Experiment set10IT011 for Pseudomonas fluorescens FW300-N1B4

Compare to:

Nitrate reduction, replicate C

200 most important genes:

  gene name fitness t score description  
Pf1N1B4_6 -4.5 -4.3 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf1N1B4_952 -4.3 -3.0 Cell division protein MraZ compare
Pf1N1B4_5729 -4.3 -7.7 Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) compare
Pf1N1B4_5745 -4.2 -3.9 FIG139928: Putative protease compare
Pf1N1B4_1837 -4.1 -2.8 Osmotically inducible protein C compare
Pf1N1B4_4835 -3.8 -2.3 Carbon starvation protein A compare
Pf1N1B4_2547 -3.8 -2.6 Anthranilate synthase, amidotransferase component (EC 4.1.3.27) @ Para-aminobenzoate synthase, amidotransferase component (EC 2.6.1.85) compare
Pf1N1B4_1408 -3.7 -4.4 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf1N1B4_237 -3.7 -3.6 Molybdopterin-guanine dinucleotide biosynthesis protein MobA compare
Pf1N1B4_5665 -3.6 -4.3 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf1N1B4_1113 -3.5 -4.1 Predicted D-glucarate or D-galactorate regulator, GntR family compare
Pf1N1B4_2272 -3.4 -3.3 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf1N1B4_5763 -3.2 -4.1 Nitric oxide reductase activation protein NorQ compare
Pf1N1B4_5736 -3.2 -4.9 Nitrate/nitrite transporter compare
Pf1N1B4_3976 -3.2 -8.6 Transmembrane regulator protein PrtR compare
Pf1N1B4_1534 -3.2 -16.0 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf1N1B4_3091 -3.1 -5.3 Membrane-associated zinc metalloprotease compare
Pf1N1B4_2880 -3.1 -9.8 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf1N1B4_2545 -3.1 -12.7 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
Pf1N1B4_4678 -3.1 -5.4 1,4-alpha-glucan (glycogen) branching enzyme, GH-13-type (EC 2.4.1.18) compare
Pf1N1B4_875 -3.0 -2.9 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf1N1B4_1590 -2.9 -7.3 Histidine utilization repressor compare
Pf1N1B4_2807 -2.9 -2.0 FKBP-type peptidyl-prolyl cis-trans isomerase SlpA (EC 5.2.1.8) compare
Pf1N1B4_348 -2.9 -4.3 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) / 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
Pf1N1B4_742 -2.8 -7.7 Argininosuccinate synthase (EC 6.3.4.5) compare
Pf1N1B4_15 -2.8 -4.7 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf1N1B4_1533 -2.8 -8.6 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf1N1B4_3468 -2.8 -2.6 Negative regulator of flagellin synthesis FlgM compare
Pf1N1B4_847 -2.8 -9.1 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf1N1B4_1831 -2.8 -9.1 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf1N1B4_2112 -2.8 -13.1 Bona fide RidA/YjgF/TdcF/RutC subgroup compare
Pf1N1B4_2280 -2.7 -8.8 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
Pf1N1B4_4476 -2.7 -4.5 Branched-chain amino acid aminotransferase (EC 2.6.1.42) compare
Pf1N1B4_1434 -2.7 -7.0 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_5666 -2.7 -3.7 Oxidoreductase probably involved in sulfite reduction compare
Pf1N1B4_2651 -2.7 -3.7 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) / GTP cyclohydrolase II (EC 3.5.4.25) compare
Pf1N1B4_2874 -2.7 -2.5 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_5746 -2.7 -4.7 FIG139552: Putative protease compare
Pf1N1B4_1153 -2.6 -3.7 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
Pf1N1B4_5735 -2.6 -7.9 Respiratory nitrate reductase alpha chain (EC 1.7.99.4) compare
Pf1N1B4_3868 -2.6 -5.5 Coproporphyrinogen III oxidase, oxygen-independent (EC 1.3.99.22) compare
Pf1N1B4_257 -2.6 -6.8 sensor histidine kinase/response regulator compare
Pf1N1B4_2549 -2.6 -8.1 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf1N1B4_2303 -2.5 -10.3 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf1N1B4_3917 -2.5 -4.4 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
Pf1N1B4_3328 -2.5 -1.7 Rhodanese-like domain protein compare
Pf1N1B4_3697 -2.5 -9.1 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
Pf1N1B4_5029 -2.5 -3.0 Molybdenum ABC transporter, periplasmic molybdenum-binding protein ModA (TC 3.A.1.8.1) compare
Pf1N1B4_1626 -2.4 -6.2 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf1N1B4_1263 -2.4 -2.8 Cu(I)-responsive transcriptional regulator compare
Pf1N1B4_2176 -2.4 -2.7 Frataxin homolog CyaY, facilitates iron supply for heme A synthesis or Fe-S cluster assembly compare
Pf1N1B4_3849 -2.3 -3.8 Transcriptional regulator, GntR family compare
Pf1N1B4_977 -2.3 -4.1 Molybdenum cofactor biosynthesis protein MoaC compare
Pf1N1B4_2337 -2.3 -5.1 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_12 -2.3 -6.2 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf1N1B4_2075 -2.3 -3.4 ABC-type antimicrobial peptide transport system, permease component compare
Pf1N1B4_3843 -2.3 -4.3 Ribosome modulation factor compare
Pf1N1B4_5740 -2.3 -4.3 Nitrate/nitrite sensor protein (EC 2.7.3.-) compare
Pf1N1B4_1830 -2.3 -5.6 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf1N1B4_1617 -2.2 -6.8 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) compare
Pf1N1B4_2773 -2.2 -4.8 COG0523: Putative GTPases (G3E family) compare
Pf1N1B4_2338 -2.2 -6.5 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_3281 -2.1 -3.8 AidA compare
Pf1N1B4_3869 -2.1 -10.6 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
Pf1N1B4_2706 -2.1 -2.8 FIG00954871: hypothetical protein compare
Pf1N1B4_2548 -2.1 -5.4 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf1N1B4_1315 -2.1 -6.4 IMP cyclohydrolase (EC 3.5.4.10) / Phosphoribosylaminoimidazolecarboxamide formyltransferase (EC 2.1.2.3) compare
Pf1N1B4_5758 -2.1 -5.1 Nitric oxide reductase activation protein NorD conserved
Pf1N1B4_5031 -2.1 -2.7 Molybdenum transport ATP-binding protein ModC (TC 3.A.1.8.1) compare
Pf1N1B4_3826 -2.0 -8.4 Phosphoenolpyruvate synthase (EC 2.7.9.2) compare
Pf1N1B4_1624 -2.0 -7.4 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf1N1B4_350 -2.0 -6.8 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
Pf1N1B4_1105 -2.0 -3.0 4-carboxymuconolactone decarboxylase (EC 4.1.1.44) compare
Pf1N1B4_2536 -2.0 -7.9 Probable two-component sensor, near polyamine transporter compare
Pf1N1B4_4299 -2.0 -3.5 sensor histidine kinase compare
Pf1N1B4_4055 -2.0 -7.3 ATP-dependent Clp protease ATP-binding subunit ClpA compare
Pf1N1B4_2282 -2.0 -7.4 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_284 -2.0 -9.9 Universal stress protein family compare
Pf1N1B4_3872 -2.0 -7.9 Putative analog of CcoH, COG3198 compare
Pf1N1B4_345 -2.0 -2.3 Integration host factor beta subunit compare
Pf1N1B4_2936 -2.0 -10.5 Putative sulfate permease conserved
Pf1N1B4_3445 -2.0 -4.1 Succinylarginine dihydrolase (EC 3.5.3.23) compare
Pf1N1B4_5734 -2.0 -4.9 Respiratory nitrate reductase beta chain (EC 1.7.99.4) compare
Pf1N1B4_626 -1.9 -6.8 Quinolinate synthetase (EC 2.5.1.72) compare
Pf1N1B4_2939 -1.9 -3.4 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf1N1B4_3871 -1.9 -11.1 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf1N1B4_3547 -1.9 -2.9 DNA-binding response regulator compare
Pf1N1B4_1067 -1.9 -3.2 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf1N1B4_1683 -1.9 -2.5 Alpha-ketoglutarate-dependent taurine dioxygenase (EC 1.14.11.17) compare
Pf1N1B4_3775 -1.9 -2.1 FIG00956876: hypothetical protein compare
Pf1N1B4_1419 -1.8 -4.5 putative membrane protein compare
Pf1N1B4_1307 -1.8 -1.7 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
Pf1N1B4_1627 -1.8 -4.0 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf1N1B4_197 -1.8 -2.0 FIG139991: Putative thiamine pyrophosphate-requiring enzyme compare
Pf1N1B4_106 -1.8 -3.5 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_5294 -1.8 -2.2 hypothetical protein compare
Pf1N1B4_4833 -1.8 -3.3 DNA-binding response regulator, LuxR family compare
Pf1N1B4_1528 -1.7 -3.0 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_1845 -1.7 -3.2 FIG00954395: hypothetical protein compare
Pf1N1B4_2048 -1.7 -2.3 hypothetical protein compare
Pf1N1B4_2857 -1.7 -3.5 Poly(A) polymerase (EC 2.7.7.19) compare
Pf1N1B4_960 -1.7 -7.2 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
Pf1N1B4_3713 -1.7 -1.9 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC 2.4.2.21) compare
Pf1N1B4_2872 -1.7 -8.4 FIG00955330: hypothetical protein compare
Pf1N1B4_962 -1.7 -8.0 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
Pf1N1B4_5187 -1.7 -1.2 5S RNA compare
Pf1N1B4_5136 -1.7 -6.2 Carboxynorspermidine dehydrogenase compare
Pf1N1B4_1565 -1.7 -1.6 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf1N1B4_1081 -1.6 -4.3 Ribosome hibernation protein YhbH compare
Pf1N1B4_5769 -1.6 -2.8 Heme d1 biosynthesis protein NirL compare
Pf1N1B4_1554 -1.6 -5.1 predicted FeS cluster maintenance protein (from data) compare
Pf1N1B4_4053 -1.6 -2.3 Cold shock protein CspD compare
Pf1N1B4_2748 -1.6 -7.0 Transcriptional regulator, TetR family compare
Pf1N1B4_961 -1.6 -10.7 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
Pf1N1B4_3812 -1.6 -3.9 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) / Adenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.10) compare
Pf1N1B4_3820 -1.6 -6.0 2-methylcitrate synthase (EC 2.3.3.5) compare
Pf1N1B4_1294 -1.6 -1.7 VgrG protein compare
Pf1N1B4_5242 -1.5 -1.3 hypothetical protein compare
Pf1N1B4_419 -1.5 -2.0 Transcriptional regulator, TetR family compare
Pf1N1B4_1691 -1.5 -1.8 hypothetical protein compare
Pf1N1B4_1781 -1.5 -2.2 hypothetical protein compare
Pf1N1B4_4654 -1.5 -6.0 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) compare
Pf1N1B4_5738 -1.5 -4.0 Nitrate/nitrite transporter compare
Pf1N1B4_2771 -1.5 -5.5 Carbon starvation protein A compare
Pf1N1B4_1725 -1.5 -8.3 Sulfate transport system permease protein CysW compare
Pf1N1B4_4065 -1.5 -5.3 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
Pf1N1B4_5751 -1.5 -4.0 Functional role page for Anaerobic nitric oxide reductase transcription regulator NorR compare
Pf1N1B4_1236 -1.4 -4.7 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
Pf1N1B4_1052 -1.4 -2.2 FKBP-type peptidyl-prolyl cis-trans isomerase SlyD (EC 5.2.1.8) compare
Pf1N1B4_5425 -1.4 -2.2 DNA-binding protein HU-beta compare
Pf1N1B4_3305 -1.4 -2.7 Urea carboxylase-related ABC transporter, permease protein compare
Pf1N1B4_1458 -1.4 -4.5 Probable transcription regulator Mig-14 compare
Pf1N1B4_22 -1.4 -3.5 Transcriptional regulator, TetR family compare
Pf1N1B4_558 -1.4 -6.7 Gluconate utilization system Gnt-I transcriptional repressor compare
Pf1N1B4_5659 -1.4 -5.2 NfuA Fe-S protein maturation compare
Pf1N1B4_2477 -1.4 -2.8 response regulator compare
Pf1N1B4_3831 -1.4 -3.9 CmpX compare
Pf1N1B4_1958 -1.4 -1.9 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_3506 -1.4 -4.9 Cysteine synthase B (EC 2.5.1.47) compare
Pf1N1B4_4834 -1.3 -1.9 Sensor histidine kinase compare
Pf1N1B4_4103 -1.3 -1.6 Flagellar synthesis regulator FleN compare
Pf1N1B4_4612 -1.3 -2.0 FIG00954117: hypothetical protein compare
Pf1N1B4_5756 -1.3 -2.3 Nitric oxide -responding transcriptional regulator Dnr (Crp/Fnr family) compare
Pf1N1B4_1411 -1.3 -2.9 GTP-binding protein HflX compare
Pf1N1B4_4736 -1.3 -2.7 Fap amyloid fibril minor component compare
Pf1N1B4_2612 -1.3 -2.5 Putative transport protein compare
Pf1N1B4_2225 -1.3 -7.5 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) compare
Pf1N1B4_5799 -1.3 -2.4 Benzoate 1,2-dioxygenase beta subunit (EC 1.14.12.10) compare
Pf1N1B4_4052 -1.3 -6.7 Isocitrate dehydrogenase [NADP] (EC 1.1.1.42) compare
Pf1N1B4_5772 -1.3 -3.4 Heme d1 biosynthesis protein NirJ compare
Pf1N1B4_2879 -1.3 -2.5 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf1N1B4_1328 -1.3 -1.7 Cobalt-precorrin-8x methylmutase (EC 5.4.1.2) compare
Pf1N1B4_5030 -1.3 -3.6 Molybdenum transport system permease protein ModB (TC 3.A.1.8.1) compare
Pf1N1B4_5722 -1.3 -2.3 Periplasmic protein p19 involved in high-affinity Fe2+ transport compare
Pf1N1B4_2026 -1.3 -2.3 Transcriptional regulator compare
Pf1N1B4_1726 -1.3 -4.9 Sulfate transport system permease protein CysT compare
Pf1N1B4_2986 -1.3 -5.1 sensor histidine kinase compare
Pf1N1B4_823 -1.2 -2.5 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_101 -1.2 -1.4 hypothetical protein compare
Pf1N1B4_1159 -1.2 -1.6 tRNA pseudouridine synthase B (EC 4.2.1.70) compare
Pf1N1B4_2859 -1.2 -6.8 Two-component sensor CbrA: intrcellular carbon:nitrogen balance compare
Pf1N1B4_1461 -1.2 -2.8 Protein fixF compare
Pf1N1B4_1069 -1.2 -3.6 YrbA protein compare
Pf1N1B4_2205 -1.2 -7.1 Sterol desaturase compare
Pf1N1B4_2384 -1.2 -3.8 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf1N1B4_1057 -1.2 -1.9 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf1N1B4_2840 -1.2 -3.4 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
Pf1N1B4_1535 -1.2 -2.3 hypothetical protein compare
Pf1N1B4_3870 -1.2 -8.1 Type cbb3 cytochrome oxidase biogenesis protein CcoS, involved in heme b insertion compare
Pf1N1B4_3081 -1.2 -9.1 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
Pf1N1B4_3825 -1.2 -1.5 FIG00959101: hypothetical protein compare
Pf1N1B4_5393 -1.2 -2.4 hypothetical protein compare
Pf1N1B4_1975 -1.2 -2.1 Transcriptional regulator, AsnC family compare
Pf1N1B4_3878 -1.2 -3.7 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) compare
Pf1N1B4_3168 -1.2 -3.2 AmpG permease compare
Pf1N1B4_3906 -1.2 -2.4 DNA topoisomerase I (EC 5.99.1.2) compare
Pf1N1B4_5912 -1.2 -3.0 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_2772 -1.2 -4.3 COG2879, Hypothetical small protein yjiX compare
Pf1N1B4_236 -1.2 -2.3 Molybdenum cofactor biosynthesis protein MoaB compare
Pf1N1B4_5864 -1.2 -2.2 Glycolate dehydrogenase (EC 1.1.99.14), iron-sulfur subunit GlcF compare
Pf1N1B4_5759 -1.2 -2.8 Nitric-oxide reductase subunit B (EC 1.7.99.7) compare
Pf1N1B4_1511 -1.2 -1.7 FIG027190: Putative transmembrane protein compare
Pf1N1B4_1625 -1.2 -2.0 FIG00956267: hypothetical protein compare
Pf1N1B4_2173 -1.2 -1.7 Diaminopimelate epimerase (EC 5.1.1.7) compare
Pf1N1B4_724 -1.2 -2.9 DNA-binding response regulator ColR compare
Pf1N1B4_493 -1.2 -2.6 hypothetical protein compare
Pf1N1B4_4740 -1.1 -1.5 Methyl-accepting chemotaxis protein I (serine chemoreceptor protein) compare
Pf1N1B4_1375 -1.1 -5.8 Mannose-6-phosphate isomerase (EC 5.3.1.8) compare
Pf1N1B4_3907 -1.1 -1.4 FIG00953287: hypothetical protein compare
Pf1N1B4_3993 -1.1 -2.0 Isovaleryl-CoA dehydrogenase (EC 1.3.8.4) compare
Pf1N1B4_625 -1.1 -3.1 FIG023103: Predicted transmembrane protein compare
Pf1N1B4_5137 -1.1 -4.5 Carboxynorspermidine decarboxylase, putative (EC 4.1.1.-) compare
Pf1N1B4_1755 -1.1 -3.0 FIG00955799: hypothetical protein compare
Pf1N1B4_1584 -1.1 -2.7 Histidine ABC transporter, permease protein (TC 3.A.1) compare
Pf1N1B4_275 -1.1 -1.4 Organic hydroperoxide resistance transcriptional regulator compare
Pf1N1B4_4489 -1.1 -2.5 Transcriptional regulator, LuxR family compare
Pf1N1B4_751 -1.1 -2.0 hypothetical protein compare
Pf1N1B4_5624 -1.1 -2.0 Lipase precursor (EC 3.1.1.3) compare
Pf1N1B4_5838 -1.1 -1.9 FIG00956589: hypothetical protein compare
Pf1N1B4_5777 -1.1 -2.4 Nitrous oxide reductase maturation protein, outer-membrane lipoprotein NosL compare


Specific Phenotypes

For 15 genes in this experiment

For denitrifying Sodium pyruvate in Pseudomonas fluorescens FW300-N1B4

For denitrifying Sodium pyruvate across organisms