Experiment set1IT086 for Escherichia coli BW25113

Compare to:

D-Serine nitrogen source

200 most important genes:

  gene name fitness t score description  
b2476 purC -7.1 -4.9 phosphoribosylaminoimidazole-succinocarboxamidesynthase (NCBI) compare
b0078 ilvH -6.4 -8.8 acetolactate synthase small subunit (NCBI) compare
b1129 phoQ -6.0 -4.2 sensory histidine kinase in two-compoent regulatory system with PhoP (NCBI) compare
b0907 serC -5.9 -8.1 phosphoserine aminotransferase (NCBI) compare
b1693 aroD -5.9 -7.0 3-dehydroquinate dehydratase (NCBI) compare
b1281 pyrF -5.9 -4.1 orotidine 5'-phosphate decarboxylase (NCBI) compare
b1192 ldcA -5.9 -4.1 L,D-carboxypeptidase A (NCBI) compare
b3771 ilvD -5.7 -8.8 dihydroxy-acid dehydratase (NCBI) compare
b2022 hisB -5.7 -6.7 imidazoleglycerolphosphate dehydratase and histidinol-phosphate phosphatase (VIMSS) compare
b2320 pdxB -5.6 -8.6 erythronate-4-phosphate dehydrogenase (NCBI) compare
b0522 purK -5.6 -6.7 phosphoribosylaminoimidazole carboxylase (NCBI) compare
b0052 pdxA -5.5 -7.5 4-hydroxythreonine-4-phosphate dehydrogenase (NCBI) compare
b4388 serB -5.4 -5.3 3-phosphoserine phosphatase (NCBI) compare
b2020 hisD -5.4 -9.6 histidinol dehydrogenase (NCBI) compare
b3281 aroE -5.3 -14.6 dehydroshikimate reductase, NAD(P)-binding (NCBI) compare
b1261 trpB -5.3 -4.1 tryptophan synthase subunit beta (NCBI) compare
b0071 leuD -5.3 -8.0 isopropylmalate isomerase small subunit (NCBI) compare
b3389 aroB -5.3 -11.2 3-dehydroquinate synthase (NCBI) compare
b2025 hisF -5.2 -6.2 imidazole glycerol phosphate synthase subunit HisF (NCBI) compare
b2021 hisC -5.2 -6.1 histidinol-phosphate aminotransferase (NCBI) compare
b0074 leuA -5.2 -9.9 2-isopropylmalate synthase (NCBI) compare
b4006 purH -5.1 -11.0 bifunctionalphosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase (NCBI) compare
b0072 leuC -5.1 -11.9 isopropylmalate isomerase large subunit (NCBI) compare
b0243 proA -5.1 -9.8 gamma-glutamyl phosphate reductase (NCBI) compare
b3774 ilvC -5.1 -14.3 ketol-acid reductoisomerase (NCBI) compare
b2501 ppk -5.1 -9.7 polyphosphate kinase (NCBI) compare
b0004 thrC -5.0 -9.0 threonine synthase (NCBI) compare
b1105 ycfM -5.0 -4.9 predicted outer membrane lipoprotein (NCBI) compare
b0032 carA -5.0 -8.3 carbamoyl-phosphate synthase small subunit (NCBI) compare
b1260 trpA -5.0 -6.4 tryptophan synthase subunit alpha (NCBI) compare
b3770 ilvE -5.0 -11.5 branched-chain amino acid aminotransferase (NCBI) compare
b2913 serA -4.9 -7.5 D-3-phosphoglycerate dehydrogenase (NCBI) compare
b2762 cysH -4.9 -7.5 phosphoadenosine phosphosulfate reductase (NCBI) compare
b2312 purF -4.9 -8.1 amidophosphoribosyltransferase (NCBI) compare
b4245 pyrB -4.9 -13.3 aspartate carbamoyltransferase catalytic subunit (NCBI) compare
b1130 phoP -4.8 -7.4 DNA-binding response regulator in two-component regulatory system with PhoQ (NCBI) compare
b0149 mrcB -4.8 -8.1 penicillin-binding protein 1b (NCBI) compare
b3941 metF -4.8 -11.7 5,10-methylenetetrahydrofolate reductase (NCBI) compare
b2784 relA -4.8 -10.7 (p)ppGpp synthetase I/GTP pyrophosphokinase (NCBI) compare
b2026 hisI -4.8 -9.7 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein (NCBI) compare
b0908 aroA -4.8 -9.7 3-phosphoshikimate 1-carboxyvinyltransferase (NCBI) compare
b1062 pyrC -4.8 -9.7 dihydroorotase (NCBI) compare
b0073 leuB -4.7 -10.6 3-isopropylmalate dehydrogenase (VIMSS) compare
b0077 ilvI -4.7 -11.8 acetolactate synthase III large subunit (NCBI) compare
b2366 dsdA -4.7 -7.1 D-serine dehydratase (NCBI) conserved
b0033 carB -4.7 -15.5 carbamoyl-phosphate synthase large subunit (NCBI) compare
b0242 proB -4.7 -7.8 gamma-glutamyl kinase (NCBI) compare
b3828 metR -4.6 -11.6 DNA-binding transcriptional activator, homocysteine-binding (NCBI) compare
b3172 argG -4.6 -11.6 argininosuccinate synthase (NCBI) compare
b2499 purM -4.6 -5.5 phosphoribosylaminoimidazole synthetase (NCBI) compare
b3960 argH -4.5 -12.4 argininosuccinate lyase (NCBI) compare
b2838 lysA -4.5 -11.2 diaminopimelate decarboxylase, PLP-binding (NCBI) compare
b0889 lrp -4.5 -4.3 DNA-binding transcriptional dual regulator, leucine-binding (NCBI) compare
b1263 trpD -4.5 -4.3 bifunctional indole-3-glycerol-phosphate synthase/anthranilate phosphoribosyltransferase (NCBI) compare
b2329 aroC -4.5 -6.1 chorismate synthase (NCBI) compare
b4005 purD -4.5 -9.9 phosphoribosylamine--glycine ligase (NCBI) compare
b2750 cysC -4.4 -7.9 adenylylsulfate kinase (NCBI) compare
b0945 pyrD -4.4 -13.5 dihydroorotate dehydrogenase (NCBI) compare
b3956 ppc -4.4 -17.6 phosphoenolpyruvate carboxylase (NCBI) compare
b3829 metE -4.3 -16.9 5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase (NCBI) compare
b2023 hisH -4.3 -7.2 imidazole glycerol phosphate synthase subunit HisH (NCBI) compare
b3213 gltD -4.3 -11.9 glutamate synthase, 4Fe-4S protein, small subunit (NCBI) compare
b2019 hisG -4.2 -5.6 ATP phosphoribosyltransferase (NCBI) compare
b4214 cysQ -4.2 -14.0 PAPS (adenosine 3'-phosphate 5'-phosphosulfate) 3'(2'),5'-bisphosphate nucleotidase (NCBI) compare
b0386 proC -4.1 -7.4 pyrroline-5-carboxylate reductase (NCBI) compare
b0142 folK -4.1 -2.3 2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase (NCBI) compare
b1712 ihfA -4.1 -4.8 integration host factor subunit alpha (NCBI) compare
b2557 purL -4.0 -11.8 phosphoribosylformylglycinamidine synthase (NCBI) compare
b0437 clpP -4.0 -10.3 ATP-dependent Clp protease proteolytic subunit (NCBI) compare
b2024 hisA -4.0 -4.7 N-(5'-phospho-L-ribosyl-formimino)-5-amino-1-(5'- phosphoribosyl)-4-imidazolecarboxamide isomerase (VIMSS) compare
b0145 dksA -3.9 -4.6 DNA-binding transcriptional regulator of rRNA transcription, DnaK suppressor protein (NCBI) compare
b3958 argC -3.9 -14.8 N-acetyl-gamma-glutamyl-phosphate reductase (NCBI) compare
b2600 tyrA -3.9 -7.9 fused chorismate mutase T/prephenate dehydrogenase (NCBI) compare
b2564 pdxJ -3.9 -5.3 pyridoxal phosphate biosynthetic protein (NCBI) compare
b0740 tolB -3.9 -5.3 translocation protein TolB precursor (NCBI) compare
b3642 pyrE -3.8 -5.2 orotate phosphoribosyltransferase (NCBI) compare
b2364 dsdC -3.8 -9.8 DNA-binding transcriptional dual regulator (NCBI) conserved
b0523 purE -3.8 -5.2 phosphoribosylaminoimidazole carboxylase catalytic subunit (NCBI) compare
b3957 argE -3.7 -15.4 acetylornithine deacetylase (NCBI) compare
b0741 pal -3.7 -5.0 peptidoglycan-associated outer membrane lipoprotein (NCBI) compare
b2414 cysK -3.7 -12.5 cysteine synthase A, O-acetylserine sulfhydrolase A subunit (NCBI) compare
b3212 gltB -3.7 -19.6 glutamate synthase, large subunit (NCBI) compare
b0049 apaH -3.6 -7.3 diadenosinetetraphosphatase (NCBI) compare
b1262 trpC -3.6 -6.0 N-(5-phosphoribosyl)anthranilate isomerase and indole-3-glycerolphosphate synthetase (VIMSS) compare
b0002 thrA -3.6 -16.3 bifunctional aspartokinase I/homeserine dehydrogenase I (NCBI) compare
b4171 miaA -3.6 -7.3 tRNA delta(2)-isopentenylpyrophosphate transferase (NCBI) compare
b0003 thrB -3.6 -7.5 homoserine kinase (NCBI) compare
b2188 yejM -3.6 -9.8 predicted hydrolase, inner membrane (NCBI) compare
b3962 udhA -3.5 -10.4 putative oxidoreductase (VIMSS) compare
b3741 gidA -3.5 -6.6 glucose-inhibited division protein A (NCBI) compare
b2830 nudH -3.4 -2.3 dinucleoside polyphosphate hydrolase (NCBI) compare
b1865 nudB -3.4 -3.2 dATP pyrophosphohydrolase (NCBI) compare
b3959 argB -3.3 -12.3 acetylglutamate kinase (RefSeq) compare
b0737 tolQ -3.3 -4.4 membrane spanning protein in TolA-TolQ-TolR complex (NCBI) compare
b0739 tolA -3.2 -4.9 cell envelope integrity inner membrane protein TolA (NCBI) compare
b3706 trmE -3.2 -8.9 tRNA modification GTPase (NCBI) compare
b3728 pstS -3.2 -4.9 phosphate transporter subunit (NCBI) compare
b0767 ybhE -3.2 -5.2 6-phosphogluconolactonase (NCBI) compare
b4242 mgtA -3.2 -19.5 magnesium transporter (NCBI) compare
b3916 pfkA -3.1 -3.7 6-phosphofructokinase (NCBI) compare
b3772 ilvA -3.1 -14.4 threonine dehydratase (NCBI) compare
b3390 aroK -3.0 -3.6 shikimate kinase I (NCBI) compare
b0928 aspC -3.0 -8.3 aspartate aminotransferase, PLP-dependent (NCBI) compare
b0720 gltA -3.0 -7.3 citrate synthase (NCBI) compare
b2818 argA -2.9 -7.2 N-acetylglutamate synthase (NCBI) compare
b1863 ruvC -2.9 -5.1 Holliday junction resolvase (NCBI) compare
b2479 gcvR -2.9 -5.8 transcriptional regulation of gcv operon (VIMSS) compare
b0726 sucA -2.9 -3.4 alpha-ketoglutarate decarboxylase (NCBI) compare
b0131 panD -2.9 -5.7 aspartate 1-decarboxylase precursor (NCBI) compare
b0912 ihfB -2.8 -5.6 integration host factor subunit beta (NCBI) compare
b1830 prc -2.8 -8.4 carboxy-terminal protease for penicillin-binding protein 3 (NCBI) compare
b0738 tolR -2.8 -4.2 membrane spanning protein in TolA-TolQ-TolR complex (NCBI) compare
b1702 pps -2.8 -12.5 phosphoenolpyruvate synthase (NCBI) compare
b3650 spoT -2.7 -9.4 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase (NCBI) compare
b0134 panB -2.7 -8.6 3-methyl-2-oxobutanoate hydroxymethyltransferase (NCBI) compare
b4702 mgtL -2.7 -4.4 regulatory leader peptide for mgtA (NCBI) compare
b0118 acnB -2.7 -3.1 aconitate hydratase (NCBI) compare
b3459 yhhK -2.6 -7.6 hypothetical protein (NCBI) compare
b0133 panC -2.6 -9.0 pantoate--beta-alanine ligase (NCBI) compare
b3870 glnA -2.6 -2.5 glutamine synthetase (NCBI) compare
b0200 gmhB -2.6 -2.4 hypothetical protein (NCBI) compare
b3204 ptsN -2.5 -6.3 sugar-specific enzyme IIA component of PTS (NCBI) compare
b3939 metB -2.5 -10.2 cystathionine gamma-synthase (NCBI) compare
b0113 pdhR -2.4 -4.3 transcriptional regulator of pyruvate dehydrogenase complex (NCBI) compare
b1264 trpE -2.4 -5.2 anthranilate synthase component I (NCBI) compare
b3781 trxA -2.3 -4.3 thioredoxin 1 (VIMSS) compare
b1827 kdgR -2.3 -3.3 predicted DNA-binding transcriptional regulator (NCBI) compare
b0630 lipB -2.3 -2.6 protein of lipoate biosynthesis (VIMSS) compare
b2318 truA -2.3 -5.4 tRNA pseudouridine synthase A (NCBI) compare
b0075 leuL -2.2 -5.7 leu operon leader peptide (NCBI) compare
b2935 tktA -2.2 -4.1 transketolase 1, thiamin-binding (NCBI) compare
b2763 cysI -2.2 -7.7 sulfite reductase, beta subunit, NAD(P)-binding, heme-binding (NCBI) compare
b2764 cysJ -2.2 -8.0 sulfite reductase, alpha subunit, flavoprotein (NCBI) compare
b3386 rpe -2.1 -2.0 ribulose-phosphate 3-epimerase (NCBI) compare
b1292 sapC -2.1 -3.7 predicted antimicrobial peptide transporter subunit (NCBI) compare
b3008 metC -2.0 -9.9 cystathionine beta-lyase (NCBI) compare
b3169 nusA -2.0 -2.5 transcription elongation factor NusA (NCBI) compare
b3469 zntA -1.9 -11.6 zinc, cobalt and lead efflux system (NCBI) compare
b0890 ftsK -1.9 -8.0 DNA-binding membrane protein required for chromosome resolution and partitioning (NCBI) compare
b4407 thiS -1.9 -2.5 sulfur carrier protein ThiS (NCBI) compare
b3290 trkA -1.9 -3.4 potassium transporter peripheral membrane component (NCBI) compare
b4013 metA -1.9 -5.8 homoserine O-succinyltransferase (NCBI) compare
b4177 purA -1.9 -3.1 adenylosuccinate synthetase (NCBI) compare
b3994 thiC -1.9 -10.1 thiamine biosynthesis protein ThiC (NCBI) compare
b3993 thiE -1.9 -7.2 thiamine-phosphate pyrophosphorylase (NCBI) compare
b2599 pheA -1.9 -3.4 fused chorismate mutase P/prephenate dehydratase (NCBI) compare
b3991 thiG -1.8 -7.3 thiamin biosynthesis, thiazole moiety (VIMSS) compare
b3868 glnG -1.8 -6.1 fused DNA-binding response regulator in two-component regulatory system with GlnL: response regulator/sigma54 interaction protein (NCBI) compare
b3773 ilvY -1.8 -8.2 DNA-binding transcriptional dual regulator (NCBI) compare
b2055 wcaE -1.8 -2.5 predicted glycosyl transferase (NCBI) compare
b2567 rnc -1.7 -1.9 ribonuclease III (NCBI) compare
b3990 thiH -1.7 -8.5 thiamine biosynthesis protein ThiH (NCBI) compare
b1290 sapF -1.7 -2.5 predicted antimicrobial peptide transporter subunit (NCBI) compare
b0438 clpX -1.7 -7.7 ATP-dependent protease ATP-binding subunit (NCBI) compare
b3726 pstA -1.7 -5.9 phosphate transporter subunit (NCBI) compare
b4480 hdfR -1.6 -5.9 transcriptional regulator HdfR (NCBI) compare
b3725 pstB -1.6 -2.8 phosphate transporter subunit (NCBI) compare
b3368 cysG -1.6 -11.2 fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase (NCBI) compare
b3811 xerC -1.6 -3.1 site-specific tyrosine recombinase XerC (NCBI) compare
b2752 cysD -1.6 -4.9 sulfate adenylyltransferase subunit 2 (NCBI) compare
b2340 sixA -1.6 -3.8 phosphohistidine phosphatase (NCBI) compare
b2103 thiD -1.6 -6.8 phosphomethylpyrimidine kinase (NCBI) compare
b0588 fepC -1.6 -7.1 iron-enterobactin transporter subunit (NCBI) compare
b1861 ruvA -1.6 -3.0 Holliday junction DNA helicase motor protein (NCBI) compare
b1291 sapD -1.6 -2.5 predicted antimicrobial peptide transporter subunit (NCBI) compare
b3613 yibP -1.6 -5.4 putative membrane protein (VIMSS) compare
b1101 ptsG -1.6 -9.5 fused glucose-specific PTS enzymes: IIB component/IIC component (NCBI) compare
b0114 aceE -1.6 -3.2 pyruvate dehydrogenase subunit E1 (NCBI) compare
b3992 thiF -1.5 -8.2 thiamin biosynthesis, thiazole moiety (VIMSS) compare
b0423 thiI -1.5 -6.4 thiamine biosynthesis protein ThiI (NCBI) compare
b0888 trxB -1.5 -3.8 thioredoxin reductase, FAD/NAD(P)-binding (NCBI) compare
b2699 recA -1.5 -2.4 recombinase A (NCBI) compare
b2839 lysR -1.5 -4.6 DNA-binding transcriptional dual regulator (NCBI) compare
b1602 pntB -1.5 -6.0 pyridine nucleotide transhydrogenase (NCBI) compare
b4414 tff -1.5 -2.2 unknown RNA (NCBI) compare
b3237 argR -1.5 -4.1 arginine repressor (NCBI) compare
b0589 fepG -1.4 -7.0 iron-enterobactin transporter subunit (NCBI) compare
b2518 ndk -1.4 -2.8 nucleoside diphosphate kinase (NCBI) compare
b2820 recB -1.4 -2.6 exonuclease V (RecBCD complex), beta subunit (NCBI) compare
b3764 yifE -1.4 -4.5 hypothetical protein (NCBI) compare
b4451 ryhB -1.4 -1.9 Regulatory sRNA mediating positive Fur regulon response; requires Hfq for function; global iron regulator; degraded by RNase E when bound to target (RefSeq) compare
b1860 ruvB -1.4 -1.8 Holliday junction DNA helicase B (NCBI) compare
b3483 yhhH -1.4 -2.2 orf, hypothetical protein (VIMSS) compare
b0189 yaeO -1.4 -4.4 orf, hypothetical protein (VIMSS) compare
b1576 ydfD -1.4 -2.1 Qin prophage; predicted protein (NCBI) compare
b1293 sapB -1.3 -2.1 predicted antimicrobial peptide transporter subunit (NCBI) compare
b1603 pntA -1.3 -3.5 NAD(P) transhydrogenase subunit alpha (NCBI) compare
b1323 tyrR -1.3 -5.6 DNA-binding transcriptional dual regulator, tyrosine-binding (NCBI) compare
b3671 ilvB -1.3 -9.1 acetolactate synthase large subunit (NCBI) compare
b0750 nadA -1.3 -4.7 quinolinate synthetase (NCBI) compare
b0585 fes -1.3 -5.4 enterobactin/ferric enterobactin esterase (NCBI) compare
b2500 purN -1.3 -4.8 phosphoribosylglycinamide formyltransferase (NCBI) compare
b2894 xerD -1.3 -1.6 site-specific tyrosine recombinase XerD (NCBI) compare
b2822 recC -1.2 -4.4 exonuclease V (RecBCD complex), gamma chain (NCBI) compare
b1684 sufA -1.2 -2.8 iron-sulfur cluster assembly scaffold protein (NCBI) compare
b3247 cafA -1.2 -7.0 bundles of cytoplasmic filaments (VIMSS) compare
b3463 ftsE -1.2 -4.2 predicted transporter subunit: ATP-binding component of ABC superfamily (NCBI) compare
b3761 trpT -1.2 -1.8 tRNA-Trp (NCBI) compare
b2751 cysN -1.2 -5.8 sulfate adenylyltransferase subunit 1 (NCBI) compare
b3849 trkH -1.2 -7.8 potassium transporter (NCBI) compare


Specific Phenotypes

For 15 genes in this experiment

For nitrogen source D-Serine in Escherichia coli BW25113

For nitrogen source D-Serine across organisms