'- phosphoribosyl)-4-imidazolecarboxamide isomerase Metabolism of small molecules b2039 rfbA 3609 P 17 P 7 P 8 P 7 0 glucose-1-phosphate thymidylyltransferase Metabolism of small molecules b2114 metG 1194 P 34 P 11 P 13 P 11 0 methionine tRNA synthetase Macromolecule metabolism b2143 cdd 264 P 13 P 3 3 P 3 0 cytidine/deoxycytidine deaminase Metabolism of small molecules b2150 mglB 7569 P 20 P 12 P 11 P 12 0 galactose-binding transport protein; receptor for galactose taxis Cell processes b2155 cirA 1209 P 30 P 5 0 0 P(m) 5 MP-GenProt outer membrane receptor for iron-regulated colicin I receptor; porin; requires tonB gene product Structural elements b2169 fruB 878 P 14 0 0 0 0 "PTS system, fructose-specific IIA/fpr component" Cell processes b2183 rsuA 1276 P 9 P 1 2 P 1 0 16S pseudouridylate 516 synthase Macromolecule metabolism b2185 rplY 29249 P 6 P 3 3 P 3 0 50S ribosomal subunit protein L25 Structural elements b2231 gyrA 1303 P 40 P 11 P 12 P 11 0 "DNA gyrase, subunit A, type II topoisomerase" Macromolecule metabolism b2287 nuoB 9713 P 10 P 2 2 P 2 P(m) 1 NADH dehydrogenase I chain B Metabolism of small molecules b2296 ackA 5299 P 15 P 3 P 5 P 3 0 acetate kinase Metabolism of small molecules b2297 pta 1290 P 31 P 9 P 11 P 9 0 phosphotransacetylase Metabolism of small molecules b2309 hisJ 6475 P 12 P 4 P 6 P 4 0 histidine-binding periplasmic protein of high-affinity histidine transport system Cell processes b2310 argT 3551 P 15 P 10 P 10 P 10 0 "lysine-, arginine-, ornithine-binding periplasmic protein" Cell processes b2414 cysK 26197 P 13 P 15 P 10 P 15 P(m) 2 "cysteine synthase A, O-acetylserine sulfhydrolase A" Metabolism of small molecules b2415 ptsH 13305 P 3 0 0 0 0 PTS system protein HPr Cell processes b2416 ptsI 20122 P 28 P 8 P 10 P 8 0 PEP-protein phosphotransferase system enzyme I Cell processes b2417 crr 8031 P 6 P 5 P 4 P 5 0 "PTS system, glucose-specific IIA component" Cell processes b2421 cysM 1725 P 16 P 2 1 P 2 0 "cysteine synthase B, O-acetylserine sulfhydrolase B" Metabolism of small molecules b2425 cysP 3266 P 21 P 12 P 9 P 12 0 thiosulfate binding protein Cell processes b2476 purC 6714 P 13 P 6 P 8 P 6 0 phosphoribosylaminoimidazole-succinocarboxamide synthetase = SAICAR synthetase Metabolism of small molecules b2477 nlpB 3434 P 17 P 4 0 0 P(m) 4 GenProt lipoprotein-34 Macromolecule metabolism b2478 dapA 8978 P 11 P 2 P 5 P 2 0 dihydrodipicolinate synthase Metabolism of small molecules b2480 bcp 5167 P 10 P 5 P 5 P 5 0 "thiol peroxidase, thioredoxin dependent" Cell processes b2498 upp 6828 P 10 P 4 P 5 P 4 0 uracil phosphoribosyltransferase Metabolism of small molecules b2508 guaB 5523 P 17 P 5 P 7 P 5 0 IMP dehydrogenase Metabolism of small molecules b2514 hisS 3338 P 23 P 9 P 12 P 9 0 histidine tRNA synthetase Macromolecule metabolism b2518 ndk 19329 P 6 P 10 P 5 P 10 0 nucleoside diphosphate kinase Metabolism of small molecules b2533 suhB 479 A 16 P 6 P 6 P 6 0 "enhances synthesis of sigma32 in mutant; extragenic suppressor, may modulate RNAse III lethal action" Global functions b2551 glyA 10756 P 19 P 14 P 8 P 14 0 serine hydroxymethyltransferase Metabolism of small molecules b2579 yfiD 394 P 9 P 4 P 5 P 4 0 putative formate acetyltransferase Metabolism of small molecules b2592 clpB 1606 P 46 P 14 P 16 P 14 0 heat shock protein Macromolecule metabolism b2597 yfiA 11790 P 6 P 2 1 P 2 0 putative yhbH sigma 54 modulator Miscellaneous b2601 aroF 1894 P 17 P 2 2 P 2 0 "3-deoxy-D-arabinoheptulosonate-7-phosphate synthase (DAHP synthetase, tyrosine repressible)" Metabolism of small molecules b2608 rimM 37205 P 9 P 1 P 4 P 1 0 16S rRNA processing protein Macromolecule metabolism b2614 grpE 2920 P 6 P 2 3 P 2 0 phage lambda replication; host DNA synthesis; heat shock protein; protein repair Extrachromosomal b2665 ygaU 3443 P 12 P 3 1 P 1 P(m) 3 "orf, hypothetical protein" Open reading frames b2679 proX 6568 P 11 P 7 P 8 P 7 0 high-affinity transport system for glycine betaine and proline Cell processes b2687 ygaG 3559 P 7 P 3 1 P 3 0 "orf, hypothetical protein" Miscellaneous b2697 alaS 6894 P 49 P 13 P 15 P 13 0 alanyl-tRNA synthetase Macromolecule metabolism b2699 recA 3341 P 15 P 6 P 6 P 6 P(m) 2 "DNA strand exchange and renaturation, DNA-dependent ATPase, DNA- and ATP-dependent coprotease" Macromolecule metabolism b2727 hypB 298 P 10 0 0 0 0 "guanine-nucleotide binding protein, functions as nickel donor for large subunit of hydrogenase 3" Metabolism of small molecules b2729 hypD 674 P 15 0 0 0 0 pleiotrophic effects on 3 hydrogenase isozymes Metabolism of small molecules b2733 mutS 379 P 39 0 1 0 0 methyl-directed mismatch repair Macromolecule metabolism b2742 nlpD 41875 P 10 0 0 0 0 GenProt lipoprotein Macromolecule metabolism b2779 eno 11093 P 19 P 15 P 13 P 15 P(m) 2 enolase Metabolism of small molecules b2780 pyrG 7990 P 27 P 7 P 7 P 7 0 CTP synthetase Metabolism of small molecules b2803 fucK 439 P 22 0 0 0 0 L-fuculokinase Metabolism of small molecules b2838 lysA 683 P 11 P 2 2 P 2 0 diaminopimelate decarboxylase Metabolism of small molecules b2890 lysS 1501 P 27 P 14 P 12 P 14 0 "lysine tRNA synthetase, constitutive; suppressor of ColE1 mutation in primer RNA" Macromolecule metabolism b2898 ygfZ 1971 P 16 P 6 P 7 P 6 0 "orf, hypothetical protein" Open reading frames b2914 rpiA 2279 P 7 P 3 3 P 3 0 "ribosephosphate isomerase, constitutive" Metabolism of small molecules b2925 fba 5147 P 12 P 14 P 9 P 14 P(m) 1 "fructose-bisphosphate aldolase, class II" Metabolism of small molecules b2926 pgk 16984 P 18 P 19 P 15 P 19 0 phosphoglycerate kinase Metabolism of small molecules b2937 speB 1774 P 8 0 2 0 0 agmatinase Metabolism of small molecules b2942 metK 2768 P 20 P 8 P 10 P 8 0 "methionine adenosyltransferase 1 (AdoMet synthetase); methyl and propylamine donor, corepressor of met genes" Metabolism of small molecules b2962 yggX 2770 P 8 P 3 3 P 3 0 "orf, hypothetical protein" Open reading frames b3029 ygiN 5845 P 4 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b3035 tolC 3776 P 22 P 10 0 0 P(m) 10 MP-GenProt outer membrane channel; specific tolerance to colicin E1; segregation of daughter chromosomes Cell processes b3162 deaD 716 P 25 P 2 P 4 P 2 0 inducible ATP-independent RNA helicase Macromolecule metabolism b3164 pnp 5346 P 29 P 8 P 8 P 8 P(m) 1 polynucleotide phosphorylase; cytidylate kinase activity Macromolecule metabolism b3167 rbfA 1507 P 8 P 3 3 P 3 0 ribosome-binding factor A Macromolecule metabolism b3169 nusA 11021 P 24 P 7 P 9 P 7 0 transcription pausing; L factor Macromolecule metabolism b3172 argG 2077 P 24 P 6 P 10 P 6 0 argininosuccinate synthetase Metabolism of small molecules b3181 greA 925 P 10 P 4 P 5 P 4 0 transcription elongation factor: cleaves 3' nucleotide of paused mRNA Macromolecule metabolism b3186 rplU 53296 P 6 P 3 2 P 3 0 50S ribosomal subunit protein L21 Structural elements b3192 yrbC 3960 P 13 P 1 1 P 1 0 "orf, hypothetical protein" Cell processes b3209 yhbL 1071 P 9 P 1 2 P 1 0 sigma cross-reacting protein 27A (SCRP-27A) Miscellaneous b3213 gltD 7485 P 25 P 11 P 11 P 11 P(m) 1 "glutamate synthase, small subunit" Metabolism of small molecules b3228 sspB 1618 P 5 P 1 1 P 1 0 stringent starvation protein B Global functions b3229 sspA 4258 P 9 P 2 3 P 2 0 regulator of transcription; stringent starvation protein A Global functions b3234 degQ 685 P 20 P 2 P 5 P 2 0 serine endoprotease Macromolecule metabolism b3236 mdh 18040 P 13 P 25 P 12 P 25 0 malate dehydrogenase Metabolism of small molecules b3253 yhdH 1362 P 13 P 3 P 5 P 3 0 putative dehydrogenase Miscellaneous b3255 accB 10847 P 6 0 1 0 0 "acetylCoA carboxylase, BCCP subunit; carrier of biotin" Metabolism of small molecules b3288 fmt 1413 P 13 P 4 P 4 P 4 0 10-formyltetrahydrofolate:L-methionyl-tRNA(fMet) N-formyltransferase Macromolecule metabolism b3295 rpoA 33843 P 17 P 12 P 10 P 12 0 "RNA polymerase, alpha subunit" Miscellaneous b3339 tufA 55718 P 22 P 36 P 14 P 36 P(m) 3 protein chain elongation factor EF-Tu (duplicate of tufB) Macromolecule metabolism b3340 fusA 56613 P 32 P 29 P 16 P 29 0 GTP-binding protein chain elongation factor EF-G Macromolecule metabolism b3347 fkpA 1544 P 13 P 6 P 8 P 6 0 FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase) Macromolecule metabolism b3359 argD 1967 P 18 P 3 P 4 P 3 0 acetylornithine delta-aminotransferase Metabolism of small molecules b3363 ppiA 2058 P 8 P 1 2 P 1 0 peptidyl-prolyl cis-trans isomerase A (rotamase A) Macromolecule metabolism b3385 gph 3910 P 7 0 1 0 0 phosphoglycolate phosphatase Metabolism of small molecules b3390 aroK 5176 P 14 P 2 3 P 2 0 shikimate kinase I Metabolism of small molecules b3414 yhgI 4562 P 6 P 3 3 P 3 0 "orf, hypothetical protein" Miscellaneous b3421 rtcB 238 A 24 0 0 0 0 Still Unknown Open reading frames b3423 glpR 1150 P 11 P 1 1 P 1 0 repressor of the glp operon Metabolism of small molecules b3426 glpD 7847 P 30 P 23 P 20 P 23 P(m) 12 sn-glycerol-3-phosphate dehydrogenase (aerobic) Metabolism of small molecules b3433 asd 7201 P 12 P 12 P 7 P 12 0 aspartate-semialdehyde dehydrogenase Metabolism of small molecules b3458 livK 5530 P 17 P 11 P 11 P 11 0 high-affinity leucine-specific transport system; periplasmic binding protein Cell processes b3460 livJ 26232 P 13 P 11 P 6 P 11 P(m) 1 high-affinity amino acid transport system; periplasmic binding protein Cell processes b3465 yhhF 724 P 9 0 0 0 0 "orf, hypothetical protein" Open reading frames b3472 b3472 2715 P 10 0 0 0 0 "orf, hypothetical protein" Open reading frames b3495 uspA 21127 P 4 0 1 0 0 universal stress protein; broad regulatory function? Cell processes b3500 gor 2280 P 17 P 3 P 4 P 3 0 glutathione oxidoreductase Metabolism of small molecules b3509 hdeB 3775 P 7 P 1 1 P 1 0 "orf, hypothetical protein" Open reading frames b3510 hdeA 21552 P 2 P 2 1 P 2 0 "orf, hypothetical protein" Open reading frames b3544 dppA 13089 P 24 P 15 P 15 P 15 P(m) 2 dipeptide transport protein Cell processes b3612 yibO 1790 P 19 P 4 3 P 4 0 "putative 2,3-bisphosphoglycerate-independent phosphoglycerate mutase" Miscellaneous b3619 rfaD 4177 P 18 P 12 P 13 P 12 0 ADP-L-glycero-D-mannoheptose-6-epimerase Structural elements