Experiment set2IT028 for Pseudomonas fluorescens FW300-N2E2

Compare to:

D-Alanine carbon source

200 most important genes:

  gene name fitness t score description  
Pf6N2E2_4597 -6.3 -6.1 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_4596 -6.0 -7.2 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_5006 -5.9 -8.1 Muramoyltetrapeptide carboxypeptidase (EC 3.4.17.13) compare
Pf6N2E2_77 -5.7 -5.6 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) / O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) compare
Pf6N2E2_3783 -5.7 -5.5 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
Pf6N2E2_5527 -5.6 -3.8 Cold shock protein CspC compare
Pf6N2E2_71 -5.5 -6.5 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf6N2E2_3842 -5.3 -6.3 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf6N2E2_1401 -5.2 -8.0 FIG00955631: hypothetical protein compare
Pf6N2E2_3941 -5.1 -3.5 Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-) compare
Pf6N2E2_3060 -5.1 -4.2 Outer membrane protein H precursor compare
Pf6N2E2_5175 -5.1 -16.0 Acetolactate synthase large subunit (EC 2.2.1.6) compare
Pf6N2E2_4362 -5.0 -3.4 DNA-directed RNA polymerase omega subunit (EC 2.7.7.6) compare
Pf6N2E2_4826 -4.8 -8.7 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf6N2E2_4825 -4.8 -10.2 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf6N2E2_5405 -4.8 -5.7 ABC transporter for D-Alanine, ATPase component (from data) compare
Pf6N2E2_1381 -4.7 -9.5 Aldehyde dehydrogenase (EC 1.2.1.3) compare
Pf6N2E2_5014 -4.7 -1.8 Apolipoprotein N-acyltransferase (EC 2.3.1.-) / Copper homeostasis protein CutE compare
Pf6N2E2_5720 -4.7 -17.1 BarA sensory histidine kinase (= VarS = GacS) compare
Pf6N2E2_4047 -4.6 -7.1 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf6N2E2_64 -4.6 -4.0 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
Pf6N2E2_3751 -4.5 -14.7 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf6N2E2_3253 -4.5 -7.5 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf6N2E2_5430 -4.5 -10.4 Transglycosylase, Slt family compare
Pf6N2E2_5177 -4.5 -13.1 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf6N2E2_2217 -4.4 -5.2 ATP-dependent Clp protease ATP-binding subunit ClpX compare
Pf6N2E2_3630 -4.4 -8.4 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_2574 -4.4 -3.0 Flagellar synthesis regulator FleN compare
Pf6N2E2_5459 -4.4 -13.1 D-serine/D-alanine/glycine transporter conserved
Pf6N2E2_2752 -4.3 -10.4 Exported zinc metalloprotease YfgC precursor compare
Pf6N2E2_5176 -4.3 -11.5 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf6N2E2_4391 -4.3 -5.9 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
Pf6N2E2_3942 -4.2 -13.0 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
Pf6N2E2_5780 -4.2 -11.3 Periplasmic protease compare
Pf6N2E2_3839 -4.1 -6.8 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf6N2E2_3752 -4.1 -21.8 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf6N2E2_4453 -4.1 -19.8 Polyphosphate kinase (EC 2.7.4.1) compare
Pf6N2E2_2753 -4.0 -4.7 HtrA protease/chaperone protein compare
Pf6N2E2_3782 -4.0 -6.6 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf6N2E2_2186 -4.0 -7.6 Isovaleryl-CoA dehydrogenase (EC 1.3.8.4) compare
Pf6N2E2_3869 -3.9 -12.9 Branched-chain amino acid transport protein AzlC compare
Pf6N2E2_3271 -3.9 -1.9 Phosphocarrier protein, nitrogen regulation associated compare
Pf6N2E2_3841 -3.9 -7.8 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf6N2E2_3661 -3.8 -6.3 hypothetical protein compare
Pf6N2E2_1932 -3.7 -7.2 Transcriptional regulator, IclR family compare
Pf6N2E2_5544 -3.7 -11.5 TPR repeat containing exported protein; Putative periplasmic protein contains a protein prenylyltransferase domain compare
Pf6N2E2_3610 -3.7 -6.5 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf6N2E2_3062 -3.7 -5.3 Membrane-associated zinc metalloprotease compare
Pf6N2E2_3611 -3.7 -2.4 HflC protein compare
Pf6N2E2_5403 -3.7 -11.7 ABC transporter for D-Alanine, permease component 2 (from data) compare
Pf6N2E2_2022 -3.7 -9.8 BarA-associated response regulator UvrY (= GacA = SirA) compare
Pf6N2E2_2320 -3.6 -4.9 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
Pf6N2E2_4564 -3.6 -8.0 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf6N2E2_3761 -3.6 -20.4 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf6N2E2_3258 -3.6 -4.2 Uncharacterized ABC transporter, periplasmic component YrbD compare
Pf6N2E2_1402 -3.5 -6.9 hypothetical protein compare
Pf6N2E2_1400 -3.5 -9.5 Sensory box histidine kinase/response regulator compare
Pf6N2E2_5001 -3.4 -3.3 D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) compare
Pf6N2E2_3940 -3.4 -11.9 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_63 -3.4 -6.9 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf6N2E2_4418 -3.3 -1.3 Diaminopimelate epimerase (EC 5.1.1.7) compare
Pf6N2E2_4611 -3.3 -5.8 Ferric siderophore transport system, periplasmic binding protein TonB compare
Pf6N2E2_5156 -3.2 -3.1 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
Pf6N2E2_66 -3.2 -8.1 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf6N2E2_3257 -3.2 -5.3 Uncharacterized ABC transporter, auxiliary component YrbC compare
Pf6N2E2_4390 -3.2 -9.4 Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system conserved
Pf6N2E2_4759 -3.2 -14.9 Biotin synthase (EC 2.8.1.6) compare
Pf6N2E2_5345 -3.1 -8.3 LppC putative lipoprotein compare
Pf6N2E2_5402 -3.1 -8.2 ABC transporter for D-Alanine, periplasmic substrate-binding component (from data) compare
Pf6N2E2_2510 -3.1 -5.9 Lipid carrier : UDP-N-acetylgalactosaminyltransferase (EC 2.4.1.-) / Alpha-1,3-N-acetylgalactosamine transferase PglA (EC 2.4.1.-); Putative glycosyltransferase compare
Pf6N2E2_5404 -3.1 -9.2 ABC transporter for D-Alanine, permease component 1 (from data) compare
Pf6N2E2_5183 -3.1 -16.2 Paraquat-inducible protein B compare
Pf6N2E2_5181 -3.1 -14.2 Paraquat-inducible protein A compare
Pf6N2E2_50 -3.1 -8.9 Biosynthetic Aromatic amino acid aminotransferase alpha (EC 2.6.1.57) @ Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
Pf6N2E2_2471 -3.0 -10.9 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf6N2E2_2261 -3.0 -8.2 VacJ-like lipoprotein precursor compare
Pf6N2E2_2218 -3.0 -4.8 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
Pf6N2E2_3252 -2.9 -7.8 Histidinol dehydrogenase (EC 1.1.1.23) compare
Pf6N2E2_3251 -2.9 -12.1 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
Pf6N2E2_4048 -2.9 -5.6 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf6N2E2_624 -2.9 -8.7 hypothetical protein PA3071 compare
Pf6N2E2_5182 -2.7 -7.7 Paraquat-inducible protein A compare
Pf6N2E2_4372 -2.7 -6.0 FIG00460773: hypothetical protein compare
Pf6N2E2_2473 -2.7 -1.7 Major outer membrane lipoprotein I compare
Pf6N2E2_3349 -2.6 -3.7 Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) compare
Pf6N2E2_3663 -2.6 -7.9 Glycosyl transferase compare
Pf6N2E2_4638 -2.5 -4.5 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf6N2E2_4276 -2.5 -6.8 Phosphogluconate repressor HexR, RpiR family compare
Pf6N2E2_4159 -2.4 -4.8 Cytochrome c4 compare
Pf6N2E2_5338 -2.4 -10.5 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
Pf6N2E2_4584 -2.4 -3.6 Cell division transporter, ATP-binding protein FtsE (TC 3.A.5.1.1) compare
Pf6N2E2_625 -2.4 -6.9 MoxR-like ATPase in aerotolerance operon compare
Pf6N2E2_3461 -2.4 -2.2 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
Pf6N2E2_3834 -2.4 -7.8 Lipoprotein NlpD compare
Pf6N2E2_3192 -2.3 -5.2 tRNA:Cm32/Um32 methyltransferase compare
Pf6N2E2_2318 -2.3 -9.8 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf6N2E2_3932 -2.3 -3.2 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf6N2E2_2313 -2.3 -4.8 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) compare
Pf6N2E2_5219 -2.3 -9.5 FIG140336: TPR domain protein compare
Pf6N2E2_5579 -2.2 -6.5 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf6N2E2_4585 -2.2 -10.8 Cell division protein FtsX compare
Pf6N2E2_3260 -2.2 -6.0 Uncharacterized ABC transporter, ATP-binding protein YrbF compare
Pf6N2E2_2258 -2.2 -10.5 Transaldolase (EC 2.2.1.2) compare
Pf6N2E2_622 -2.2 -5.0 BatA (Bacteroides aerotolerance operon) compare
Pf6N2E2_3984 -2.2 -11.0 T1SS associated transglutaminase-like cysteine proteinase LapP compare
Pf6N2E2_3248 -2.2 -5.0 Probable transmembrane protein compare
Pf6N2E2_5337 -2.2 -5.7 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
Pf6N2E2_2310 -2.2 -11.1 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) compare
Pf6N2E2_5252 -2.2 -3.0 FIG00956396: hypothetical protein compare
Pf6N2E2_1056 -2.2 -1.1 Quinone oxidoreductase (EC 1.6.5.5) compare
Pf6N2E2_2311 -2.2 -9.1 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) compare
Pf6N2E2_3833 -2.1 -4.1 hypothetical protein compare
Pf6N2E2_4974 -2.1 -8.3 DedA protein compare
Pf6N2E2_2526 -2.1 -5.1 Similar to phosphoglycolate phosphatase, clustered with ubiquinone biosynthesis SAM-dependent O-methyltransferase compare
Pf6N2E2_3835 -2.1 -4.7 Carboxyl-terminal protease (EC 3.4.21.102) compare
Pf6N2E2_4206 -2.1 -2.8 Chromosome (plasmid) partitioning protein ParB compare
Pf6N2E2_5727 -2.1 -6.4 FIG00955360: hypothetical protein compare
Pf6N2E2_3300 -2.1 -3.3 Predicted D-glucarate or D-galactorate regulator, GntR family compare
Pf6N2E2_2507 -2.0 -4.7 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) compare
Pf6N2E2_4059 -2.0 -1.5 DNA-binding protein HU-alpha compare
Pf6N2E2_2340 -2.0 -4.3 Transcriptional regulator, GntR family compare
Pf6N2E2_5331 -2.0 -6.8 ATPase, AFG1 family compare
Pf6N2E2_620 -2.0 -7.7 BatD compare
Pf6N2E2_3612 -2.0 -2.9 HflK protein compare
Pf6N2E2_2919 -1.9 -2.3 FIG00955830: hypothetical protein compare
Pf6N2E2_4351 -1.9 -8.8 Predicted signal transduction protein compare
Pf6N2E2_4810 -1.9 -6.8 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
Pf6N2E2_3613 -1.9 -7.2 GTP-binding protein HflX conserved
Pf6N2E2_302 -1.9 -4.9 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_510 -1.9 -11.1 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
Pf6N2E2_2277 -1.9 -2.4 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
Pf6N2E2_621 -1.9 -6.3 TPR domain protein in aerotolerance operon compare
Pf6N2E2_4762 -1.9 -2.6 Biotin synthesis protein BioH compare
Pf6N2E2_2756 -1.9 -5.2 RNA polymerase sigma-H factor AlgT compare
Pf6N2E2_5553 -1.8 -5.3 Quinolinate synthetase (EC 2.5.1.72) compare
Pf6N2E2_2852 -1.8 -7.9 GGDEF domain/EAL domain protein compare
Pf6N2E2_5316 -1.8 -2.6 Periplasmic thiol:disulfide oxidoreductase DsbB, required for DsbA reoxidation compare
Pf6N2E2_6058 -1.8 -5.6 FIG139976: hypothetical protein compare
Pf6N2E2_3763 -1.8 -2.0 hypothetical protein compare
Pf6N2E2_5255 -1.8 -8.1 Outer membrane stress sensor protease DegS compare
Pf6N2E2_2527 -1.8 -5.4 Oxidoreductase, short chain dehydrogenase/reductase family compare
Pf6N2E2_2926 -1.7 -6.5 ABC transporter for L-leucine/L-isoleucine/L-phenylalanine/D-alanine, ATPase component 2 LivF (from data) conserved
Pf6N2E2_5728 -1.7 -5.4 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
Pf6N2E2_4818 -1.7 -3.9 Spermidine Putrescine ABC transporter permease component potC (TC_3.A.1.11.1) compare
Pf6N2E2_2588 -1.6 -4.1 Anti-sigma F factor antagonist (spoIIAA-2); Anti-sigma B factor antagonist RsbV compare
Pf6N2E2_2925 -1.6 -3.2 ABC transporter for L-leucine/L-isoleucine/L-phenylalanine/D-alanine, ATPase component 1 LivG (from data) compare
Pf6N2E2_3460 -1.6 -2.3 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) compare
Pf6N2E2_2746 -1.6 -5.1 Outer membrane protein NlpB, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and YfgL); Lipoprotein-34 precursor compare
Pf6N2E2_65 -1.6 -5.4 SAM-dependent methyltransferase YafE (UbiE paralog) compare
Pf6N2E2_5111 -1.6 -3.7 FKBP-type peptidyl-prolyl cis-trans isomerase SlpA (EC 5.2.1.8) compare
Pf6N2E2_2923 -1.6 -8.3 ABC transporter for L-leucine/L-phenylalanine/D-alanine, permease component 1 LivH (from data) conserved
Pf6N2E2_3283 -1.5 -5.8 Cytoplasmic axial filament protein CafA and Ribonuclease G (EC 3.1.4.-) compare
Pf6N2E2_4009 -1.5 -7.8 GGDEF domain protein compare
Pf6N2E2_4478 -1.5 -4.8 FIG019278: hypothetical protein compare
Pf6N2E2_2073 -1.5 -6.5 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf6N2E2_2496 -1.5 -2.1 FIG00956575: hypothetical protein compare
Pf6N2E2_3885 -1.5 -2.5 3'(2'),5'-bisphosphate nucleotidase (EC 3.1.3.7) compare
Pf6N2E2_51 -1.5 -6.8 hypothetical protein compare
Pf6N2E2_2074 -1.4 -2.0 required for sulfate utilization, putative electron transport protein for sulfite reductase (from data) compare
Pf6N2E2_3655 -1.4 -8.3 Hypothetical protein FIG015671 in large core OS assembly cluster compare
Pf6N2E2_1723 -1.4 -3.2 Transcriptional regulator, TetR family compare
Pf6N2E2_5664 -1.4 -5.1 Arginine pathway regulatory protein ArgR, repressor of arg regulon compare
Pf6N2E2_2508 -1.4 -3.0 hypothetical protein compare
Pf6N2E2_2924 -1.4 -8.0 ABC transporter for L-leucine/L-isoleucine/L-phenylalanine/D-alanine, permease component 2 LivM (from data) conserved
Pf6N2E2_4277 -1.4 -8.3 LysR family transcriptional regulator PA5437 compare
Pf6N2E2_4817 -1.4 -10.3 Spermidine Putrescine ABC transporter permease component PotB (TC 3.A.1.11.1) compare
Pf6N2E2_4388 -1.4 -7.3 Gamma-glutamyl-putrescine oxidase (EC1.4.3.-) compare
Pf6N2E2_4205 -1.4 -4.4 Chromosome (plasmid) partitioning protein ParA compare
Pf6N2E2_5401 -1.4 -6.6 phospholipase/carboxylesterase family protein compare
Pf6N2E2_2513 -1.4 -1.5 UDP-glucose dehydrogenase (EC 1.1.1.22) compare
Pf6N2E2_4204 -1.3 -1.7 rRNA small subunit 7-methylguanosine (m7G) methyltransferase GidB compare
Pf6N2E2_4763 -1.3 -7.7 Biotin synthesis protein BioC compare
Pf6N2E2_4279 -1.3 -8.1 Pyruvate carboxyl transferase subunit B (EC 6.4.1.1) compare
Pf6N2E2_1298 -1.3 -4.6 Xanthine transporter,putative compare
Pf6N2E2_3664 -1.3 -5.6 Carbamoyltransferase in large core OS assembly cluster compare
Pf6N2E2_4145 -1.3 -2.9 ABC-type transport system involved in resistance to organic solvents, periplasmic component USSDB6C compare
Pf6N2E2_1821 -1.3 -2.2 Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system compare
Pf6N2E2_4067 -1.3 -7.3 Phosphate regulon sensor protein PhoR (SphS) (EC 2.7.13.3) compare
Pf6N2E2_4631 -1.3 -7.4 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62) compare
Pf6N2E2_5339 -1.3 -4.4 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
Pf6N2E2_2309 -1.3 -2.0 hypothetical protein compare
Pf6N2E2_5573 -1.3 -3.5 Glycerol-3-phosphate regulon repressor, DeoR family compare
Pf6N2E2_4803 -1.3 -1.6 Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41) compare
Pf6N2E2_3659 -1.3 -3.8 Protein fixF compare
Pf6N2E2_3379 -1.3 -8.2 Lactate-responsive regulator LldR in Enterobacteria, GntR family compare
Pf6N2E2_3170 -1.2 -2.8 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf6N2E2_3656 -1.2 -3.3 Probable transcription regulator Mig-14 compare
Pf6N2E2_3576 -1.2 -6.6 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) conserved
Pf6N2E2_2178 -1.2 -4.9 FIG00960144: hypothetical protein compare
Pf6N2E2_4278 -1.2 -7.9 Pyruvate carboxyl transferase subunit A (EC 6.4.1.1) compare
Pf6N2E2_6059 -1.2 -4.0 FIG008443: hypothetical protein compare
Pf6N2E2_3346 -1.2 -4.8 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
Pf6N2E2_2438 -1.2 -1.6 hypothetical protein compare
Pf6N2E2_888 -1.2 -3.7 Enoyl-CoA hydratase (EC 4.2.1.17) compare
Pf6N2E2_5865 -1.2 -6.9 Chaperone protein HtpG compare
Pf6N2E2_2764 -1.2 -7.1 Tricarboxylate transport sensor protein TctE compare
Pf6N2E2_5242 -1.2 -1.8 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf6N2E2_5646 -1.2 -1.2 PROBABLE MEMBRANE PROTEIN compare
Pf6N2E2_2474 -1.2 -6.5 ErfK/YbiS/YcfS/YnhG family protein compare
Pf6N2E2_248 -1.1 -4.9 hypothetical protein compare


Specific Phenotypes

For 33 genes in this experiment

For carbon source D-Alanine in Pseudomonas fluorescens FW300-N2E2

For carbon source D-Alanine across organisms