Experiment set4IT076 for Pseudomonas fluorescens FW300-N1B4

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D-Alanine carbon source

200 most important genes:

  gene name fitness t score description  
Pf1N1B4_2143 -4.1 -8.3 Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system conserved
Pf1N1B4_6 -4.0 -4.7 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf1N1B4_15 -3.9 -2.7 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf1N1B4_2880 -3.6 -12.6 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf1N1B4_1307 -3.5 -2.4 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
Pf1N1B4_1067 -3.4 -6.0 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf1N1B4_1534 -3.4 -17.2 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf1N1B4_2548 -3.3 -6.3 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf1N1B4_2384 -3.3 -10.8 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf1N1B4_2303 -3.2 -14.2 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf1N1B4_1624 -3.2 -7.6 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf1N1B4_5665 -3.2 -5.1 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf1N1B4_1408 -3.2 -4.2 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf1N1B4_2545 -3.2 -12.3 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
Pf1N1B4_1627 -3.1 -3.6 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf1N1B4_1831 -3.1 -10.1 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf1N1B4_2338 -3.0 -6.6 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_2112 -3.0 -13.8 Bona fide RidA/YjgF/TdcF/RutC subgroup compare
Pf1N1B4_2547 -2.8 -3.3 Anthranilate synthase, amidotransferase component (EC 4.1.3.27) @ Para-aminobenzoate synthase, amidotransferase component (EC 2.6.1.85) compare
Pf1N1B4_2491 -2.8 -3.7 Dethiobiotin synthetase (EC 6.3.3.3) compare
Pf1N1B4_5666 -2.8 -4.0 Oxidoreductase probably involved in sulfite reduction compare
Pf1N1B4_2144 -2.8 -7.8 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
Pf1N1B4_1533 -2.8 -7.9 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf1N1B4_1626 -2.8 -7.1 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf1N1B4_2489 -2.7 -5.3 Biotin synthesis protein BioH compare
Pf1N1B4_801 -2.7 -6.9 D-serine/D-alanine/glycine transporter conserved
Pf1N1B4_1830 -2.7 -9.5 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf1N1B4_2010 -2.7 -6.2 Pyruvate carboxyl transferase subunit A (EC 6.4.1.1) compare
Pf1N1B4_742 -2.6 -7.2 Argininosuccinate synthase (EC 6.3.4.5) compare
Pf1N1B4_3506 -2.6 -7.2 Cysteine synthase B (EC 2.5.1.47) compare
Pf1N1B4_2858 -2.6 -9.2 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
Pf1N1B4_3697 -2.6 -8.8 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
Pf1N1B4_1565 -2.6 -4.4 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf1N1B4_2549 -2.6 -8.8 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf1N1B4_2282 -2.5 -9.0 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_4065 -2.5 -8.0 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_12 -2.5 -7.1 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf1N1B4_578 -2.5 -4.4 enoyl-CoA hydratase, R-specific compare
Pf1N1B4_3812 -2.5 -9.4 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) / Adenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.10) compare
Pf1N1B4_762 -2.4 -6.0 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf1N1B4_1617 -2.4 -8.1 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) compare
Pf1N1B4_3917 -2.4 -4.8 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
Pf1N1B4_1434 -2.4 -6.4 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_2878 -2.4 -8.4 Acetolactate synthase large subunit (EC 2.2.1.6) compare
Pf1N1B4_2879 -2.3 -6.4 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf1N1B4_847 -2.3 -8.4 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf1N1B4_1611 -2.3 -5.1 Nitrogen regulation protein NR(I) compare
Pf1N1B4_2859 -2.3 -13.0 Two-component sensor CbrA: intrcellular carbon:nitrogen balance compare
Pf1N1B4_27 -2.3 -5.1 Biosynthetic Aromatic amino acid aminotransferase alpha (EC 2.6.1.57) @ Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
Pf1N1B4_2208 -2.2 -7.9 Polyphosphate kinase (EC 2.7.4.1) compare
Pf1N1B4_2009 -2.2 -4.3 LysR family transcriptional regulator PA5437 compare
Pf1N1B4_2488 -2.2 -7.0 8-amino-7-oxononanoate synthase (EC 2.3.1.47) compare
Pf1N1B4_2377 -2.2 -5.8 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) compare
Pf1N1B4_5224 -2.2 -3.4 tRNA-Arg-CCT compare
Pf1N1B4_1315 -2.2 -8.1 IMP cyclohydrolase (EC 3.5.4.10) / Phosphoribosylaminoimidazolecarboxamide formyltransferase (EC 2.1.2.3) compare
Pf1N1B4_2487 -2.1 -8.0 Biotin synthase (EC 2.8.1.6) compare
Pf1N1B4_350 -2.1 -7.0 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
Pf1N1B4_1625 -2.1 -4.5 FIG00956267: hypothetical protein compare
Pf1N1B4_2272 -2.1 -4.0 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf1N1B4_2284 -2.0 -4.9 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
Pf1N1B4_2874 -2.0 -3.3 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_644 -2.0 -1.3 Cold shock protein CspC compare
Pf1N1B4_2337 -2.0 -5.0 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_1475 -2.0 -7.2 FIG00962376: hypothetical protein compare
Pf1N1B4_2011 -1.9 -7.1 Pyruvate carboxyl transferase subunit B (EC 6.4.1.1) compare
Pf1N1B4_2490 -1.9 -5.9 Biotin synthesis protein BioC compare
Pf1N1B4_2280 -1.8 -7.8 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
Pf1N1B4_1906 -1.8 -4.0 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
Pf1N1B4_3833 -1.8 -7.4 Major porin and structural outer membrane porin OprF compare
Pf1N1B4_3713 -1.8 -1.6 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC 2.4.2.21) compare
Pf1N1B4_5925 -1.8 -10.1 hypothetical protein compare
Pf1N1B4_3153 -1.8 -2.1 hypothetical protein compare
Pf1N1B4_1566 -1.7 -6.0 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
Pf1N1B4_2381 -1.7 -11.4 Protein yceI precursor compare
Pf1N1B4_2225 -1.7 -9.5 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) compare
Pf1N1B4_1153 -1.7 -4.1 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
Pf1N1B4_5926 -1.7 -10.2 hypothetical protein compare
Pf1N1B4_3768 -1.6 -3.1 Homoserine/homoserine lactone efflux protein compare
Pf1N1B4_4038 -1.6 -2.8 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
Pf1N1B4_4041 -1.6 -3.3 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
Pf1N1B4_3906 -1.6 -4.6 DNA topoisomerase I (EC 5.99.1.2) compare
Pf1N1B4_327 -1.6 -2.0 hypothetical protein compare
Pf1N1B4_2380 -1.6 -10.6 Cytochrome B561 compare
Pf1N1B4_1535 -1.5 -2.8 hypothetical protein compare
Pf1N1B4_722 -1.5 -2.2 SAM-dependent methyltransferases compare
Pf1N1B4_2493 -1.5 -2.9 Acyl-CoA dehydrogenase (EC 1.3.8.7) compare
Pf1N1B4_2401 -1.5 -1.9 Lipoprotein, putative compare
Pf1N1B4_3081 -1.5 -12.5 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
Pf1N1B4_4039 -1.5 -5.7 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
Pf1N1B4_5904 -1.5 -2.5 FIG00955320: hypothetical protein compare
Pf1N1B4_2486 -1.4 -1.9 hypothetical protein compare
Pf1N1B4_1463 -1.4 -6.4 hypothetical protein compare
Pf1N1B4_3451 -1.4 -3.2 Aspartokinase (EC 2.7.2.4) compare
Pf1N1B4_617 -1.4 -2.4 Carbamate kinase (EC 2.7.2.2) compare
Pf1N1B4_1610 -1.4 -3.5 Nitrogen regulation protein NtrB (EC 2.7.13.3) compare
Pf1N1B4_5927 -1.4 -11.2 Capsular polysaccharide biosynthesis protein compare
Pf1N1B4_4030 -1.3 -2.8 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
Pf1N1B4_1472 -1.3 -1.8 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
Pf1N1B4_1317 -1.3 -2.7 Sensor histidine kinase/response regulator compare
Pf1N1B4_2850 -1.3 -5.7 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
Pf1N1B4_3152 -1.3 -4.7 LysR family transcriptional regulator PA3398 compare
Pf1N1B4_5924 -1.3 -6.0 hypothetical protein compare
Pf1N1B4_4225 -1.2 -3.1 transcriptional regulator, AraC family compare
Pf1N1B4_373 -1.2 -2.8 5-methylaminomethyl-2-thiouridine-forming enzyme mnmC compare
Pf1N1B4_2860 -1.2 -5.0 FIG00954153: hypothetical protein compare
Pf1N1B4_1065 -1.2 -4.8 Histidinol-phosphate aminotransferase (EC 2.6.1.9) compare
Pf1N1B4_4509 -1.2 -2.4 Aldose 1-epimerase compare
Pf1N1B4_1683 -1.1 -2.3 Alpha-ketoglutarate-dependent taurine dioxygenase (EC 1.14.11.17) compare
Pf1N1B4_1116 -1.1 -7.6 Sensor histidine kinase PrrB (RegB) (EC 2.7.3.-) compare
Pf1N1B4_5383 -1.1 -7.0 hypothetical protein compare
Pf1N1B4_652 -1.1 -6.6 Sensory box histidine kinase compare
Pf1N1B4_7 -1.1 -3.7 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
Pf1N1B4_5507 -1.1 -2.2 hypothetical protein compare
Pf1N1B4_1115 -1.1 -6.6 Dna binding response regulator PrrA (RegA) compare
Pf1N1B4_5737 -1.1 -2.7 Nitrate/nitrite transporter compare
Pf1N1B4_4028 -1.1 -2.7 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
Pf1N1B4_1328 -1.1 -2.3 Cobalt-precorrin-8x methylmutase (EC 5.4.1.2) compare
Pf1N1B4_6037 -1.1 -2.2 L-asparaginase (EC 3.5.1.1) compare
Pf1N1B4_1329 -1.1 -4.4 Cobalamin biosynthesis protein CobG compare
Pf1N1B4_3685 -1.1 -3.4 Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) compare
Pf1N1B4_1554 -1.0 -4.3 predicted FeS cluster maintenance protein (from data) compare
Pf1N1B4_5777 -1.0 -2.6 Nitrous oxide reductase maturation protein, outer-membrane lipoprotein NosL compare
Pf1N1B4_1668 -1.0 -3.6 3'(2'),5'-bisphosphate nucleotidase (EC 3.1.3.7) compare
Pf1N1B4_5619 -1.0 -2.4 BarA-associated response regulator UvrY (= GacA = SirA) compare
Pf1N1B4_3700 -1.0 -2.7 Putative permease often clustered with de novo purine synthesis compare
Pf1N1B4_3466 -1.0 -1.8 FIG00955605: hypothetical protein compare
Pf1N1B4_165 -1.0 -2.3 FIG00638667: hypothetical protein compare
Pf1N1B4_1675 -1.0 -2.0 Transcriptional regulator compare
Pf1N1B4_1 -1.0 -1.8 Colicin V production protein compare
Pf1N1B4_3729 -1.0 -1.7 Quaternary ammonium compound-resistance protein SugE compare
Pf1N1B4_3445 -1.0 -2.5 Succinylarginine dihydrolase (EC 3.5.3.23) compare
Pf1N1B4_176 -1.0 -3.3 Acetylpolyamine aminohydrolase compare
Pf1N1B4_5659 -1.0 -6.6 NfuA Fe-S protein maturation compare
Pf1N1B4_2891 -0.9 -2.8 Ribosomal-protein-S18p-alanine acetyltransferase (EC 2.3.1.-) compare
Pf1N1B4_34 -0.9 -1.8 Xanthine permease compare
Pf1N1B4_4671 -0.9 -2.3 Short-chain dehydrogenase/reductase SDR compare
Pf1N1B4_3443 -0.9 -2.2 Arginine N-succinyltransferase (EC 2.3.1.109) compare
Pf1N1B4_1540 -0.9 -2.4 Type IV pilus biogenesis protein PilP compare
Pf1N1B4_683 -0.9 -3.0 Fumarate hydratase class I, aerobic (EC 4.2.1.2) compare
Pf1N1B4_5652 -0.9 -2.3 ChlI component of cobalt chelatase involved in B12 biosynthesis compare
Pf1N1B4_835 -0.9 -1.9 Trehalose-6-phosphate hydrolase (EC 3.2.1.93) compare
Pf1N1B4_2228 -0.9 -2.6 FIG001590: Putative conserved exported protein precursor compare
Pf1N1B4_4432 -0.9 -3.3 Dienelactone hydrolase family compare
Pf1N1B4_1057 -0.9 -1.5 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf1N1B4_1936 -0.9 -3.6 Chromosome (plasmid) partitioning protein ParA compare
Pf1N1B4_188 -0.9 -1.6 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_1263 -0.9 -1.9 Cu(I)-responsive transcriptional regulator compare
Pf1N1B4_4939 -0.9 -2.2 sodium/hydrogen exchanger family protein compare
Pf1N1B4_4355 -0.9 -1.7 Gamma-glutamyl-aminobutyraldehyde dehydrogenase (EC 1.2.1.-) compare
Pf1N1B4_3936 -0.9 -2.1 Transcriptional regulator, LysR family compare
Pf1N1B4_3656 -0.9 -1.1 Eukaryotic-type low-affinity urea transporter compare
Pf1N1B4_5133 -0.9 -2.5 3-ketoacyl-CoA thiolase (EC 2.3.1.16) @ Acetyl-CoA acetyltransferase (EC 2.3.1.9) compare
Pf1N1B4_58 -0.9 -3.7 Transaldolase (EC 2.2.1.2) compare
Pf1N1B4_629 -0.9 -2.0 Queuosine Biosynthesis QueE Radical SAM compare
Pf1N1B4_3742 -0.9 -1.3 Oxidoreductase, zinc-binding compare
Pf1N1B4_5834 -0.9 -1.7 Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) compare
Pf1N1B4_3707 -0.9 -4.4 Cobyrinic acid A,C-diamide synthase compare
Pf1N1B4_2568 -0.9 -1.9 Translation elongation factor Tu compare
Pf1N1B4_3802 -0.9 -1.6 PlcB, ORFX, ORFP, ORFB, ORFA, ldh gene compare
Pf1N1B4_4558 -0.9 -2.2 Outer membrane lipoprotein-sorting protein compare
Pf1N1B4_4156 -0.8 -1.6 putative secreted protein compare
Pf1N1B4_1474 -0.8 -2.6 Glutamate-ammonia-ligase adenylyltransferase (EC 2.7.7.42) compare
Pf1N1B4_1958 -0.8 -1.4 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_257 -0.8 -3.6 sensor histidine kinase/response regulator compare
Pf1N1B4_3518 -0.8 -1.5 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
Pf1N1B4_1568 -0.8 -2.5 Twin-arginine translocation protein TatB compare
Pf1N1B4_626 -0.8 -3.9 Quinolinate synthetase (EC 2.5.1.72) compare
Pf1N1B4_3368 -0.8 -1.6 Allophanate hydrolase 2 subunit 2 (EC 3.5.1.54) compare
Pf1N1B4_5386 -0.8 -1.8 hypothetical protein compare
Pf1N1B4_5976 -0.8 -1.7 1-pyrroline-4-hydroxy-2-carboxylate deaminase (EC 3.5.4.22) compare
Pf1N1B4_4446 -0.8 -1.4 DNA topoisomerase III (EC 5.99.1.2) compare
Pf1N1B4_3281 -0.8 -2.6 AidA compare
Pf1N1B4_3328 -0.8 -1.5 Rhodanese-like domain protein compare
Pf1N1B4_1462 -0.8 -6.3 Oligosaccharide repeat unit polymerase Wzy; O-antigen ligase compare
Pf1N1B4_3965 -0.8 -1.6 FIG033889: YebC paralog in Betaproteobacteria compare
Pf1N1B4_731 -0.8 -1.7 Scaffold protein for [4Fe-4S] cluster assembly ApbC, MRP-like compare
Pf1N1B4_198 -0.8 -1.8 FIG137877: Hypothetical protein in pyoverdin gene cluster compare
Pf1N1B4_1059 -0.8 -1.9 FIG137478: Hypothetical protein YbgI compare
Pf1N1B4_72 -0.8 -1.2 Transcriptional regulator, LysR family compare
Pf1N1B4_2706 -0.8 -1.8 FIG00954871: hypothetical protein compare
Pf1N1B4_345 -0.8 -1.4 Integration host factor beta subunit compare
Pf1N1B4_3350 -0.8 -1.7 FIG00954807: hypothetical protein compare
Pf1N1B4_4551 -0.8 -1.5 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.179) compare
Pf1N1B4_2893 -0.8 -4.0 Carbonic anhydrase (EC 4.2.1.1) compare
Pf1N1B4_2176 -0.8 -2.0 Frataxin homolog CyaY, facilitates iron supply for heme A synthesis or Fe-S cluster assembly compare
Pf1N1B4_4481 -0.8 -1.6 Transcriptional regulator BkdR of isoleucine and valine catabolism operon compare
Pf1N1B4_2939 -0.8 -3.3 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf1N1B4_4153 -0.8 -1.9 Glucose 1-dehydrogenase (EC 1.1.1.47) compare
Pf1N1B4_5923 -0.8 -1.9 PhnB protein; putative DNA binding 3-demethylubiquinone-9 3-methyltransferase domain protein compare
Pf1N1B4_1806 -0.8 -2.2 FIG00953743: hypothetical protein compare
Pf1N1B4_630 -0.8 -2.6 TPR repeat containing exported protein; Putative periplasmic protein contains a protein prenylyltransferase domain compare
Pf1N1B4_4335 -0.8 -1.4 Putative translation initiation inhibitor, yjgF family compare
Pf1N1B4_825 -0.8 -1.5 tRNA (uridine-5-oxyacetic acid methyl ester) 34 synthase compare
Pf1N1B4_3501 -0.8 -3.3 BarA sensory histidine kinase (= VarS = GacS) compare
Pf1N1B4_4838 -0.8 -2.6 Putative lipase compare
Pf1N1B4_4040 -0.8 -1.7 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
Pf1N1B4_3849 -0.8 -2.3 Transcriptional regulator, GntR family compare
Pf1N1B4_3468 -0.8 -1.2 Negative regulator of flagellin synthesis FlgM compare
Pf1N1B4_5242 -0.8 -1.1 hypothetical protein compare
Pf1N1B4_4102 -0.8 -2.2 Mannose-6-phosphate isomerase (EC 5.3.1.8) compare


Specific Phenotypes

For 2 genes in this experiment

For carbon source D-Alanine in Pseudomonas fluorescens FW300-N1B4

For carbon source D-Alanine across organisms