b3640 dut 1867 P 4 P 1 1 P 1 0 deoxyuridinetriphosphatase Metabolism of small molecules b3661 nlpA 1002 P 11 P 3 P 4 P 3 P(m) 1 GenProt lipoprotein-28 Macromolecule metabolism b3665 yicP 117 A 24 0 0 0 0 probable adenine deaminase (synthesis xanthine) Metabolism of small molecules b3671 ilvB 5136 P 22 P 5 P 5 P 5 0 "acetolactate synthase I,valine-sensitive, large subunit" Metabolism of small molecules b3687 ibpA 653 P 6 P 1 1 P 1 0 heat shock protein Cell processes b3708 tnaA 1915 P 22 P 8 P 8 P 8 0 tryptophanase Metabolism of small molecules b3719 yieL 34 A 16 0 0 0 0 putative xylanase Miscellaneous b3728 pstS 2111 P 22 0 0 0 0 high-affinity phosphate-specific transport system; periplasmic phosphate-binding protein Cell processes b3731 atpC 4613 P 3 0 0 0 0 MP-GenProt "membrane-bound ATP synthase, F1 sector, epsilon-subunit" Cell processes b3732 atpD 5523 P 23 P 11 P 10 P 10 P(m) 11 MP-GenProt "membrane-bound ATP synthase, F1 sector, beta-subunit" Cell processes b3734 atpA 16689 P 25 P 17 P 14 P 15 P(m) 17 MP-GenProt "membrane-bound ATP synthase, F1 sector, alpha-subunit" Cell processes b3736 atpF 28649 P 10 P 3 1 P 1 P(m) 3 MP-GenProt "membrane-bound ATP synthase, F0 sector, subunit b" Cell processes b3744 asnA 412 P 13 P 2 2 P 2 0 asparagine synthetase A Metabolism of small molecules b3751 rbsB 11090 P 13 P 3 P 4 P 3 0 D-ribose periplasmic binding protein Cell processes b3770 ilvE 2177 P 13 P 5 3 P 5 0 branched-chain amino-acid aminotransferase Metabolism of small molecules b3771 ilvD 1335 P 25 P 6 P 6 P 6 0 dihydroxyacid dehydratase Metabolism of small molecules b3774 ilvC 21344 P 28 P 23 P 16 P 23 0 ketol-acid reductoisomerase Metabolism of small molecules b3781 trxA 5763 P 8 P 5 P 4 P 5 0 thioredoxin 1 Metabolism of small molecules b3831 udp 1535 P 10 P 1 3 P 1 0 uridine phosphorylase Metabolism of small molecules b3847 pepQ 2496 P 20 P 5 P 5 P 5 0 proline dipeptidase Macromolecule metabolism b3860 dsbA 2297 P 10 P 1 2 P 1 0 "protein disulfide isomerase I, essential for cytochrome c synthesis and formate-dependent reduction" Macromolecule metabolism b3863 polA 827 P 42 P 5 P 7 P 5 0 "DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and 3' --> 5' exonuclease" Macromolecule metabolism b3870 glnA 3685 P 20 P 12 P 12 P 12 P(m) 3 glutamine synthetase Metabolism of small molecules b3908 sodA 20896 P 8 P 9 P 6 P 9 0 "superoxide dismutase, manganese" Cell processes b3916 pfkA 2928 P 18 P 2 1 P 2 0 6-phosphofructokinase I Metabolism of small molecules b3917 sbp 394 P 19 0 0 0 0 periplasmic sulfate-binding protein Cell processes b3919 tpiA 7653 P 10 P 1 3 P 1 0 triosephosphate isomerase Metabolism of small molecules b3926 glpK 17449 P 28 P 22 P 19 P 22 P(m) 3 glycerol kinase Metabolism of small molecules b3931 hslU 1558 P 26 P 7 P 9 P 7 0 "heat shock protein hslVU, ATPase subunit, homologous to chaperones" Cell processes b3932 hslV 3959 P 6 P 1 1 P 1 0 "heat shock protein hslVU, proteasome-related peptidase subunit" Macromolecule metabolism b3942 katG 2050 P 34 P 15 P 14 P 15 0 catalase; hydroperoxidase HPI(I) Cell processes b3982 nusG 5933 P 10 P 5 3 P 5 0 component in transcription antitermination Macromolecule metabolism b3984 rplA 28105 P 12 P 9 P 10 P 9 P(m) 3 "50S ribosomal subunit protein L1, regulates synthesis of L1 and L11" Structural elements b3986 rplL 23694 P 5 P 6 P 4 P 6 P(m) 1 50S ribosomal subunit protein L7/L12 Structural elements b3987 rpoB 8885 P 63 P 31 P 31 P 31 0 "RNA polymerase, beta subunit" Miscellaneous b3993 thiE 4076 P 9 P 2 3 P 2 0 "thiamin biosynthesis, thiazole moiety" Metabolism of small molecules b4005 purD 1053 P 17 P 5 P 5 P 5 0 phosphoribosylglycinamide synthetase = GAR synthetase Metabolism of small molecules b4006 purH 3168 P 28 P 10 P 13 P 10 0 phosphoribosylaminoimidazolecarboxamideformyltransferase = AICAR formyltransferase; IMP cyclohydrolase Metabolism of small molecules b4015 aceA 30099 P 20 P 34 P 14 P 34 P(m) 7 isocitrate lyase Metabolism of small molecules b4019 metH 1355 P 58 P 15 P 13 P 15 0 "B12-dependent homocysteine-N5-methyltetrahydrofolate transmethylase, repressor of metE and metF" Metabolism of small molecules b4034 malE 3061 P 24 P 3 3 P 3 0 periplasmic maltose-binding protein; substrate recognition for transport and chemotaxis Cell processes b4052 dnaB 1658 P 28 P 1 2 P 1 0 replicative DNA helicase; part of primosome Macromolecule metabolism b4059 ssb 2312 P 7 P 3 3 P 3 0 ssDNA-binding protein Macromolecule metabolism b4135 yjdC 2805 P 12 P 2 2 P 2 0 "orf, hypothetical protein" Open reading frames b4142 mopB 35460 P 6 P 5 P 4 P 5 P(m) 1 "GroES, 10 Kd chaperone binds to Hsp60 in pres. Mg-ATP, suppressing its ATPase activity" Cell processes b4143 mopA 10097 P 26 P 13 P 17 P 13 P(m) 4 "GroEL, chaperone Hsp60, peptide-dependent ATPase, heat shock protein" Cell processes b4150 ampC 295 P 19 0 0 0 0 beta-lactamase; penicillin resistance Cell processes b4177 purA 2778 P 21 P 15 P 15 P 15 0 adenylosuccinate synthetase Metabolism of small molecules b4196 sgaH 259 P 9 0 0 0 0 probable hexulose-6-phosphate synthase Metabolism of small molecules b4200 rpsF 23491 P 7 P 2 2 P 2 0 30S ribosomal subunit protein S6 Structural elements b4203 rplI 2574 P 10 P 5 P 6 P 5 P(m) 3 50S ribosomal subunit protein L9 Structural elements b4207 fklB 3787 P 10 P 4 P 5 P 4 0 FKBP-type 22KD peptidyl-prolyl cis-trans isomerase (rotamase) Macromolecule metabolism b4226 ppa 3081 P 11 P 4 3 P 4 0 inorganic pyrophosphatase Metabolism of small molecules b4232 fbp 2607 P 14 P 3 P 6 P 3 0 fructose-bisphosphatase Metabolism of small molecules b4243 yjgF 11796 P 7 P 2 3 P 2 0 "orf, hypothetical protein" Open reading frames b4244 pyrI 36636 P 9 P 8 P 7 P 8 0 "aspartate carbamoyltransferase, regulatory subunit" Metabolism of small molecules b4245 pyrB 39294 P 19 P 14 P 10 P 14 P(m) 2 "aspartate carbamoyltransferase, catalytic subunit" Metabolism of small molecules b4254 argI 2198 P 15 P 4 P 4 P 4 0 ornithine carbamoyltransferase 1 Metabolism of small molecules b4381 deoC 533 A 14 P 3 3 P 3 0 2-deoxyribose-5-phosphate aldolase Metabolism of small molecules b4384 deoD 3617 P 14 P 4 2 P 4 0 purine-nucleoside phosphorylase Metabolism of small molecules b4401 arcA 2126 P 11 P 2 2 P 2 0 "negative response regulator of genes in aerobic pathways, (sensors, ArcB and CpxA)" Global functions Swiss-2DPAGE database (http://us.expasy.org/ch2d/) was searched for E. coli proteins; 336 proteins (as of August 2004) were found. This list was matched against the list of E. coli proteins detected by HPLC-MS/MS. Annotation information according to Blattner et al (1997). Functional categories are assigned as defined by Riley and Labedan (1996). Membrane protein assignment (see Corbin et al. 2003): MP - list # 1, GenProt - list #2, PHD - list #3.