Experiment set2IT021 for Pseudomonas fluorescens FW300-N2E2

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L-Malic acid disodium salt monohydrate carbon source

200 most important genes:

  gene name fitness t score description  
Pf6N2E2_4597 -6.7 -8.0 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_64 -6.3 -4.3 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
Pf6N2E2_3630 -6.1 -8.3 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_77 -6.0 -5.8 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) / O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) compare
Pf6N2E2_3751 -5.8 -14.6 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf6N2E2_4826 -5.7 -8.8 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf6N2E2_5175 -5.7 -17.5 Acetolactate synthase large subunit (EC 2.2.1.6) compare
Pf6N2E2_3839 -5.5 -6.5 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf6N2E2_4047 -5.5 -6.5 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf6N2E2_3782 -5.4 -6.4 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf6N2E2_71 -5.4 -8.1 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf6N2E2_4825 -5.2 -12.1 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf6N2E2_3842 -5.2 -7.9 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf6N2E2_4596 -4.9 -11.5 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_5176 -4.8 -13.9 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf6N2E2_3251 -4.7 -14.0 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
Pf6N2E2_3253 -4.6 -8.8 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf6N2E2_3252 -4.6 -11.4 Histidinol dehydrogenase (EC 1.1.1.23) compare
Pf6N2E2_3752 -4.6 -22.4 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf6N2E2_3248 -4.5 -6.2 Probable transmembrane protein compare
Pf6N2E2_3841 -4.4 -7.7 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf6N2E2_3610 -4.2 -4.0 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf6N2E2_5177 -4.1 -8.6 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf6N2E2_3783 -4.1 -8.2 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
Pf6N2E2_2073 -4.0 -9.6 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf6N2E2_4762 -4.0 -5.0 Biotin synthesis protein BioH compare
Pf6N2E2_4564 -4.0 -7.8 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf6N2E2_4048 -3.8 -6.9 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf6N2E2_3940 -3.8 -9.7 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_5527 -3.7 -4.4 Cold shock protein CspC compare
Pf6N2E2_302 -3.4 -7.1 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
Pf6N2E2_5006 -3.4 -13.0 Muramoyltetrapeptide carboxypeptidase (EC 3.4.17.13) compare
Pf6N2E2_66 -3.4 -9.1 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf6N2E2_2465 -3.3 -6.4 Cys regulon transcriptional activator CysB compare
Pf6N2E2_3932 -3.0 -5.5 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf6N2E2_50 -2.9 -10.6 Biosynthetic Aromatic amino acid aminotransferase alpha (EC 2.6.1.57) @ Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
Pf6N2E2_5579 -2.9 -7.6 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf6N2E2_63 -2.8 -3.7 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf6N2E2_2277 -2.8 -3.9 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
Pf6N2E2_2074 -2.7 -3.4 required for sulfate utilization, putative electron transport protein for sulfite reductase (from data) compare
Pf6N2E2_4638 -2.7 -4.5 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf6N2E2_5950 -2.7 -6.7 Phosphate:acyl-ACP acyltransferase PlsX compare
Pf6N2E2_4759 -2.7 -16.9 Biotin synthase (EC 2.8.1.6) compare
Pf6N2E2_3170 -2.5 -6.0 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf6N2E2_2753 -2.4 -5.6 HtrA protease/chaperone protein compare
Pf6N2E2_2010 -2.3 -3.2 hypothetical protein compare
Pf6N2E2_3346 -2.3 -8.5 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
Pf6N2E2_5728 -2.2 -5.0 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
Pf6N2E2_5707 -2.2 -13.6 Aerobic C4-dicarboxylate transporter for fumarate, L-malate, D-malate, succunate conserved
Pf6N2E2_5014 -2.1 -2.3 Apolipoprotein N-acyltransferase (EC 2.3.1.-) / Copper homeostasis protein CutE compare
Pf6N2E2_2217 -2.1 -6.1 ATP-dependent Clp protease ATP-binding subunit ClpX compare
Pf6N2E2_3826 -2.1 -6.3 Nitrogen regulation protein NR(I) compare
Pf6N2E2_3883 -2.0 -6.5 C4-dicarboxylate transport transcriptional regulatory protein conserved
Pf6N2E2_3349 -2.0 -2.9 Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) compare
Pf6N2E2_4764 -2.0 -7.4 Dethiobiotin synthetase (EC 6.3.3.3) compare
Pf6N2E2_4187 -1.9 -5.1 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.-) compare
Pf6N2E2_3984 -1.9 -9.9 T1SS associated transglutaminase-like cysteine proteinase LapP compare
Pf6N2E2_5242 -1.9 -2.7 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf6N2E2_5553 -1.9 -7.9 Quinolinate synthetase (EC 2.5.1.72) compare
Pf6N2E2_4009 -1.9 -10.2 GGDEF domain protein compare
Pf6N2E2_5156 -1.8 -3.9 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
Pf6N2E2_4761 -1.8 -9.0 8-amino-7-oxononanoate synthase (EC 2.3.1.47) compare
Pf6N2E2_5666 -1.8 -8.8 Arginine N-succinyltransferase, alpha subunit (EC 2.3.1.109) compare
Pf6N2E2_248 -1.8 -8.9 hypothetical protein compare
Pf6N2E2_4763 -1.8 -8.7 Biotin synthesis protein BioC compare
Pf6N2E2_2912 -1.7 -2.7 FIG00954094: hypothetical protein compare
Pf6N2E2_4631 -1.7 -9.0 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) compare
Pf6N2E2_5406 -1.7 -3.6 FIG00958224: hypothetical protein compare
Pf6N2E2_4797 -1.7 -2.2 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) compare
Pf6N2E2_5258 -1.7 -8.0 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf6N2E2_3899 -1.7 -8.4 Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) compare
Pf6N2E2_5331 -1.6 -7.0 ATPase, AFG1 family compare
Pf6N2E2_3762 -1.6 -5.8 NADP-dependent malic enzyme (EC 1.1.1.40) compare
Pf6N2E2_4204 -1.6 -2.1 rRNA small subunit 7-methylguanosine (m7G) methyltransferase GidB compare
Pf6N2E2_2218 -1.5 -5.1 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
Pf6N2E2_5667 -1.5 -8.4 Arginine N-succinyltransferase (EC 2.3.1.109) compare
Pf6N2E2_3938 -1.5 -11.4 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
Pf6N2E2_3825 -1.5 -5.2 Nitrogen regulation protein NtrB (EC 2.7.13.3) compare
Pf6N2E2_3835 -1.5 -5.3 Carboxyl-terminal protease (EC 3.4.21.102) compare
Pf6N2E2_3882 -1.4 -7.6 Signal transduction histidine kinase regulating C4-dicarboxylate transport system conserved
Pf6N2E2_5219 -1.3 -7.9 FIG140336: TPR domain protein compare
Pf6N2E2_2514 -1.3 -3.7 regulator of length of O-antigen component of lipopolysaccharide chains compare
Pf6N2E2_288 -1.3 -2.7 Isocitrate dehydrogenase [NADP] (EC 1.1.1.42); Monomeric isocitrate dehydrogenase [NADP] (EC 1.1.1.42) compare
Pf6N2E2_5257 -1.3 -6.8 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
Pf6N2E2_5155 -1.2 -2.8 Poly(A) polymerase (EC 2.7.7.19) compare
Pf6N2E2_4372 -1.2 -4.6 FIG00460773: hypothetical protein compare
Pf6N2E2_3534 -1.2 -2.5 Cobalamin biosynthesis protein CobG compare
Pf6N2E2_5103 -1.2 -1.9 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
Pf6N2E2_5676 -1.2 -3.7 Aspartokinase (EC 2.7.2.4) compare
Pf6N2E2_51 -1.2 -5.4 hypothetical protein compare
Pf6N2E2_2586 -1.2 -1.9 Hpt domain protein compare
Pf6N2E2_4579 -1.2 -2.7 Ribosomal RNA small subunit methyltransferase D (EC 2.1.1.-) compare
Pf6N2E2_3661 -1.2 -5.1 hypothetical protein compare
Pf6N2E2_2574 -1.1 -2.1 Flagellar synthesis regulator FleN compare
Pf6N2E2_3260 -1.1 -4.7 Uncharacterized ABC transporter, ATP-binding protein YrbF compare
Pf6N2E2_1886 -1.1 -1.4 hypothetical protein compare
Pf6N2E2_4601 -1.1 -2.5 Hypothetical protein YggS, proline synthase co-transcribed bacterial homolog PROSC compare
Pf6N2E2_5943 -1.1 -2.7 hypothetical protein compare
Pf6N2E2_3460 -1.1 -2.0 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) compare
Pf6N2E2_2518 -1.1 -2.9 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) / 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
Pf6N2E2_5049 -1.1 -1.5 acetyltransferase, GNAT family compare
Pf6N2E2_1652 -1.1 -2.8 Transcriptional regulator, TetR family compare
Pf6N2E2_2081 -1.0 -2.2 putative exported protein compare
Pf6N2E2_2318 -1.0 -6.4 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf6N2E2_3665 -1.0 -1.2 serine/threonine protein kinase compare
Pf6N2E2_6095 -1.0 -3.6 tRNA-Asn-GTT compare
Pf6N2E2_1705 -1.0 -1.8 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) compare
Pf6N2E2_5993 -1.0 -2.7 FIG00957412: hypothetical protein compare
Pf6N2E2_1717 -0.9 -6.1 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
Pf6N2E2_3237 -0.9 -2.2 hypothetical protein compare
Pf6N2E2_2264 -0.9 -2.8 NADPH dependent preQ0 reductase (EC 1.7.1.13) compare
Pf6N2E2_1136 -0.9 -2.3 Transcriptional regulator, TetR family compare
Pf6N2E2_4305 -0.9 -1.6 FIG00959590: hypothetical protein compare
Pf6N2E2_2282 -0.9 -3.0 Predicted transcriptional regulator for fatty acid degradation FadQ, TetR family compare
Pf6N2E2_2320 -0.9 -2.5 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
Pf6N2E2_2473 -0.9 -1.3 Major outer membrane lipoprotein I compare
Pf6N2E2_2061 -0.9 -3.3 CobW GTPase involved in cobalt insertion for B12 biosynthesis compare
Pf6N2E2_84 -0.9 -2.6 hypothetical protein compare
Pf6N2E2_2152 -0.9 -2.0 hypothetical protein compare
Pf6N2E2_5226 -0.9 -1.9 FIG00955589: hypothetical protein compare
Pf6N2E2_5745 -0.9 -4.0 Alpha-ribazole-5'-phosphate phosphatase (EC 3.1.3.73) compare
Pf6N2E2_3537 -0.9 -4.0 Cobalt-precorrin-6x reductase (EC 1.3.1.54) compare
Pf6N2E2_2068 -0.9 -5.4 5-methyltetrahydrofolate--homocysteine methyltransferase (EC 2.1.1.13) compare
Pf6N2E2_5520 -0.9 -4.2 Sensory box histidine kinase compare
Pf6N2E2_3713 -0.9 -2.2 Acyl carrier protein compare
Pf6N2E2_4071 -0.9 -3.0 Phosphate transport system regulatory protein PhoU compare
Pf6N2E2_4417 -0.9 -2.4 Protein of unknown function DUF484 compare
Pf6N2E2_122 -0.8 -2.1 Tyrosine-protein kinase Wzc (EC 2.7.10.2) compare
Pf6N2E2_1636 -0.8 -5.5 Ferrichrome-iron receptor compare
Pf6N2E2_3532 -0.8 -4.4 Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) compare
Pf6N2E2_3074 -0.8 -1.9 FIG00960973: hypothetical protein compare
Pf6N2E2_58 -0.8 -1.8 tRNA-dihydrouridine synthase C (EC 1.-.-.-) compare
Pf6N2E2_1660 -0.8 -2.4 RND efflux system, membrane fusion protein CmeA compare
Pf6N2E2_3257 -0.8 -3.0 Uncharacterized ABC transporter, auxiliary component YrbC compare
Pf6N2E2_1987 -0.8 -1.7 hypothetical protein compare
Pf6N2E2_1676 -0.8 -2.4 conserved protein associated with acetyl-CoA C-acyltransferase compare
Pf6N2E2_5252 -0.8 -2.0 FIG00956396: hypothetical protein compare
Pf6N2E2_5738 -0.8 -5.4 Cobyrinic acid A,C-diamide synthase compare
Pf6N2E2_3039 -0.8 -4.6 Protein-L-isoaspartate O-methyltransferase (EC 2.1.1.77) compare
Pf6N2E2_2756 -0.8 -3.9 RNA polymerase sigma-H factor AlgT compare
Pf6N2E2_5741 -0.8 -4.1 L-threonine 3-O-phosphate decarboxylase (EC 4.1.1.81) compare
Pf6N2E2_3134 -0.8 -1.0 hypothetical protein compare
Pf6N2E2_4416 -0.8 -2.1 Tyrosine recombinase XerC compare
Pf6N2E2_5740 -0.8 -3.4 Adenosylcobinamide-phosphate synthase (EC 6.3.1.10) compare
Pf6N2E2_5339 -0.7 -4.0 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
Pf6N2E2_3786 -0.7 -2.2 Twin-arginine translocation protein TatC compare
Pf6N2E2_2064 -0.7 -2.9 Cobalt-precorrin-3b C17-methyltransferase compare
Pf6N2E2_3040 -0.7 -3.6 5-nucleotidase SurE (EC 3.1.3.5) compare
Pf6N2E2_6164 -0.7 -1.2 tRNA-Val-TAC compare
Pf6N2E2_2072 -0.7 -1.6 hypothetical protein compare
Pf6N2E2_2310 -0.7 -5.0 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) compare
Pf6N2E2_434 -0.7 -2.5 hypothetical protein compare
Pf6N2E2_595 -0.7 -2.1 Arsenical resistance operon repressor compare
Pf6N2E2_3820 -0.7 -1.2 hypothetical protein compare
Pf6N2E2_3840 -0.7 -1.8 FIG00956267: hypothetical protein compare
Pf6N2E2_3264 -0.7 -2.0 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters compare
Pf6N2E2_2758 -0.7 -5.7 L-aspartate oxidase (EC 1.4.3.16) compare
Pf6N2E2_5746 -0.7 -1.4 Cobalamin synthase compare
Pf6N2E2_4273 -0.7 -4.5 ATP-dependent DNA helicase UvrD/PcrA compare
Pf6N2E2_2534 -0.7 -2.3 Cell division protein BolA compare
Pf6N2E2_2060 -0.7 -5.0 CobN component of cobalt chelatase involved in B12 biosynthesis compare
Pf6N2E2_5338 -0.7 -4.5 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
Pf6N2E2_4448 -0.7 -2.9 probable P23 protein compare
Pf6N2E2_2420 -0.7 -1.4 hypothetical protein compare
Pf6N2E2_1081 -0.7 -1.2 probable membrane protein YPO3302 compare
Pf6N2E2_3947 -0.7 -1.1 Cd(II)/Pb(II)-responsive transcriptional regulator compare
Pf6N2E2_5843 -0.7 -1.2 hypothetical protein compare
Pf6N2E2_4059 -0.7 -1.0 DNA-binding protein HU-alpha compare
Pf6N2E2_2481 -0.7 -2.8 Membrane protein, distant similarity to thiosulphate:quinone oxidoreductase DoxD compare
Pf6N2E2_3535 -0.7 -3.2 Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) compare
Pf6N2E2_2317 -0.7 -2.6 Putative analog of CcoH, COG3198 compare
Pf6N2E2_2261 -0.7 -3.9 VacJ-like lipoprotein precursor compare
Pf6N2E2_65 -0.7 -2.0 SAM-dependent methyltransferase YafE (UbiE paralog) compare
Pf6N2E2_5936 -0.7 -1.6 Low molecular weight protein tyrosine phosphatase (EC 3.1.3.48) compare
Pf6N2E2_640 -0.6 -1.9 Outer membrane TonB-dependent transducer VreA of trans-envelope signaling system compare
Pf6N2E2_4025 -0.6 -1.2 hypothetical protein compare
Pf6N2E2_1758 -0.6 -1.3 Transcriptional regulator, MarR family compare
Pf6N2E2_642 -0.6 -2.1 Sigma factor regulator VreR (cytoplasmic membrane-localized) of trans-envelope signaling system compare
Pf6N2E2_4620 -0.6 -2.2 Triphosphoribosyl-dephospho-CoA synthetase (EC 2.7.8.25) compare
Pf6N2E2_4454 -0.6 -3.1 Exopolyphosphatase (EC 3.6.1.11) compare
Pf6N2E2_1920 -0.6 -2.0 Rubredoxin compare
Pf6N2E2_1341 -0.6 -2.9 Bona fide RidA/YjgF/TdcF/RutC subgroup compare
Pf6N2E2_21 -0.6 -2.5 Sigma-70 factor FpvI (ECF subfamily), controling pyoverdin biosynthesis compare
Pf6N2E2_5261 -0.6 -0.9 FIG00956983: hypothetical protein compare
Pf6N2E2_2973 -0.6 -2.8 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf6N2E2_3847 -0.6 -2.4 FIG001341: Probable Fe(2+)-trafficking protein YggX compare
Pf6N2E2_2962 -0.6 -2.0 ABC transporter for L-Lysine, ATPase component (from data) compare
Pf6N2E2_2225 -0.6 -1.8 FIG00953489: hypothetical protein compare
Pf6N2E2_4205 -0.6 -1.8 Chromosome (plasmid) partitioning protein ParA compare
Pf6N2E2_833 -0.6 -1.6 Probable Co/Zn/Cd efflux system membrane fusion protein compare
Pf6N2E2_3635 -0.6 -1.6 FIG00953138: hypothetical protein compare
Pf6N2E2_1848 -0.6 -2.4 hypothetical protein compare
Pf6N2E2_5560 -0.6 -2.1 Sigma-54 dependent transcriptional regulator/sensory box protein compare
Pf6N2E2_5111 -0.6 -2.2 FKBP-type peptidyl-prolyl cis-trans isomerase SlpA (EC 5.2.1.8) compare
Pf6N2E2_746 -0.6 -1.3 FIG00958097: hypothetical protein compare
Pf6N2E2_416 -0.6 -2.5 Positive regulator of CheA protein activity (CheW) compare
Pf6N2E2_3531 -0.6 -2.9 Cobalamin biosynthesis protein CbiG / Cobalt-precorrin-3b C17-methyltransferase compare
Pf6N2E2_2789 -0.6 -2.8 L-lysine permease compare
Pf6N2E2_4077 -0.6 -1.0 cytosolic long-chain acyl-CoA thioester hydrolase family protein compare
Pf6N2E2_282 -0.6 -1.1 GNAT family acetyltransferase YjcF compare


Specific Phenotypes

For 3 genes in this experiment

For carbon source L-Malic acid disodium salt monohydrate in Pseudomonas fluorescens FW300-N2E2

For carbon source L-Malic acid disodium salt monohydrate across organisms