Experiment set2IT076 for Pseudomonas fluorescens GW456-L13

Compare to:

D-Alanine carbon source

200 most important genes:

  gene name fitness t score description  
PfGW456L13_358 -6.6 -4.1 Imidazole glycerol phosphate synthase cyclase subunit (EC 4.1.3.-) compare
PfGW456L13_1368 -6.0 -4.2 Muramoyltetrapeptide carboxypeptidase (EC 3.4.17.13) compare
PfGW456L13_3940 -5.6 -10.7 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
PfGW456L13_149 -5.6 -8.5 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
PfGW456L13_2046 -5.2 -7.2 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
PfGW456L13_3948 -5.1 -7.8 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
PfGW456L13_4026 -5.0 -3.4 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
PfGW456L13_1540 -5.0 -13.7 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
PfGW456L13_845 -4.9 -8.8 Diaminopimelate decarboxylase (EC 4.1.1.20) compare
PfGW456L13_362 -4.9 -9.6 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
PfGW456L13_1749 -4.9 -3.3 Argininosuccinate synthase (EC 6.3.4.5) compare
PfGW456L13_1010 -4.8 -9.8 Pyrroline-5-carboxylate reductase (EC 1.5.1.2) compare
PfGW456L13_1524 -4.8 -6.6 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
PfGW456L13_3945 -4.8 -14.1 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
PfGW456L13_1233 -4.8 -3.3 N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38) compare
PfGW456L13_3934 -4.7 -14.6 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) / O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) compare
PfGW456L13_1221 -4.6 -15.5 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
PfGW456L13_565 -4.6 -5.4 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
PfGW456L13_1222 -4.5 -7.5 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
PfGW456L13_1972 -4.5 -3.1 Arginine N-succinyltransferase, alpha subunit (EC 2.3.1.109) compare
PfGW456L13_359 -4.5 -12.3 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PfGW456L13_854 -4.5 -3.1 Argininosuccinate lyase (EC 4.3.2.1) compare
PfGW456L13_5000 -4.4 -16.3 Histidinol dehydrogenase (EC 1.1.1.23) compare
PfGW456L13_1739 -4.4 -14.3 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
PfGW456L13_1050 -4.3 -11.5 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
PfGW456L13_2842 -4.3 -6.6 required for sulfate utilization, putative electron transport protein for sulfite reductase (from data) compare
PfGW456L13_1007 -4.3 -12.8 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
PfGW456L13_2551 -4.3 -5.1 Cell division trigger factor (EC 5.2.1.8) compare
PfGW456L13_1538 -4.2 -14.5 Acetolactate synthase large subunit (EC 2.2.1.6) compare
PfGW456L13_361 -4.2 -12.5 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
PfGW456L13_953 -4.2 -15.9 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
PfGW456L13_2034 -4.2 -4.0 hypothetical protein compare
PfGW456L13_172 -4.1 -11.8 Phosphoserine phosphatase (EC 3.1.3.3) compare
PfGW456L13_1217 -4.1 -19.7 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
PfGW456L13_303 -4.1 -4.8 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PfGW456L13_1472 -4.1 -7.7 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
PfGW456L13_812 -4.1 -3.9 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
PfGW456L13_5001 -4.0 -12.2 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PfGW456L13_2237 -4.0 -3.8 Organic hydroperoxide resistance transcriptional regulator compare
PfGW456L13_275 -4.0 -2.7 3-dehydroquinate synthase (EC 4.2.3.4) compare
PfGW456L13_2552 -4.0 -9.1 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
PfGW456L13_644 -3.9 -8.2 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
PfGW456L13_1539 -3.9 -12.2 Acetolactate synthase small subunit (EC 2.2.1.6) compare
PfGW456L13_1205 -3.8 -9.9 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
PfGW456L13_3947 -3.8 -6.5 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
PfGW456L13_4859 -3.7 -5.0 Outer membrane protein YfgL, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and NlpB) compare
PfGW456L13_1860 -3.7 -8.7 TPR repeat containing exported protein; Putative periplasmic protein contains a protein prenylyltransferase domain compare
PfGW456L13_973 -3.6 -15.1 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
PfGW456L13_4513 -3.6 -4.5 HtrA protease/chaperone protein compare
PfGW456L13_913 -3.6 -9.9 N-acetylglutamate synthase (EC 2.3.1.1) compare
PfGW456L13_951 -3.5 -11.2 Phosphoserine phosphatase (EC 3.1.3.3) compare
PfGW456L13_728 -3.5 -13.6 Pyruvate carboxyl transferase subunit A (EC 6.4.1.1) compare
PfGW456L13_2032 -3.5 -7.9 Cysteine synthase B (EC 2.5.1.47) compare
PfGW456L13_1006 -3.4 -5.8 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
PfGW456L13_2843 -3.4 -9.5 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
PfGW456L13_276 -3.4 -1.8 Shikimate kinase I (EC 2.7.1.71) compare
PfGW456L13_2176 -3.4 -7.0 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
PfGW456L13_1845 -3.3 -5.5 Cold shock protein CspC compare
PfGW456L13_656 -3.3 -5.0 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.-) compare
PfGW456L13_727 -3.3 -8.9 LysR family transcriptional regulator PA5437 compare
PfGW456L13_729 -3.2 -10.9 Pyruvate carboxyl transferase subunit B (EC 6.4.1.1) compare
PfGW456L13_4207 -3.2 -9.8 Periplasmic protease compare
PfGW456L13_566 -3.1 -9.3 Tryptophan synthase beta chain (EC 4.2.1.20) compare
PfGW456L13_4088 -3.1 -4.6 Transcriptional regulator, GntR family compare
PfGW456L13_2597 -3.1 -8.4 Isovaleryl-CoA dehydrogenase (EC 1.3.8.4) compare
PfGW456L13_793 -3.1 -3.3 Acetylglutamate kinase (EC 2.7.2.8) compare
PfGW456L13_2553 -3.1 -10.4 ATP-dependent Clp protease ATP-binding subunit ClpX compare
PfGW456L13_2656 -3.1 -9.4 Siroheme synthase / Precorrin-2 oxidase (EC 1.3.1.76) / Sirohydrochlorin ferrochelatase (EC 4.99.1.4) / Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
PfGW456L13_302 -3.1 -6.1 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
PfGW456L13_943 -3.0 -7.1 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
PfGW456L13_5150 -3.0 -4.5 Exodeoxyribonuclease V alpha chain (EC 3.1.11.5) compare
PfGW456L13_874 -3.0 -18.6 Polyphosphate kinase (EC 2.7.4.1) compare
PfGW456L13_4253 -3.0 -6.2 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
PfGW456L13_50 -3.0 -9.4 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
PfGW456L13_4165 -3.0 -4.9 Chorismate synthase (EC 4.2.3.5) compare
PfGW456L13_1735 -2.8 -4.9 Glycerol uptake facilitator protein compare
PfGW456L13_5018 -2.8 -7.1 Phosphocarrier protein, nitrogen regulation associated compare
PfGW456L13_2230 -2.8 -8.6 Cys regulon transcriptional activator CysB compare
PfGW456L13_4854 -2.8 -7.5 2-isopropylmalate synthase (EC 2.3.3.13) compare
PfGW456L13_151 -2.8 -5.2 HflC protein compare
PfGW456L13_811 -2.7 -4.2 Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system compare
PfGW456L13_4607 -2.7 -3.0 hypothetical protein compare
PfGW456L13_3960 -2.7 -7.9 Biosynthetic Aromatic amino acid aminotransferase alpha (EC 2.6.1.57) @ Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
PfGW456L13_329 -2.7 -5.1 Histidine utilization repressor compare
PfGW456L13_1363 -2.6 -5.0 Rare lipoprotein A precursor compare
PfGW456L13_4125 -2.6 -4.1 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) / Adenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.10) compare
PfGW456L13_2556 -2.6 -4.5 Peptidyl-prolyl cis-trans isomerase PpiD (EC 5.2.1.8) compare
PfGW456L13_4671 -2.6 -10.8 Transcriptional regulator, Cro/CI family compare
PfGW456L13_1997 -2.6 -7.0 Negative regulator of flagellin synthesis FlgM compare
PfGW456L13_2632 -2.5 -5.1 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
PfGW456L13_4842 -2.5 -3.3 Translation elongation factor LepA compare
PfGW456L13_5089 -2.4 -2.0 Transcription termination protein NusA compare
PfGW456L13_1220 -2.3 -7.0 Anthranilate synthase, amidotransferase component (EC 4.1.3.27) @ Para-aminobenzoate synthase, amidotransferase component (EC 2.6.1.85) compare
PfGW456L13_282 -2.3 -13.5 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
PfGW456L13_779 -2.2 -9.1 Bona fide RidA/YjgF/TdcF/RutC subgroup compare
PfGW456L13_757 -2.2 -2.1 Phosphate transport system regulatory protein PhoU compare
PfGW456L13_1574 -2.2 -4.9 GTP-binding and nucleic acid-binding protein YchF compare
PfGW456L13_3704 -2.2 -5.2 Transcriptional regulator RpiR in protein degradation cluster compare
PfGW456L13_1580 -2.2 -9.5 FIG140336: TPR domain protein compare
PfGW456L13_1838 -2.2 -6.5 Sensory box histidine kinase compare
PfGW456L13_4254 -2.1 -7.9 FIG00955360: hypothetical protein compare
PfGW456L13_3531 -2.1 -13.3 Sensory box histidine kinase/response regulator compare
PfGW456L13_591 -2.1 -3.7 Cytochrome c4 compare
PfGW456L13_152 -2.0 -6.4 HflK protein compare
PfGW456L13_1635 -2.0 -11.2 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
PfGW456L13_2651 -2.0 -6.0 Cell division protein FtsK compare
PfGW456L13_59 -2.0 -6.5 Sensor histidine kinase/response regulator compare
PfGW456L13_2035 -2.0 -8.0 GTP pyrophosphokinase (EC 2.7.6.5), (p)ppGpp synthetase I / Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (EC 3.1.7.2) compare
PfGW456L13_3532 -2.0 -9.7 FIG00955631: hypothetical protein compare
PfGW456L13_1636 -2.0 -8.7 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
PfGW456L13_1634 -2.0 -5.1 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
PfGW456L13_3427 -2.0 -4.2 Enoyl-CoA hydratase (EC 4.2.1.17) compare
PfGW456L13_2250 -2.0 -9.3 Probable protease htpX homolog (EC 3.4.24.-) compare
PfGW456L13_3517 -2.0 -7.6 Aldehyde dehydrogenase (EC 1.2.1.3) compare
PfGW456L13_5046 -2.0 -6.8 Predicted D-glucarate or D-galactorate regulator, GntR family compare
PfGW456L13_1842 -1.9 -9.9 Outer membrane porin, OprD family compare
PfGW456L13_990 -1.9 -3.4 Ribosomal RNA small subunit methyltransferase D (EC 2.1.1.-) compare
PfGW456L13_5067 -1.9 -9.8 Ornithine decarboxylase (EC 4.1.1.17) / Arginine decarboxylase (EC 4.1.1.19) compare
PfGW456L13_1020 -1.9 -6.7 Ferric siderophore transport system, periplasmic binding protein TonB compare
PfGW456L13_1525 -1.9 -9.0 Two-component sensor CbrA: intrcellular carbon:nitrogen balance compare
PfGW456L13_5006 -1.9 -2.7 Uncharacterized ABC transporter, periplasmic component YrbD compare
PfGW456L13_1615 -1.9 -2.4 Probable transmembrane protein compare
PfGW456L13_3179 -1.9 -4.5 Organic hydroperoxide resistance transcriptional regulator compare
PfGW456L13_4258 -1.9 -8.6 Chaperone protein HtpG compare
PfGW456L13_4064 -1.9 -3.3 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) compare
PfGW456L13_3808 -1.9 -3.2 Predicted transcriptional regulator of NADH dehydrogenase, Rrf2 family compare
PfGW456L13_5086 -1.8 -4.6 tRNA pseudouridine synthase B (EC 4.2.1.70) compare
PfGW456L13_355 -1.8 -4.7 Carboxyl-terminal protease (EC 3.4.21.102) compare
PfGW456L13_4346 -1.8 -4.8 Hpt domain protein compare
PfGW456L13_4611 -1.8 -5.6 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) conserved
PfGW456L13_756 -1.8 -5.7 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) compare
PfGW456L13_5005 -1.8 -4.9 Uncharacterized ABC transporter, auxiliary component YrbC compare
PfGW456L13_150 -1.7 -1.3 hypothetical protein compare
PfGW456L13_2483 -1.7 -9.0 Permease of the drug/metabolite transporter (DMT) superfamily compare
PfGW456L13_2984 -1.7 -5.0 Enoyl-CoA hydratase [valine degradation] (EC 4.2.1.17) compare
PfGW456L13_1853 -1.7 -3.1 Holliday junction DNA helicase RuvB compare
PfGW456L13_4608 -1.7 -7.9 High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1) conserved
PfGW456L13_3138 -1.7 -2.8 phosphoesterase, putative compare
PfGW456L13_2190 -1.7 -5.3 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) compare
PfGW456L13_3577 -1.7 -2.4 hypothetical protein compare
PfGW456L13_1606 -1.7 -8.6 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
PfGW456L13_4701 -1.7 -8.2 Membrane-associated zinc metalloprotease compare
PfGW456L13_4836 -1.7 -8.8 Transglycosylase, Slt family compare
PfGW456L13_1655 -1.6 -2.0 D-alanine--D-alanine ligase (EC 6.3.2.4) compare
PfGW456L13_4062 -1.6 -8.4 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) compare
PfGW456L13_2084 -1.6 -1.9 MotA/TolQ/ExbB proton channel family protein compare
PfGW456L13_1936 -1.6 -2.8 RNA polymerase sigma-70 factor, ECF subfamily compare
PfGW456L13_4609 -1.6 -9.6 Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1) conserved
PfGW456L13_4068 -1.6 -8.5 Type cbb3 cytochrome oxidase biogenesis protein CcoS, involved in heme b insertion compare
PfGW456L13_949 -1.6 -7.9 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
PfGW456L13_1147 -1.6 -9.1 Biotin synthase (EC 2.8.1.6) compare
PfGW456L13_4677 -1.6 -10.5 Protein-L-isoaspartate O-methyltransferase (EC 2.1.1.77) compare
PfGW456L13_1784 -1.6 -2.4 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
PfGW456L13_1526 -1.5 -4.7 FIG00954153: hypothetical protein compare
PfGW456L13_4067 -1.5 -7.5 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
PfGW456L13_4069 -1.5 -5.5 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
PfGW456L13_4038 -1.5 -2.2 DNA topoisomerase I (EC 5.99.1.2) compare
PfGW456L13_1644 -1.5 -3.6 Cell division protein MraZ compare
PfGW456L13_360 -1.5 -1.7 FIG00956267: hypothetical protein compare
PfGW456L13_5060 -1.5 -5.0 Peptide chain release factor 3 compare
PfGW456L13_4012 -1.4 -2.2 VacJ-like lipoprotein precursor compare
PfGW456L13_1169 -1.4 -8.3 Coenzyme PQQ synthesis protein F compare
PfGW456L13_4112 -1.4 -9.4 Phosphoenolpyruvate synthase (EC 2.7.9.2) compare
PfGW456L13_2484 -1.4 -5.7 Transcriptional regulators, LysR family compare
PfGW456L13_2623 -1.4 -1.6 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
PfGW456L13_4606 -1.4 -8.0 High-affinity leucine-specific transport system, periplasmic binding protein LivK (TC 3.A.1.4.1) compare
PfGW456L13_4061 -1.4 -11.2 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) compare
PfGW456L13_4999 -1.4 -7.0 Histidinol-phosphate aminotransferase (EC 2.6.1.9) compare
PfGW456L13_120 -1.4 -5.3 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) conserved
PfGW456L13_2170 -1.4 -3.1 Similar to phosphoglycolate phosphatase, clustered with ubiquinone biosynthesis SAM-dependent O-methyltransferase compare
PfGW456L13_2763 -1.3 -3.5 putative tellurium resistance protein compare
PfGW456L13_75 -1.3 -2.9 Putative multicopper oxidases compare
PfGW456L13_1642 -1.3 -4.7 LppC putative lipoprotein compare
PfGW456L13_1212 -1.3 -10.2 Spermidine Putrescine ABC transporter permease component PotB (TC 3.A.1.11.1) compare
PfGW456L13_121 -1.3 -5.6 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) conserved
PfGW456L13_1612 -1.3 -4.0 FIG00956396: hypothetical protein compare
PfGW456L13_5008 -1.3 -1.8 Uncharacterized ABC transporter, ATP-binding protein YrbF compare
PfGW456L13_1382 -1.3 -4.9 FOG: TPR repeat, SEL1 subfamily compare
PfGW456L13_1344 -1.3 -3.2 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase (EC 6.3.2.-) compare
PfGW456L13_1044 -1.3 -7.4 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) compare
PfGW456L13_751 -1.3 -2.8 cytosolic long-chain acyl-CoA thioester hydrolase family protein compare
PfGW456L13_621 -1.3 -2.8 hypothetical protein compare
PfGW456L13_843 -1.3 -2.2 Protein of unknown function DUF484 compare
PfGW456L13_1204 -1.3 -7.2 COG3178: Predicted phosphotransferase related to Ser/Thr protein kinases compare
PfGW456L13_3300 -1.3 -7.9 MoxR-like ATPase in aerotolerance operon compare
PfGW456L13_1181 -1.3 -2.4 hypothetical protein compare
PfGW456L13_1763 -1.2 -4.0 FxsA protein compare
PfGW456L13_4042 -1.2 -2.2 FIG00953628: hypothetical protein compare
PfGW456L13_3302 -1.2 -1.7 FIG00954674: hypothetical protein compare
PfGW456L13_3398 -1.2 -3.0 Transcriptional regulator, TetR family compare
PfGW456L13_350 -1.2 -4.0 Protein export cytoplasm chaperone protein (SecB, maintains protein to be exported in unfolded state) compare
PfGW456L13_1148 -1.2 -8.3 8-amino-7-oxononanoate synthase (EC 2.3.1.47) compare
PfGW456L13_2941 -1.2 -1.9 Glycerate kinase (EC 2.7.1.31) compare
PfGW456L13_2221 -1.2 -6.8 ErfK/YbiS/YcfS/YnhG family protein compare
PfGW456L13_4882 -1.2 -3.1 tRNA-guanine transglycosylase (EC 2.4.2.29) compare
PfGW456L13_4641 -1.2 -1.3 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) compare
PfGW456L13_5017 -1.2 -3.7 Hypothetical ATP-binding protein UPF0042, contains P-loop compare
PfGW456L13_1625 -1.2 -2.7 FIG00958649: hypothetical protein compare
PfGW456L13_1553 -1.2 -5.7 Carbonic anhydrase (EC 4.2.1.1) compare
PfGW456L13_2620 -1.2 -1.7 Glutamine amidotransferase class-I (EC 6.3.5.2) compare


Specific Phenotypes

For 9 genes in this experiment

For carbon source D-Alanine in Pseudomonas fluorescens GW456-L13

For carbon source D-Alanine across organisms