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 Ribosomal b0023 rpsT 7837 P 3 P 2 2 P 2 0 30S ribosomal subunit protein S20 Structural elements b0169 rpsB 22176 P 11 P 10 P 8 P 10 0 30S ribosomal subunit protein S2 Structural elements b0911 rpsA 29325 P 23 P 20 P 14 P 20 P(m) 3 30S ribosomal subunit protein S1 Structural elements b1089 rpmF 15309 P 3 0 0 0 0 50S ribosomal subunit protein L32 Structural elements b1480 rpsV 32277 P 2 P 1 1 P 1 0 30S ribosomal subunit protein S22 Structural elements b1716 rplT 4824 P 5 P 3 3 P 3 P(m) 1 50S ribosomal subunit protein L20, and regulator Structural elements b1717 rpmI 19377 P 1 0 0 0 0 50S ribosomal subunit protein A/L35 Structural elements b2185 rplY 29249 P 6 P 3 3 P 3 0 50S ribosomal subunit protein L25 Structural elements b2606 rplS 3359 P 7 P 5 3 P 5 0 50S ribosomal subunit protein L19 Structural elements b2609 rpsP 19104 P 3 P 5 3 P 5 P(m) 1 30S ribosomal subunit protein S16 Structural elements b3065 rpsU 14928 P 3 P 4 P 4 P 4 0 30S ribosomal subunit protein S21 Structural elements b3165 rpsO 3259 P 3 P 3 3 P 3 0 30S ribosomal subunit protein S15 Structural elements b3185 rpmA 6571 P 4 0 0 0 0 50S ribosomal subunit protein L27 Structural elements b3186 rplU 53296 P 6 P 3 2 P 3 0 50S ribosomal subunit protein L21 Structural elements b3230 rpsI 15830 P 7 P 4 2 P 4 0 30S ribosomal subunit protein S9 Structural elements b3231 rplM 38878 P 6 P 2 3 P 2 0 50S ribosomal subunit protein L13 Structural elements b3294 rplQ 10334 P 4 P 5 3 P 5 P(m) 1 50S ribosomal subunit protein L17 Structural elements b3296 rpsD 32646 P 10 P 10 P 10 P 10 P(m) 4 30S ribosomal subunit protein S4 Structural elements b3297 rpsK 48728 P 6 P 5 3 P 5 0 30S ribosomal subunit protein S11 Structural elements b3298 rpsM 45957 P 7 P 9 P 6 P 9 P(m) 2 30S ribosomal subunit protein S13 Structural elements b3299 rpmJ 50514 P 1 0 0 0 0 50S ribosomal subunit protein L36/X Structural elements b3301 rplO 45038 P 6 P 4 P 4 P 4 0 50S ribosomal subunit protein L15 Structural elements b3302 rpmD 21005 P 4 P 1 1 P 1 0 50S ribosomal subunit protein L30 Structural elements b3303 rpsE 27989 P 9 P 4 3 P 4 P(m) 2 30S ribosomal subunit protein S5 Structural elements b3304 rplR 33740 P 4 P 2 2 P 2 0 50S ribosomal subunit protein L18 Structural elements b3305 rplF 39081 P 9 P 10 P 8 P 10 P(m) 1 50S ribosomal subunit protein L6 Structural elements b3306 rpsH 40833 P 8 P 2 3 P 2 0 30S ribosomal subunit protein S8, and regulator Structural elements b3307 rpsN 30584 P 2 P 4 2 P 4 0 30S ribosomal subunit protein S14 Structural elements b3308 rplE 58952 P 11 P 12 P 7 P 12 P(m) 7 50S ribosomal subunit protein L5 Structural elements b3309 rplX 46318 P 4 P 5 P 4 P 5 0 50S ribosomal subunit protein L24 Structural elements b3310 rplN 43789 P 5 P 6 P 4 P 6 P(m) 1 50S ribosomal subunit protein L14 Structural elements b3311 rpsQ 15552 P 3 0 0 0 0 30S ribosomal subunit protein S17 Structural elements b3312 rpmC 12209 P 3 P 3 2 P 3 0 50S ribosomal subunit protein L29 Structural elements b3313 rplP 26918 P 4 P 2 2 P 2 0 50S ribosomal subunit protein L16 Structural elements b3314 rpsC 29916 P 10 P 10 P 9 P 10 P(m) 1 30S ribosomal subunit protein S3 Structural elements b3315 rplV 37295 P 5 P 5 P 4 P 5 0 50S ribosomal subunit protein L22 Structural elements b3316 rpsS 42940 P 4 P 1 1 P 1 0 30S ribosomal subunit protein S19 Structural elements b3317 rplB 29469 P 13 P 6 P 4 P 6 0 50S ribosomal subunit protein L2 Structural elements b3318 rplW 39328 P 2 P 1 0 P 1 0 50S ribosomal subunit protein L23 Structural elements b3319 rplD 40039 P 8 P 7 P 4 P 7 P(m) 2 50S ribosomal subunit protein L4, regulates expression of S10 operon Structural elements b3320 rplC 34128 P 12 P 6 P 4 P 6 0 50S ribosomal subunit protein L3 Structural elements b3321 rpsJ 41152 P 7 P 6 3 P 6 P(m) 2 30S ribosomal subunit protein S10 Structural elements b3341 rpsG 35444 P 9 P 8 P 7 P 8 P(m) 1 30S ribosomal subunit protein S7, initiates assembly Structural elements b3342 rpsL 45358 P 5 P 5 3 P 5 0 30S ribosomal subunit protein S12 Structural elements b3636 rpmG 18880 P 1 P 1 0 P 1 0 50S ribosomal subunit protein L33 Structural elements b3637 rpmB 26656 P 5 P 2 2 P 2 0 50S ribosomal subunit protein L28 Structural elements b3703 rpmH 8867 P 1 0 0 0 0 50S ribosomal subunit protein L34 Structural elements b3936 rpmE 10849 P 3 P 3 1 P 3 0 50S ribosomal subunit protein L31 Structural elements b3983 rplK 33966 P 6 P 4 P 4 P 4 0 50S ribosomal subunit protein L11 Structural elements 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 b3985 rplJ 34311 P 8 P 7 P 6 P 7 0 50S ribosomal subunit protein L10 Structural elements b3986 rplL 23694 P 5 P 6 P 4 P 6 P(m) 1 50S ribosomal subunit protein L7/L12 Structural elements b4200 rpsF 23491 P 7 P 2 2 P 2 0 30S ribosomal subunit protein S6 Structural elements b4202 rpsR 14218 P 3 P 4 2 P 4 0 30S ribosomal subunit protein S18 Structural elements b4203 rplI 2574 P 10 P 5 P 6 P 5 P(m) 3 50S ribosomal subunit protein L9 Structural elements Glycerol metabolism b2239 glpQ 5247 P 18 P 10 P 9 P 10 P(m) 1 glycerophosphodiester phosphodiesterase, periplasmic Metabolism of small molecules b2240 glpT 12296 P 15 P 4 0 0 P(m) 4 GenProt-PHD sn-glycerol-3-phosphate permease Cell processes b2241 glpA 1921 P 27 P 6 P 7 P 6 0 GenProt sn-glycerol-3-phosphate dehydrogenase (anaerobic), large subunit Metabolism of small molecules b2242 glpB 3240 P 14 P 1 2 P 1 0 MP-GenProt sn-glycerol-3-phosphate dehydrogenase (anaerobic), membrane anchor subunit Metabolism of small molecules b2243 glpC 1441 P 27 0 0 0 0 GenProt sn-glycerol-3-phosphate dehydrogenase (anaerobic), K-small subunit Metabolism of small molecules b3423 glpR 1150 P 11 P 1 1 P 1 0 repressor of the glp operon Metabolism of small molecules b3424 glpG 1814 P 7 0 0 0 0 protein of glp regulon Metabolism of small molecules b3425 glpE 901 P 6 0 0 0 0 protein of glp regulon 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 b3925 glpX 1586 P 17 P 1 1 P 1 0 unknown function in glycerol metabolism Miscellaneous b3926 glpK 17449 P 28 P 22 P 19 P 22 P(m) 3 glycerol kinase Metabolism of small molecules b3927 glpF 25772 P 6 P 1 0 0 P(m) 1 GenProt-PHD facilitated diffusion of glycerol Cell processes Glycolysis/Gluconeogenesis b0079 fruL 1330 P 1 0 0 0 0 fruR leader peptide Metabolism of small molecules b0080 fruR 510 P 14 P 1 1 P 1 0 transcriptional repressor of fru operon and others Metabolism of small molecules b0755 gpmA 5169 P 13 P 13 P 9 P 13 0 phosphoglyceromutase 1 Metabolism of small molecules b1416 gapC_2 795 P 2 0 0 0 0 glyceraldehyde-3-phosphate dehydrogenase (second fragment) Metabolism of small molecules b1417 gapC_1 1734 P 4 0 0 0 0 glyceraldehyde 3-phosphate dehydrogenase C, interrupted Metabolism of small molecules b1479 sfcA 1814 P 26 P 9 P 9 P 9 0 NAD-linked malate dehydrogenase (malic enzyme), alternative name - maeA 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 b1702 ppsA 2862 P 36 P 14 P 16 P 14 0 phosphoenolpyruvate synthase Metabolism of small molecules b1723 pfkB 4224 P 16 P 3 P 4 P 3 0 6-phosphofructokinase II; suppressor of pfkA 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 b1854 pykA 1782 P 22 P 12 P 13 P 12 0 pyruvate kinase II, glucose stimulated Metabolism of small molecules b2097 b2097 10583 P 16 P 8 P 6 P 8 P(m) 2 orf, hypothetical protein Metabolism of small molecules b2168 fruK 719 P 14 0 2 0 0 fructose-1-phosphate kinase Metabolism of small molecules b2779 eno 11093 P 19 P 15 P 13 P 15 P(m) 2 enolase 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 b3403 pckA 7786 P 24 P 15 P 14 P 15 0 phosphoenolpyruvate carboxykinase Metabolism of small molecules b3916 pfkA 2928 P 18 P 2 1 P 2 0 6-phosphofructokinase I Metabolism of small molecules b3919 tpiA 7653 P 10 P 1 3 P 1 0 triosephosphate isomerase Metabolism of small molecules b4025 pgi 4150 P 26 P 11 P 10 P 11 0 glucosephosphate isomerase Metabolism of small molecules b4232 fbp 2607 P 14 P 3 P 6 P 3 0 fructose-bisphosphatase Metabolism of small molecules b4395 gpmB 568 P 11 P 1 2 P 1 0 phosphoglyceromutase 2 Metabolism of small molecules TCA cycle b0118 acnB 4087 P 41 P 22 P 19 P 22 0 aconitate hydrase B Metabolism of small molecules b0720 gltA 11527 P 17 P 12 P 8 P 12 P(m) 2 PHD citrate synthase Metabolism of small molecules b0721 sdhC 12121 P 5 P 3 0 0 P(m) 3 GenProt-PHD succinate dehydrogenase, cytochrome b556 Metabolism of small molecules b0722 sdhD 16326 P 3 P 1 0 0 P(m) 1 GenProt-PHD succinate dehydrogenase, hydrophobic subunit Metabolism of small molecules b0723 sdhA 18927 P 29 P 12 P 12 P 12 P(m) 11 succinate dehydrogenase, flavoprotein subunit Metabolism of small molecules b0724 sdhB 5467 P 15 P 11 P 5 P 3 P(m) 11 succinate dehydrogenase, iron sulfur protein 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 b0730 farR 345 P 10 0 0 0 0 transcriptional regulator of succinylCoA synthetase operon Metabolism of small molecules b1136 icdA 42636 P 21 P 13 P 10 P 13 0 isocitrate dehydrogenase, specific for NADP+ Metabolism of small molecules b1276 acnA 1671 P 34 P 10 P 13 P 10 0 aconitate hydrase 1 Metabolism of small molecules b1611 fumC 684 P 15 P 3 3 P 3 0 fumarase C= fumarate hydratase Class II; isozyme Metabolism of small molecules b1612 fumA 4018 P 31 P 12 P 13 P 12 0 fumarase A = fumarate hydratase Class I; aerobic isozyme Metabolism of small molecules b3236 mdh 18040 P 13 P 25 P 12 P 25 0 malate dehydrogenase Metabolism of small molecules b4122 fumB 43 A 32 0 0 0 0 fumarase B= fumarate hydratase Class I; anaerobic isozyme Metabolism of small molecules Histidine biosynthesis b2018 hisL 4684 P 1 0 0 0 0 his operon leader peptide Metabolism of small molecules 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 b2021 hisC 2631 P 18 P 3 P 4 P 3 0 histidinol-phosphate aminotransferase 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 b2025 hisF 3366 P 15 P 2 2 P 2 0 imidazole glycerol phosphate synthase subunit in heterodimer with HisH = imidazole glycerol phsphate synthase holoenzyme Metabolism of small molecules b2026 hisI 1384 P 4 P 1 2 P 1 0 phosphoribosyl-amp cyclohydrolase; phosphoribosyl-ATP pyrophosphatase Metabolism of small molecules Tryptophan biosynthesis 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 b1262 trpC 3784 P 23 P 4 P 5 P 4 0 N-(5-phosphoribosyl)anthranilate isomerase and indole-3-glycerolphosphate synthetase 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 b1264 trpE 2693 P 19 P 6 P 8 P 6 0 anthranilate synthase component I Metabolism of small molecules b1265 trpL 2589 P 0 0 0 0 0 trp operon leader peptide Metabolism of small molecules Flagella b1070 flgN 271 P 5 0 0 0 0 protein of flagellar biosynthesis Structural elements b1071 flgM 261 P 5 0 0 0 0 anti-FliA (anti-sigma) factor; also known as RflB protein Structural elements b1072 flgA 239 P 8 0 0 0 0 flagellar biosynthesis; assembly of basal-body periplasmic P ring Structural elements b1073 flgB 85 A 6 0 0 0 0 flagellar biosynthesis, cell-proximal portion of basal-body rod Structural elements b1074 flgC 101 A 7 0 0 0 0 flagellar biosynthesis, cell-proximal portion of basal-body rod Structural elements b1075 flgD 216 P 2 0 0 0 0 flagellar biosynthesis, initiation of hook assembly Structural elements b1076 flgE 63 A 9 0 0 0 0 flagellar biosynthesis, hook protein Structural elements b1077 flgF 175 P 9 0 0 0 0 flagellar biosynthesis, cell-proximal portion of basal-body rod Structural elements b1078 flgG 253 A 8 0 0 0 0 flagellar biosynthesis, cell-distal portion of basal-body rod Structural elements b1079 flgH 75 A 9 0 0 0 0 MP-GenProt flagellar biosynthesis, basal-body outer-membrane L (lipopolysaccharide layer) ring protein Structural elements b1080 flgI 13 A 15 0 0 0 0 homolog of Salmonella P-ring of flagella basal body Structural elements b1081 flgJ 179 A 15 0 0 0 0 flagellar biosynthesis Structural elements b1082 flgK 189 A 20 0 0 0 0 flagellar biosynthesis, hook-filament junction protein 1 Structural elements b1083 flgL 68 A 17 0 0 0 0 flagellar biosynthesis; hook-filament junction protein Structural elements b1878 flhE 79 A 6 0 0 0 0 flagellar protein Structural elements b1879 flhA 40 A 23 0 0 0 0 GenProt-PHD flagellar biosynthesis; possible export of flagellar proteins Structural elements b1880 flhB 155 A 10 0 0 0 0 GenProt-PHD putative part of export apparatus for flagellar proteins Miscellaneous b1891 flhC 231 P 6 0 0 0 0 regulator of flagellar biosynthesis acting on class 2 operons; transcription initiation factor Structural elements b1892 flhD 810 P 7 0 0 0 0 regulator of flagellar biosynthesis, acting on class 2 operons; transcriptional initiation factor Structural elements b1920 fliY 5516 P 18 P 6 P 9 P 6 0 putative periplasmic binding transport protein Cell processes b1921 fliZ 126 P 9 0 0 0 0 orf, hypothetical protein Miscellaneous b1922 fliA 94 A 15 0 0 0 0 flagellar biosynthesis; alternative sigma factor 28; regulation of flagellar operons Structural elements 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 b1925 fliS 153 A 8 0 0 0 0 flagellar biosynthesis; repressor of class 3a and 3b operons (RflA activity) Structural elements b1926 fliT 239 A 4 0 0 0 0 flagellar biosynthesis; repressor of class 3a and 3b operons (RflA activity) Structural elements b1937 fliE 221 A 6 0 0 0 0 flagellar biosynthesis; basal-body component, possibly at (MS-ring)-rod junction Structural elements b1938 fliF 299 P 31 0 0 0 0 MP-GenProt-PHD flagellar biosynthesis; basal-body MS(membrane and supramembrane)-ring and collar protein Structural elements b1939 fliG 213 A 15 0 0 0 0 flagellar biosynthesis, component of motor switching and energizing, enabling rotation and determining its direction Structural elements b1940 fliH 113 A 12 0 0 0 0 flagellar biosynthesis; export of flagellar proteins? Structural elements b1941 fliI 57 A 25 0 0 0 0 flagellum-specific ATP synthase Structural elements b1942 fliJ 71 A 10 0 0 0 0 flagellar fliJ protein Structural elements b1943 fliK 88 A 11 0 0 0 0 flagellar hook-length control protein Structural elements b1944 fliL 71 A 9 0 0 0 0 flagellar biosynthesis Structural elements b1945 fliM 222 M 17 0 0 0 0 flagellar biosynthesis, component of motor switch and energizing, enabling rotation and determining its direction Structural elements b1946 fliN 122 A 2 0 0 0 0 flagellar biosynthesis, component of motor switch and energizing, enabling rotation and determining its direction Structural elements b1947 fliO 66 A 5 0 0 0 0 flagellar biosynthesis Structural elements b1948 fliP 71 A 7 0 0 0 0 PHD flagellar biosynthesis Structural elements b1949 fliQ 129 A 3 0 0 0 0 PHD flagellar biosynthesis Structural elements b1950 fliR 52 A 2 0 0 0 0 PHD flagellar biosynthesis Structural elements Lactose catabolism b0342 lacA 111 A 4 0 0 0 0 thiogalactoside acetyltransferase Metabolism of small molecules b0343 lacY 166 A 10 0 0 0 0 GenProt-PHD galactoside permease (M protein) Cell processes b0344 lacZ 333 P 47 0 1 0 0 beta-D-galactosidase Metabolism of small molecules b0345 lacI 324 P 16 0 0 0 0 transcriptional repressor of the lac operon Metabolism of small molecules Riboflavin biosynthesis b0414 ribD 1589 P 20 P 2 3 P 2 0 bifunctional pyrimidine deaminase/reductase in pathway of riboflavin synthesis Metabolism of small molecules b0415 ribH 3781 P 5 P 2 3 P 2 0 riboflavin synthase, beta chain (also denoted as ribE) Metabolism of small molecules b1277 ribA 1240 P 10 0 0 0 0 GTP cyclohydrolase II Metabolism of small molecules b1662 ribE 628 P 11 P 3 3 P 3 0 riboflavin synthase, alpha chain (also denoted as ribC) Metabolism of small molecules b3041 ribB 1210 P 9 P 2 3 P 2 0 3,4 dihydroxy-2-butanone-4-phosphate synthase Metabolism of small molecules NAD biosynthesis b0109 nadC 273 P 15 0 1 0 0 quinolinate phosphoribosyltransferase Metabolism of small molecules b0639 nadD 1131 P 4 0 0 0 0 Nicotinate mononucleotide adenylyltransferase, NAD(P) biosynthesis - b0750 nadA 2364 P 9 0 0 0 0 quinolinate synthetase, A protein Metabolism of small molecules b0931 pncB 1464 P 22 P 5 P 5 P 5 0 nicotinate phosphoribosyltransferase Metabolism of small molecules b1740 nadE 2929 P 15 P 8 P 11 P 8 0 NAD synthetase, prefers NH3 over glutamine Metabolism of small molecules b2574 nadB 504 P 26 0 0 0 0 quinolinate synthetase, B protein Metabolism of small molecules b4390 nadR 912 P 23 0 0 0 0 probable nadAB transcriptional regulator Metabolism of small molecules Pyridoxine biosynthesis b0052 pdxA 1543 P 13 0 0 0 0 pyridoxine biosynthesis Metabolism of small molecules b0420 dxs 1012 P 24 P 1 3 P 1 0 1-deoxyxylulose-5-phosphate synthase; flavoprotein Metabolism of small molecules b0907 serC 5838 P 17 P 10 P 9 P 10 0 3-phosphoserine aminotransferase Metabolism of small molecules b1638 pdxH 1682 P 12 P 1 3 P 1 0 pyridoxinephosphate oxidase Metabolism of small molecules b2320 pdxB 792 P 21 P 5 P 5 P 5 0 erythronate-4-phosphate dehyrogenase Metabolism of small molecules b2418 pdxK 672 P 10 0 0 0 0 pyridoxal/pyridoxine/pyridoxamine kinase Metabolism of small molecules b2564 pdxJ 1689 P 9 P 1 1 P 1 0 pyridoxine biosynthesis Metabolism of small molecules Thiamine biosynthesis b0417 thiL 1033 P 13 0 1 0 0 thiamin-monophosphate kinase Metabolism of small molecules b0420 dxs 1012 P 24 P 1 3 P 1 0 1-deoxyxylulose-5-phosphate synthase; flavoprotein Metabolism of small molecules b2103 thiD 949 P 13 P 2 3 P 2 0 phosphomethylpyrimidine kinase Metabolism of small molecules b2104 thiM 2873 P 7 P 2 2 P 2 0 hydoxyethylthiazole kinase Metabolism of small molecules b3990 thiH 3797 P 20 0 1 0 0 thiamin biosynthesis, thiazole moiety Metabolism of small molecules b3991 thiG 4139 P 13 P 3 3 P 3 0 thiamin biosynthesis, thiazole moiety Metabolism of small molecules b3992 thiF 2362 P 9 P 3 3 P 3 0 PHD thiamin biosynthesis, thiazole moiety Metabolism of small molecules b3993 thiE 4076 P 9 P 2 3 P 2 0 thiamin biosynthesis, thiazole moiety Metabolism of small molecules b3994 thiC 5841 P 29 P 7 P 9 P 7 0 thiamin biosynthesis, pyrimidine moiety Metabolism of small molecules Biotin biosynthesis b0774 bioA 1461 P 18 0 1 0 0 7,8-diaminopelargonic acid synthetase Metabolism of small molecules b0775 bioB 3252 P 16 0 1 0 0 biotin synthesis, sulfur insertion? Metabolism of small molecules b0776 bioF 927 P 16 0 0 0 0 8-amino-7-oxononanoate synthase Metabolism of small molecules b0777 bioC 1274 P 8 0 0 0 0 biotin biosynthesis; reaction prior to pimeloyl CoA Metabolism of small molecules b0778 bioD 1308 P 7 P 2 2 P 2 0 dethiobiotin synthetase Metabolism of small molecules b3412 bioH 347 P 14 0 0 0 0 biotin biosynthesis; reaction prior to pimeloyl CoA Metabolism of small molecules b3973 birA 262 P 16 0 0 0 0 biotin-[acetylCoA carboxylase] holoenzyme synthetase and biotin operon repressor Metabolism of small molecules Cell division (Fts) b0083 ftsL 2390 P 7 0 0 0 0 cell division protein; ingrowth of wall at septum Cell processes b0084 ftsI 1162 P 32 P 1 0 0 P(m) 1 GenProt-PHD septum formation; penicillin-binding protein 3; peptidoglycan synthetase Cell processes b0089 ftsW 1036 P 14 0 0 0 0 MP-GenProt-PHD cell division; membrane protein involved in shape determination Cell processes b0093 ftsQ 3716 P 10 0 0 0 0 GenProt-PHD cell division protein; ingrowth of wall at septum Cell processes b0094 ftsA 4248 P 18 0 0 0 0 GenProt ATP-binding cell division protein, septation process, complexes with FtsZ, associated with junctions of inner and outer membranes Cell processes 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 b0890 ftsK 1717 P 41 0 0 0 0 GenProt-PHD cell division protein Cell processes b2412 zipA 967 P 6 P 1 1 0 P(m) 1 GenProt-PHD cell division protein involved in FtsZ ring Cell processes b2748 ybgQ 2105 P 6 0 0 0 0 orf, hypothetical protein; alternative names - b2748, ftsB Open reading frames b3462 ftsX 391 A 16 P 1 0 0 P(m) 1 MP-GenProt-PHD cell division membrane protein Cell processes b3463 ftsE 1601 P 10 0 0 0 0 MP ATP-binding component of a membrane-associated complex involved in cell division Cell processes b3933 ftsN 1193 P 16 P 1 0 0 P(m) 1 GenProt-PHD essential cell division protein Cell processes F1F0 ATPase 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 b3733 atpG 11853 P 17 P 7 P 6 P 6 P(m) 7 MP-GenProt membrane-bound ATP synthase, F1 sector, gamma-subunit Metabolism of small molecules 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 b3735 atpH 36217 P 7 P 2 1 P 2 P(m) 1 MP-GenProt membrane-bound ATP synthase, F1 sector, delta-subunit Metabolism of small molecules b3736 atpF 28649 P 10 P 3 1 P 1 P(m) 3 MP-GenProt-PHD1h membrane-bound ATP synthase, F0 sector, subunit b Cell processes b3737 atpE 35912 P 1 0 0 0 0 MP-GenProt-PHD membrane-bound ATP synthase, F0 sector, subunit c Cell processes b3738 atpB 17285 P 3 P 1 0 0 P(m) 1 MP-GenProt-PHD membrane-bound ATP synthase, F0 sector, subunit a Cell processes b3739 atpI 4929 P 6 0 0 0 0 MP-GenProt-PHD membrane-bound ATP synthase, dispensable protein, affects expression of atpB Metabolism of small molecules NADH dehydrogenase I b2276 nuoN 3640 P 7 P 1 0 0 P(m) 1 GenProt-PHD NADH dehydrogenase I chain N Metabolism of small molecules b2277 nuoM 2636 P 4 P 1 0 0 P(m) 1 GenProt-PHD NADH dehydrogenase I chain M Metabolism of small molecules b2278 nuoL 5120 P 11 P 2 0 0 P(m) 2 GenProt-PHD NADH dehydrogenase I chain L Metabolism of small molecules b2279 nuoK 5100 P 2 0 0 0 0 GenProt-PHD NADH dehydrogenase I chain K Metabolism of small molecules b2280 nuoJ 4869 P 2 0 0 0 0 GenProt-PHD NADH dehydrogenase I chain J Metabolism of small molecules b2281 nuoI 6191 P 11 P 2 2 P 2 P(m) 1 NADH dehydrogenase I chain I Metabolism of small molecules b2282 nuoH 7672 P 9 0 0 0 0 GenProt-PHD NADH dehydrogenase I chain H Metabolism of small molecules b2283 nuoG 8178 P 40 P 8 P 8 P 8 P(m) 5 NADH dehydrogenase I chain G Metabolism of small molecules b2284 nuoF 8616 P 21 P 5 P 9 P 5 P(m) 3 NADH dehydrogenase I chain F Metabolism of small molecules b2285 nuoE 15463 P 7 P 1 1 P 1 0 NADH dehydrogenase I chain E Metabolism of small molecules b2286 nuoC 11188 P 33 P 10 P 8 P 6 P(m) 10 NADH dehydrogenase I chain C, D Metabolism of small molecules b2287 nuoB 9713 P 10 P 2 2 P 2 P(m) 1 NADH dehydrogenase I chain B Metabolism of small molecules b2288 nuoA 10132 P 4 P 1 1 P 1 P(m) 1 GenProt-PHD NADH dehydrogenase I chain A Metabolism of small molecules An expanded table with all protein/gene examples shown in Table 1 of the paper. For lists of transcriptional regulators and ABC transporters see other tables available at the web site. Annotation information was taken from the E.coli Entry Point database. The annotation in the database is based on Blattner et al (1997). Functional categories are assigned as defined by Riley and Labedan (1996). Protein/gene group assignment was according to Riley and Labedan, with the exception of cofactor biosynthesis genes (biotin according to J. Cronan [personal communication] and others according to Koonin and Galperin [2002]) and Fts proteins (according to D. Weiss, personal communication). Membrane protein assignment (see Corbin et al.): MP - list # 1, GenProt - list #2, PHD - list #3.