Experiment set1S455 for Variovorax sp. SCN45

Compare to:

M9 with calcium pantothenate 10 mg/mL

200 most important genes:

  gene name fitness t score description  
GFF372 -5.2 -3.6 PMID: 11481431 compare
GFF5158 -4.9 -6.7 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF6022 -4.9 -5.8 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF5076 -4.8 -11.6 hypothetical protein compare
GFF6878 -4.5 -8.1 hypothetical protein compare
GFF4625 -4.5 -5.3 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF6876 -4.3 -11.1 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF4626 -4.2 -6.4 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF5267 -4.0 -2.8 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF244 -4.0 -3.9 Cys regulon transcriptional activator CysB compare
GFF2627 -3.9 -4.7 Chorismate synthase (EC 4.2.3.5) compare
GFF5261 -3.9 -8.2 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF6875 -3.8 -4.6 hypothetical protein compare
GFF5896 -3.8 -7.2 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF2847 -3.7 -3.6 histone-like nucleoid-structuring protein H-NS compare
GFF6512 -3.5 -2.4 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF408 -3.5 -2.4 Two-component system response regulator OmpR compare
GFF3265 -3.4 -3.3 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF944 -3.3 -3.9 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF6182 -3.3 -3.9 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF3838 -3.1 -16.7 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF3089 -3.1 -2.9 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF6042 -3.1 -3.6 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF6513 -3.0 -6.9 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF5513 -2.9 -2.8 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF239 -2.9 -2.7 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF4724 -2.9 -6.8 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF1756 -2.8 -2.6 hypothetical protein compare
GFF3888 -2.6 -6.9 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF5325 -2.6 -2.5 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF3889 -2.6 -3.0 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF5118 -2.5 -4.4 gluconolactonase family protein compare
GFF3890 -2.5 -4.7 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF2515 -2.5 -3.6 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF1206 -2.4 -9.0 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF966 -2.4 -8.6 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF302 -2.4 -2.3 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5666 -2.3 -4.4 Prevent host death protein, Phd antitoxin compare
GFF5627 -2.3 -7.8 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF1106 -2.3 -3.9 UvrD/REP helicase compare
GFF3600 -2.3 -2.2 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF967 -2.3 -14.3 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF5523 -2.2 -1.5 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF409 -2.2 -5.6 Osmolarity sensory histidine kinase EnvZ compare
GFF243 -2.2 -5.5 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF5065 -2.2 -1.5 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF5307 -2.1 -4.8 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF1324 -2.1 -2.8 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF2463 -2.1 -1.9 Response regulator BaeR compare
GFF2659 -2.1 -2.1 Electron transfer flavoprotein, alpha subunit compare
GFF339 -2.0 -4.4 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF255 -2.0 -3.0 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF5324 -2.0 -2.7 Shikimate kinase I (EC 2.7.1.71) compare
GFF5739 -2.0 -1.9 Flagellar biosynthesis protein FliQ compare
GFF7295 -2.0 -5.9 HPr kinase/phosphorylase compare
GFF4215 -1.9 -2.6 L-amino acid ABC transporter (Glu/Asp/His/...), permease protein 1 AapQ compare
GFF5317 -1.9 -2.1 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF6263 -1.9 -1.2 Uncharacterized protein Atu0170, clustered with phosphonate utilization compare
GFF968 -1.9 -3.4 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF1205 -1.8 -5.2 Oxidoreductase probably involved in sulfite reduction compare
GFF5509 -1.8 -3.6 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF3941 -1.8 -2.6 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF2574 -1.7 -6.3 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF6250 -1.7 -9.0 Glutamate--cysteine ligase-like protein YbdK compare
GFF5246 -1.6 -8.9 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF865 -1.6 -2.2 hypothetical protein compare
GFF2142 -1.6 -1.4 Glutathione S-transferase (EC 2.5.1.18) compare
GFF4447 -1.6 -6.9 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF5333 -1.6 -2.5 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF5512 -1.5 -2.8 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF3264 -1.5 -4.1 Methionine biosynthesis protein MetW compare
GFF3360 -1.5 -2.4 no description compare
GFF5981 -1.5 -1.8 COGs COG3558 compare
GFF4352 -1.5 -1.5 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) compare
GFF2730 -1.4 -3.2 DNA topoisomerase IV subunit A (EC 5.99.1.3) compare
GFF371 -1.4 -2.7 RNA-binding protein YhbY compare
GFF4482 -1.4 -2.6 Transcriptional regulator MraZ compare
GFF4748 -1.4 -2.4 Triosephosphate isomerase (EC 5.3.1.1) compare
GFF2107 -1.4 -2.9 no description compare
GFF6700 -1.4 -3.2 Single-stranded-DNA-specific exonuclease RecJ compare
GFF2575 -1.4 -9.2 Quinolinate synthetase (EC 2.5.1.72) compare
GFF6036 -1.4 -5.5 DNA translocase FtsK compare
GFF1047 -1.4 -8.2 hypothetical protein compare
GFF4606 -1.4 -1.4 3-ketoacyl-CoA thiolase [fadN-fadA-fadE operon] (EC 2.3.1.16) compare
GFF272 -1.4 -2.0 thioesterase superfamily protein compare
GFF489 -1.3 -3.9 ATP-dependent Clp protease proteolytic subunit ClpP (EC 3.4.21.92) compare
GFF7380 -1.3 -7.6 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF291 -1.3 -6.1 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF2128 -1.3 -5.2 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF1105 -1.3 -2.5 Helicase compare
GFF1594 -1.3 -3.5 Antitoxin DinJ (binds YafQ toxin) compare
GFF946 -1.3 -2.6 Iron-sulfur cluster regulator IscR compare
GFF168 -1.3 -4.7 MCP methyltransferase, CheR-type compare
GFF6591 -1.3 -4.0 Transcriptional regulator, GntR family compare
GFF6249 -1.2 -5.9 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF2191 -1.2 -2.5 Pca operon transcriptional activator PcaQ compare
GFF2698 -1.2 -1.8 Transcriptional regulator, LysR family compare
GFF5877 -1.2 -3.3 Probable proline rich signal peptide protein compare
GFF7178 -1.2 -2.1 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF6570 -1.2 -2.2 hypothetical protein compare
GFF292 -1.2 -9.6 Tol-Pal system beta propeller repeat protein TolB compare
GFF5057 -1.2 -10.2 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF821 -1.2 -2.3 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF2300 -1.2 -7.0 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF6694 -1.1 -2.4 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF5266 -1.1 -6.9 Transaldolase (EC 2.2.1.2) compare
GFF270 -1.1 -8.3 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF1869 -1.1 -1.4 no description compare
GFF2273 -1.1 -3.7 Transcriptional regulator, AcrR family compare
GFF7059 -1.1 -1.5 Zinc uptake regulation protein Zur compare
GFF1204 -1.1 -4.4 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF4462 -1.1 -1.6 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF3125 -1.1 -3.2 no description compare
GFF487 -1.1 -6.1 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF6003 -1.1 -2.3 no description compare
GFF5941 -1.0 -1.3 hypothetical protein compare
GFF5412 -1.0 -6.1 no description compare
GFF3928 -1.0 -1.6 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF2297 -1.0 -7.6 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF5156 -1.0 -8.9 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF3451 -1.0 -1.2 no description compare
GFF2251 -1.0 -1.9 no description compare
GFF2304 -1.0 -6.2 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF6383 -1.0 -1.3 FIG00440100: hypothetical protein compare
GFF1202 -1.0 -5.1 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) compare
GFF2302 -1.0 -5.8 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF2298 -1.0 -8.6 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF3651 -1.0 -1.4 PTS system, IIA component compare
GFF1542 -1.0 -2.2 Anti-sigma B factor RsbT / Phosphoserine phosphatase RsbX (EC 3.1.3.3) compare
GFF570 -1.0 -1.6 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) / GTP cyclohydrolase II (EC 3.5.4.25) compare
GFF2056 -1.0 -2.4 Septum-associated rare lipoprotein A compare
GFF3369 -1.0 -1.6 1,4-dihydroxy-2-naphthoyl-CoA hydrolase (EC 3.1.2.28) in menaquinone biosynthesis compare
GFF1203 -1.0 -5.0 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF2306 -0.9 -5.4 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF6465 -0.9 -1.9 hypothetical protein compare
GFF2307 -0.9 -4.7 Heme O synthase, protoheme IX farnesyltransferase, COX10-CtaB compare
GFF4490 -0.9 -4.2 Site-specific tyrosine recombinase XerC compare
GFF4416 -0.9 -1.8 Conjugative transfer protein TrbD compare
GFF4623 -0.9 -3.2 Transcriptional regulator, AcrR family compare
GFF5411 -0.9 -6.2 CAMP phosphodiesterases class-II:Metallo-beta-lactamase superfamily compare
GFF2819 -0.9 -1.7 Phosphoenolpyruvate synthase regulatory protein compare
GFF3825 -0.9 -3.1 Autolysin sensor kinase (EC 2.7.3.-) compare
GFF1684 -0.9 -1.7 no description compare
GFF7345 -0.9 -1.3 Periplasmic aromatic aldehyde oxidoreductase, iron-sulfur subunit YagT compare
GFF2073 -0.9 -2.6 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF6293 -0.9 -3.1 Periplasmic thiol:disulfide interchange protein DsbA compare
GFF2104 -0.9 -1.4 3-hydroxyacyl-CoA dehydrogenase [isoleucine degradation] (EC 1.1.1.35) compare
GFF3870 -0.9 -3.2 Ribonuclease III (EC 3.1.26.3) compare
GFF7188 -0.9 -2.0 Uncharacterized methyltransferase PA1407 compare
GFF6116 -0.9 -2.1 MlrC compare
GFF5369 -0.9 -1.8 Large-conductance mechanosensitive channel compare
GFF3406 -0.9 -5.8 Benzoyl-CoA oxygenase component A compare
GFF733 -0.9 -1.2 no description compare
GFF6996 -0.9 -1.1 Flagellar hook-basal body complex protein FliE compare
GFF1119 -0.9 -2.5 Ribonuclease HI (EC 3.1.26.4) compare
GFF6934 -0.8 -2.4 Universal stress protein family compare
GFF575 -0.8 -5.2 Tol-Pal system protein TolQ compare
GFF576 -0.8 -2.0 Tol biopolymer transport system, TolR protein compare
GFF3767 -0.8 -1.2 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases compare
GFF1931 -0.8 -2.2 RTX toxin transporter, determinant D compare
GFF4560 -0.8 -0.9 hypothetical protein compare
GFF2573 -0.8 -5.1 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
GFF2429 -0.8 -1.7 putative membrane protein compare
GFF6121 -0.8 -1.0 FIG003461: hypothetical protein compare
GFF2222 -0.8 -1.7 ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF1782 -0.8 -2.9 integral membrane sensor signal transduction histidine kinase compare
GFF497 -0.8 -3.3 Phytoene synthase (EC 2.5.1.32) compare
GFF3229 -0.8 -1.6 hypothetical protein compare
GFF2719 -0.8 -1.1 ABC transporter, substrate-binding protein (cluster 3, basic aa/glutamine/opines) compare
GFF6932 -0.8 -1.9 no description compare
GFF819 -0.8 -2.2 Uncharacterized protein CC_2099 compare
GFF6982 -0.8 -1.5 hypothetical protein compare
GFF3660 -0.8 -5.3 integral membrane sensor signal transduction histidine kinase compare
GFF4766 -0.8 -1.2 identified by similarity to GB:AAK22812.1; match to protein family HMM PF06676 compare
GFF3826 -0.8 -4.3 Response regulator receiver:LytTr DNA-binding region compare
GFF6959 -0.8 -0.5 Putative analog of CcoH, COG3198 compare
GFF2853 -0.8 -2.0 DNA-binding protein HU-beta compare
GFF5289 -0.8 -1.3 hypothetical protein compare
GFF2734 -0.8 -3.7 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF5746 -0.8 -1.4 Flagellar protein FliJ compare
GFF6379 -0.8 -1.7 ABC transporter, ATP-binding protein 2 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF273 -0.8 -4.0 Transcriptional regulator, Xre family compare
GFF2027 -0.7 -5.2 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF2182 -0.7 -4.9 Inner membrane component of TAM transport system compare
GFF5332 -0.7 -6.9 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
GFF3723 -0.7 -5.3 Cytochrome c5 compare
GFF6696 -0.7 -4.4 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF4024 -0.7 -2.5 Transcriptional regulator, MerR family compare
GFF6094 -0.7 -2.0 1,2-phenylacetyl-CoA epoxidase, subunit B (EC 1.14.13.149) compare
GFF6161 -0.7 -1.2 Hydroxymethylpyrimidine ABC transporter, ATPase component compare
GFF6294 -0.7 -2.2 Cell division protein compare
GFF7391 -0.7 -2.2 hypothetical protein compare
GFF2341 -0.7 -1.0 ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) compare
GFF2520 -0.7 -4.5 UPF0053 inner membrane protein YtfL compare
GFF5320 -0.7 -4.3 Type IV pilus biogenesis protein PilN compare
GFF4005 -0.7 -2.3 hypothetical protein compare
GFF269 -0.7 -2.8 2-methylaconitate isomerase compare
GFF4530 -0.7 -4.6 MBL-fold metallo-hydrolase superfamily compare
GFF6695 -0.7 -5.0 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF5322 -0.7 -4.3 Type IV pilus biogenesis protein PilP compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms