Experiment set1S456 for Variovorax sp. SCN45

Compare to:

M9 with calcium pantothenate 10 mg/mL

200 most important genes:

  gene name fitness t score description  
GFF944 -4.0 -2.8 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF5324 -3.8 -2.6 Shikimate kinase I (EC 2.7.1.71) compare
GFF5158 -3.6 -5.7 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF5896 -3.5 -7.5 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF2627 -3.3 -4.5 Chorismate synthase (EC 4.2.3.5) compare
GFF6512 -3.3 -2.3 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF5261 -3.1 -8.8 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF3890 -3.0 -4.0 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF5267 -2.9 -3.4 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF5941 -2.9 -1.9 hypothetical protein compare
GFF6182 -2.9 -4.0 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF3889 -2.8 -3.3 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF244 -2.7 -5.2 Cys regulon transcriptional activator CysB compare
GFF3838 -2.7 -14.7 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF5512 -2.6 -2.5 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF6022 -2.5 -8.3 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF946 -2.5 -4.0 Iron-sulfur cluster regulator IscR compare
GFF1105 -2.4 -3.3 Helicase compare
GFF5325 -2.4 -2.3 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF6042 -2.4 -3.9 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF409 -2.4 -5.4 Osmolarity sensory histidine kinase EnvZ compare
GFF4626 -2.3 -5.9 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF1206 -2.3 -8.4 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF3600 -2.3 -1.6 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF3265 -2.3 -2.9 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF1756 -2.3 -2.1 hypothetical protein compare
GFF302 -2.2 -2.1 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5307 -2.2 -4.4 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF4625 -2.2 -5.8 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF2971 -2.2 -2.9 Transcriptional regulator, LysR family compare
GFF5118 -2.1 -3.5 gluconolactonase family protein compare
GFF3888 -2.1 -5.7 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF5509 -2.1 -2.9 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF5513 -2.1 -2.8 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF3941 -2.1 -2.0 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF3451 -2.0 -1.7 no description compare
GFF239 -2.0 -2.4 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF5523 -2.0 -1.4 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF966 -2.0 -7.7 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF2515 -2.0 -3.1 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF3264 -2.0 -4.9 Methionine biosynthesis protein MetW compare
GFF5065 -2.0 -1.3 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF1106 -1.9 -3.3 UvrD/REP helicase compare
GFF576 -1.9 -4.5 Tol biopolymer transport system, TolR protein compare
GFF372 -1.9 -6.8 PMID: 11481431 compare
GFF7295 -1.9 -5.2 HPr kinase/phosphorylase compare
GFF6876 -1.9 -11.1 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF3510 -1.8 -2.1 Multidrug efflux system, membrane fusion component => MexH of MexHI-OpmD system compare
GFF255 -1.8 -2.9 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF1324 -1.8 -2.7 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF5076 -1.8 -9.2 hypothetical protein compare
GFF5988 -1.8 -1.4 Sensory histidine kinase BaeS compare
GFF6555 -1.8 -1.8 no description compare
GFF967 -1.8 -12.0 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF2730 -1.7 -3.1 DNA topoisomerase IV subunit A (EC 5.99.1.3) compare
GFF4724 -1.7 -4.4 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF6513 -1.7 -5.5 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF291 -1.6 -7.1 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF2804 -1.6 -3.1 Membrane protein compare
GFF5666 -1.6 -3.5 Prevent host death protein, Phd antitoxin compare
GFF1475 -1.6 -1.7 no description compare
GFF2847 -1.6 -2.3 histone-like nucleoid-structuring protein H-NS compare
GFF5627 -1.6 -6.1 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF968 -1.5 -2.5 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF577 -1.5 -2.5 TolA protein compare
GFF4447 -1.5 -7.0 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF3160 -1.5 -2.4 Transcriptional regulator YeiE, LysR family compare
GFF3152 -1.4 -3.4 hypothetical protein compare
GFF5369 -1.4 -2.4 Large-conductance mechanosensitive channel compare
GFF44 -1.4 -1.7 hypothetical protein compare
GFF2073 -1.4 -3.4 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF6246 -1.4 -3.7 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF2125 -1.4 -3.5 hypothetical protein compare
GFF168 -1.4 -5.2 MCP methyltransferase, CheR-type compare
GFF4210 -1.3 -2.1 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases compare
GFF339 -1.3 -3.2 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF4462 -1.3 -1.8 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF2659 -1.3 -2.3 Electron transfer flavoprotein, alpha subunit compare
GFF6875 -1.3 -5.4 hypothetical protein compare
GFF1047 -1.3 -7.3 hypothetical protein compare
GFF4364 -1.3 -2.5 Transcriptional regulator, LysR family compare
GFF7250 -1.2 -1.0 Putative transposase InsK for insertion sequence element IS150 compare
GFF89 -1.2 -1.8 hypothetical protein compare
GFF5690 -1.2 -2.1 Glutamate/aspartate ABC transporter, ATP-binding protein GltL (TC 3.A.1.3.4) compare
GFF5246 -1.2 -7.5 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF5266 -1.2 -6.6 Transaldolase (EC 2.2.1.2) compare
GFF3050 -1.2 -1.9 Lactam utilization protein LamB compare
GFF3089 -1.2 -2.1 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF6249 -1.2 -5.4 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF2734 -1.2 -5.1 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF6293 -1.2 -3.2 Periplasmic thiol:disulfide interchange protein DsbA compare
GFF2819 -1.2 -2.5 Phosphoenolpyruvate synthase regulatory protein compare
GFF674 -1.2 -1.6 no description compare
GFF5057 -1.2 -9.0 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF408 -1.1 -1.5 Two-component system response regulator OmpR compare
GFF2575 -1.1 -7.8 Quinolinate synthetase (EC 2.5.1.72) compare
GFF5841 -1.1 -1.2 Auxin efflux carrier family protein compare
GFF5333 -1.1 -1.6 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF1751 -1.1 -1.9 Rhodanese-related sulfurtransferase, 4 domains compare
GFF2574 -1.1 -5.6 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF1778 -1.1 -3.1 Transcriptional regulator, HxlR family compare
GFF7044 -1.1 -1.4 Inner membrane protein YedI compare
GFF4766 -1.1 -1.4 identified by similarity to GB:AAK22812.1; match to protein family HMM PF06676 compare
GFF487 -1.1 -6.0 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF23 -1.1 -1.7 no description compare
GFF497 -1.1 -4.6 Phytoene synthase (EC 2.5.1.32) compare
GFF2431 -1.1 -2.8 RNA polymerase ECF-type sigma factor compare
GFF4725 -1.1 -4.9 Anthranilate phosphoribosyltransferase-like protein compare
GFF7195 -1.1 -1.8 Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) compare
GFF4606 -1.1 -1.1 3-ketoacyl-CoA thiolase [fadN-fadA-fadE operon] (EC 2.3.1.16) compare
GFF5030 -1.1 -1.2 no description compare
GFF3401 -1.1 -1.0 P-hydroxylaminobenzoate lyase compare
GFF5122 -1.1 -1.2 AAA+ ATPase superfamily protein YifB/ComM, associated with DNA recombination compare
GFF4033 -1.1 -1.6 no description compare
GFF1205 -1.0 -4.2 Oxidoreductase probably involved in sulfite reduction compare
GFF292 -1.0 -7.8 Tol-Pal system beta propeller repeat protein TolB compare
GFF6992 -1.0 -1.5 Flagellum-specific ATP synthase FliI compare
GFF4748 -1.0 -1.8 Triosephosphate isomerase (EC 5.3.1.1) compare
GFF1869 -1.0 -1.3 no description compare
GFF570 -1.0 -1.1 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) / GTP cyclohydrolase II (EC 3.5.4.25) compare
GFF4322 -1.0 -1.4 Acyl-CoA dehydrogenase compare
GFF2273 -1.0 -3.1 Transcriptional regulator, AcrR family compare
GFF5981 -1.0 -1.2 COGs COG3558 compare
GFF6036 -1.0 -4.2 DNA translocase FtsK compare
GFF4070 -1.0 -2.9 no description compare
GFF807 -1.0 -2.7 FIG00003370: Multicopper polyphenol oxidase compare
GFF575 -1.0 -5.6 Tol-Pal system protein TolQ compare
GFF3705 -1.0 -1.0 Amidases related to nicotinamidase compare
GFF6878 -1.0 -6.3 hypothetical protein compare
GFF865 -1.0 -0.8 hypothetical protein compare
GFF1782 -1.0 -2.0 integral membrane sensor signal transduction histidine kinase compare
GFF5877 -0.9 -2.6 Probable proline rich signal peptide protein compare
GFF5104 -0.9 -1.7 2-dehydropantoate 2-reductase (EC 1.1.1.169) compare
GFF7053 -0.9 -1.7 Transcriptional regulator, LysR family compare
GFF6696 -0.9 -5.7 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF6379 -0.9 -1.9 ABC transporter, ATP-binding protein 2 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF4640 -0.9 -7.4 hypothetical protein compare
GFF7380 -0.9 -5.5 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF5317 -0.9 -1.1 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF4790 -0.9 -3.3 Nudix-related transcriptional regulator NrtR compare
GFF163 -0.9 -2.2 no description compare
GFF6360 -0.9 -0.8 FIG00432660: hypothetical protein compare
GFF4456 -0.9 -4.3 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF5774 -0.9 -1.7 RNA polymerase sigma factor for flagellar operon compare
GFF1871 -0.9 -2.7 Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.8.1) compare
GFF6869 -0.9 -3.7 no description compare
GFF4482 -0.9 -1.9 Transcriptional regulator MraZ compare
GFF643 -0.9 -1.2 no description compare
GFF2183 -0.9 -6.0 Outer membrane component of TAM transport system compare
GFF1884 -0.9 -1.9 Gluconokinase (EC 2.7.1.12) compare
GFF6694 -0.9 -1.8 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF1213 -0.9 -2.4 Oligopeptide transport permease protein OppB-like @ Glutathione ABC transporter, permease protein GsiC compare
GFF5778 -0.9 -1.7 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
GFF2128 -0.9 -3.7 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF1021 -0.8 -2.9 Transcriptional regulator, Xre-family with cupin domain compare
GFF3980 -0.8 -1.2 3-phenylpropionate dioxygenase beta subunit (EC 1.14.1.-) compare
GFF2300 -0.8 -5.4 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF5876 -0.8 -4.4 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF6250 -0.8 -5.7 Glutamate--cysteine ligase-like protein YbdK compare
GFF4792 -0.8 -1.9 PhnB protein compare
GFF243 -0.8 -2.0 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF1865 -0.8 -1.4 Transcriptional regulator, AraC family compare
GFF270 -0.8 -6.2 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF3870 -0.8 -3.1 Ribonuclease III (EC 3.1.26.3) compare
GFF2304 -0.8 -5.5 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF3790 -0.8 -2.2 Formyltetrahydrofolate deformylase (EC 3.5.1.10) compare
GFF5075 -0.8 -1.4 Two-component system sensor histidine kinase Dtpsy_0212 compare
GFF1742 -0.8 -0.8 hypothetical protein compare
GFF784 -0.8 -1.0 KEGG: RNA polymerase sigma-70 factor, ECF subfamily compare
GFF6523 -0.8 -1.2 hypothetical protein compare
GFF4298 -0.8 -1.0 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase compare
GFF2381 -0.8 -1.6 Ribonuclease PH (EC 2.7.7.56) compare
GFF1535 -0.8 -1.6 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF4454 -0.8 -2.8 Exoribonuclease II (EC 3.1.13.1) compare
GFF4250 -0.8 -2.4 Transcriptional regulator, AcrR family compare
GFF6786 -0.8 -1.2 CopG protein compare
GFF4270 -0.8 -1.9 Transcriptional regulator, AcrR family compare
GFF6996 -0.8 -1.0 Flagellar hook-basal body complex protein FliE compare
GFF629 -0.8 -1.2 hypothetical protein compare
GFF733 -0.8 -1.2 no description compare
GFF3177 -0.8 -1.1 hypothetical protein compare
GFF6465 -0.8 -1.5 hypothetical protein compare
GFF2027 -0.8 -4.9 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF1490 -0.8 -2.4 Transcriptional regulator, LysR family compare
GFF4878 -0.8 -1.7 putative lipoprotein compare
GFF273 -0.8 -4.0 Transcriptional regulator, Xre family compare
GFF5749 -0.8 -1.9 Flagellar motor switch protein FliG compare
GFF1856 -0.8 -1.1 FIG00636408: hypothetical protein compare
GFF6168 -0.8 -0.8 Na(+) H(+) antiporter subunit G compare
GFF6003 -0.8 -1.9 no description compare
GFF2182 -0.8 -5.2 Inner membrane component of TAM transport system compare
GFF4839 -0.8 -1.6 Transcriptional regulator PA2737, MerR family compare
GFF1256 -0.7 -0.7 Probable NADH dehydrogenase/NAD(P)H nitroreductase compare
GFF1204 -0.7 -3.0 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF5195 -0.7 -1.7 L-arabinose ABC transporter, ATP-binding protein AraG compare
GFF5903 -0.7 -2.6 Iron-sulfur cluster regulator IscR compare
GFF6440 -0.7 -1.4 Molybdate-binding domain of ModE compare
GFF1858 -0.7 -0.9 ABC transporter, ATP-binding protein (cluster 3, basic aa/glutamine/opines) compare
GFF4099 -0.7 -1.5 Ser/Thr protein phosphatase family protein compare
GFF1252 -0.7 -1.6 Alkanesulfonate ABC transporter permease protein SsuC compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms