Experiment set1S438 for Variovorax sp. SCN45

Compare to:

M9 with calcium pantothenate 10 mg/mL and thiamine HCl 2 mg/mL

200 most important genes:

  gene name fitness t score description  
GFF5158 -4.3 -7.2 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF2515 -4.3 -3.0 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF5324 -4.2 -2.9 Shikimate kinase I (EC 2.7.1.71) compare
GFF3265 -4.2 -2.9 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF244 -3.9 -4.6 Cys regulon transcriptional activator CysB compare
GFF944 -3.8 -3.7 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF5118 -3.7 -4.3 gluconolactonase family protein compare
GFF255 -3.6 -3.4 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF5261 -3.4 -10.1 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF3890 -3.4 -4.6 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF2627 -3.2 -5.7 Chorismate synthase (EC 4.2.3.5) compare
GFF5896 -3.2 -9.1 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF3838 -3.1 -17.4 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF5267 -3.0 -4.5 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF302 -2.9 -2.0 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF6022 -2.9 -10.0 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF5325 -2.9 -2.8 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF3889 -2.8 -3.3 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF408 -2.8 -2.6 Two-component system response regulator OmpR compare
GFF5666 -2.7 -4.5 Prevent host death protein, Phd antitoxin compare
GFF1106 -2.7 -3.6 UvrD/REP helicase compare
GFF3941 -2.6 -1.8 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF4626 -2.6 -6.1 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF6182 -2.6 -5.1 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF6876 -2.6 -14.8 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF6512 -2.5 -2.4 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF4724 -2.5 -7.0 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF6878 -2.4 -15.8 hypothetical protein compare
GFF5513 -2.4 -2.8 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF3888 -2.4 -7.4 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF5076 -2.4 -13.5 hypothetical protein compare
GFF5509 -2.3 -3.6 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF6042 -2.3 -4.6 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF5065 -2.3 -1.6 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF946 -2.3 -4.7 Iron-sulfur cluster regulator IscR compare
GFF372 -2.3 -9.2 PMID: 11481431 compare
GFF3600 -2.2 -2.6 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF5307 -2.2 -5.4 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF3928 -2.2 -2.9 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF1324 -2.2 -2.9 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF3089 -2.1 -3.2 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF967 -2.1 -14.5 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF4625 -2.1 -6.4 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF1756 -2.1 -2.3 hypothetical protein compare
GFF6513 -2.1 -6.1 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF3264 -2.0 -5.9 Methionine biosynthesis protein MetW compare
GFF5523 -2.0 -1.9 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF966 -2.0 -8.3 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF1206 -2.0 -8.7 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF339 -2.0 -4.5 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF239 -2.0 -2.2 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF2847 -2.0 -1.6 histone-like nucleoid-structuring protein H-NS compare
GFF6875 -1.9 -7.5 hypothetical protein compare
GFF5512 -1.9 -3.4 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF1205 -1.9 -6.3 Oxidoreductase probably involved in sulfite reduction compare
GFF7178 -1.9 -1.9 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF5246 -1.8 -9.7 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF7264 -1.8 -2.7 Gluconolactonase (EC 3.1.1.17) compare
GFF1105 -1.8 -2.6 Helicase compare
GFF6700 -1.8 -3.7 Single-stranded-DNA-specific exonuclease RecJ compare
GFF1594 -1.8 -5.1 Antitoxin DinJ (binds YafQ toxin) compare
GFF6168 -1.8 -2.2 Na(+) H(+) antiporter subunit G compare
GFF7295 -1.7 -5.5 HPr kinase/phosphorylase compare
GFF2971 -1.7 -2.8 Transcriptional regulator, LysR family compare
GFF1603 -1.7 -1.7 Branched-chain amino acid ABC transporter, ATP-binding protein LivG (TC 3.A.1.4.1) compare
GFF2659 -1.7 -2.2 Electron transfer flavoprotein, alpha subunit compare
GFF5627 -1.7 -6.0 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF3651 -1.6 -1.8 PTS system, IIA component compare
GFF270 -1.6 -11.4 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF4482 -1.6 -4.2 Transcriptional regulator MraZ compare
GFF4462 -1.5 -2.2 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF2574 -1.5 -7.0 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF7380 -1.5 -7.8 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF4305 -1.5 -1.2 ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF6982 -1.5 -2.6 hypothetical protein compare
GFF168 -1.4 -4.9 MCP methyltransferase, CheR-type compare
GFF409 -1.4 -5.1 Osmolarity sensory histidine kinase EnvZ compare
GFF968 -1.4 -2.7 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF2090 -1.4 -3.7 Holliday junction ATP-dependent DNA helicase RuvB (EC 3.6.4.12) compare
GFF243 -1.4 -3.1 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF2575 -1.4 -9.1 Quinolinate synthetase (EC 2.5.1.72) compare
GFF5317 -1.4 -1.7 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF4530 -1.4 -8.9 MBL-fold metallo-hydrolase superfamily compare
GFF577 -1.4 -3.0 TolA protein compare
GFF6249 -1.4 -6.0 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF6250 -1.4 -8.8 Glutamate--cysteine ligase-like protein YbdK compare
GFF2128 -1.3 -6.2 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF2463 -1.3 -1.4 Response regulator BaeR compare
GFF2804 -1.2 -2.9 Membrane protein compare
GFF575 -1.2 -7.4 Tol-Pal system protein TolQ compare
GFF4216 -1.2 -1.3 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF4663 -1.2 -2.2 no description compare
GFF5057 -1.2 -10.1 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF487 -1.2 -6.8 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF273 -1.2 -5.4 Transcriptional regulator, Xre family compare
GFF5534 -1.2 -3.7 Queuine tRNA-ribosyltransferase (EC 2.4.2.29) compare
GFF5762 -1.2 -2.3 Flagellar motor rotation protein MotB compare
GFF269 -1.1 -5.1 2-methylaconitate isomerase compare
GFF7321 -1.1 -1.9 Sensor histidine kinase GlrK compare
GFF4447 -1.1 -6.5 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF7231 -1.1 -1.6 no description compare
GFF2073 -1.1 -3.4 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF1306 -1.1 -2.7 no description compare
GFF7059 -1.1 -1.6 Zinc uptake regulation protein Zur compare
GFF6036 -1.1 -4.9 DNA translocase FtsK compare
GFF7294 -1.1 -3.0 PTS IIA-like nitrogen-regulatory protein PtsN compare
GFF5156 -1.1 -9.3 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF6475 -1.1 -1.9 hypothetical protein compare
GFF5333 -1.1 -2.6 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF2273 -1.1 -3.8 Transcriptional regulator, AcrR family compare
GFF4991 -1.1 -1.4 Polyhydroxyalkanoate granule-associated protein PhaF compare
GFF272 -1.1 -1.8 thioesterase superfamily protein compare
GFF5266 -1.0 -7.2 Transaldolase (EC 2.2.1.2) compare
GFF5386 -1.0 -1.7 hypothetical protein compare
GFF2251 -1.0 -2.1 no description compare
GFF2329 -1.0 -1.2 Phosphoglycerate mutase (EC 5.4.2.11) compare
GFF3177 -1.0 -1.5 hypothetical protein compare
GFF2327 -1.0 -3.0 Hydrolase, alpha/beta fold family compare
GFF6087 -1.0 -5.4 Transcriptional regulator, AcrR family compare
GFF2987 -1.0 -3.6 CBS domain protein compare
GFF576 -1.0 -2.4 Tol biopolymer transport system, TolR protein compare
GFF3584 -1.0 -1.3 hypothetical protein compare
GFF4107 -1.0 -1.6 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF1529 -1.0 -1.4 Transcriptional regulator, AcrR family compare
GFF2300 -1.0 -5.3 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF291 -1.0 -5.1 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF1856 -0.9 -2.5 FIG00636408: hypothetical protein compare
GFF6246 -0.9 -3.7 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF3146 -0.9 -1.8 no description compare
GFF5424 -0.9 -0.9 Membrane protein TerC, possibly involved in tellurium resistance compare
GFF1869 -0.9 -1.6 no description compare
GFF5941 -0.9 -1.2 hypothetical protein compare
GFF6378 -0.9 -1.5 Nicotinamidase (EC 3.5.1.19) compare
GFF6742 -0.9 -2.3 NAD(P)H-flavin oxidoreductase compare
GFF3510 -0.9 -1.5 Multidrug efflux system, membrane fusion component => MexH of MexHI-OpmD system compare
GFF1203 -0.9 -4.7 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF292 -0.9 -7.1 Tol-Pal system beta propeller repeat protein TolB compare
GFF3715 -0.9 -1.2 Probable malonic semialdehyde reductase RutE (EC 1.1.1.298) compare
GFF2027 -0.9 -5.5 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF3870 -0.9 -3.8 Ribonuclease III (EC 3.1.26.3) compare
GFF2297 -0.8 -6.2 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF3450 -0.8 -2.0 Transcriptional regulator, LacI family compare
GFF2302 -0.8 -5.2 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF305 -0.8 -4.9 uncharacterized domain / RidA/YER057c/UK114 superfamily, group 5 compare
GFF1204 -0.8 -3.3 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF3406 -0.8 -5.3 Benzoyl-CoA oxygenase component A compare
GFF268 -0.8 -4.2 Carboxyvinyl-carboxyphosphonate phosphorylmutase (EC 2.7.8.23) compare
GFF2508 -0.8 -6.6 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
GFF2698 -0.8 -1.5 Transcriptional regulator, LysR family compare
GFF5322 -0.8 -5.1 Type IV pilus biogenesis protein PilP compare
GFF2151 -0.8 -5.4 twitching motility protein PilG compare
GFF5090 -0.8 -1.7 Homoprotocatechuate degradative operon repressor compare
GFF2014 -0.8 -1.8 hypothetical protein compare
GFF6290 -0.8 -6.6 RNA polymerase sigma-54 factor RpoN compare
GFF6360 -0.8 -1.2 FIG00432660: hypothetical protein compare
GFF2803 -0.8 -3.5 Alanine transaminase (EC 2.6.1.2) compare
GFF4708 -0.8 -1.4 Transcriptional regulator RSp1267, LysR family compare
GFF4224 -0.8 -3.1 Transcriptional regulator, AcrR family compare
GFF2609 -0.7 -2.4 Fructose ABC transporter, ATP-binding component FrcA compare
GFF3455 -0.7 -2.3 Two component response regulator associated with urea and amide use compare
GFF3825 -0.7 -3.1 Autolysin sensor kinase (EC 2.7.3.-) compare
GFF1600 -0.7 -1.1 Branched-chain amino acid ABC transporter, permease protein LivH (TC 3.A.1.4.1) compare
GFF6728 -0.7 -3.0 Probable VANILLIN dehydrogenase oxidoreductase protein (EC 1.-.-.-) compare
GFF2182 -0.7 -4.9 Inner membrane component of TAM transport system compare
GFF674 -0.7 -1.3 no description compare
GFF6638 -0.7 -4.4 no description compare
GFF2405 -0.7 -1.1 Peptide-methionine (R)-S-oxide reductase MsrB (EC 1.8.4.12) compare
GFF497 -0.7 -3.5 Phytoene synthase (EC 2.5.1.32) compare
GFF6694 -0.7 -1.5 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF6839 -0.7 -1.2 hypothetical protein compare
GFF6696 -0.7 -4.8 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF5412 -0.7 -4.0 no description compare
GFF163 -0.7 -1.9 no description compare
GFF4999 -0.7 -3.0 hypothetical protein compare
GFF4181 -0.7 -2.9 hypothetical protein compare
GFF2170 -0.7 -1.4 Branched-chain amino acid ABC transporter, ATP-binding protein LivF (TC 3.A.1.4.1) compare
GFF2164 -0.7 -3.4 Transcriptional regulator, IclR family compare
GFF3274 -0.7 -2.5 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases compare
GFF7044 -0.7 -1.7 Inner membrane protein YedI compare
GFF5310 -0.7 -4.5 Cytochrome c4 compare
GFF685 -0.7 -2.2 Tricarboxylate transport protein TctC compare
GFF5321 -0.7 -5.3 Type IV pilus biogenesis protein PilO compare
GFF1775 -0.7 -1.7 no description compare
GFF3403 -0.7 -3.1 Benzoate catabolism regulator with shikimate kinase domain compare
GFF6862 -0.7 -3.1 Two-component system sensor histidine kinase compare
GFF7105 -0.7 -1.6 Homoprotocatechuate degradative operon repressor compare
GFF2231 -0.7 -1.3 3-oxoadipate CoA-transferase subunit B (EC 2.8.3.6) compare
GFF6999 -0.7 -1.0 Flagellar P-ring protein FlgI compare
GFF33 -0.7 -5.4 Type IV pilus biogenesis protein PilZ compare
GFF6639 -0.7 -4.2 no description compare
GFF5792 -0.7 -1.6 Mg2+ and Co2+ transporters compare
GFF4790 -0.7 -3.3 Nudix-related transcriptional regulator NrtR compare
GFF731 -0.7 -1.6 Transcriptional regulator, ArsR family compare
GFF2306 -0.7 -4.5 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF3402 -0.7 -1.8 no description compare
GFF4070 -0.7 -1.7 no description compare
GFF5490 -0.7 -5.6 Uncharacterized protein with LysM domain, COG1652 compare
GFF2973 -0.7 -0.9 Transcriptional regulator compare
GFF1356 -0.7 -1.6 Putative manganese efflux pump MntP compare
GFF5876 -0.7 -3.6 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms