Experiment set2S378 for Variovorax sp. SCN45

Compare to:

no phage control

200 most important genes:

  gene name fitness t score description  
GFF239 -4.4 -3.0 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF2836 -3.5 -4.7 MotA/TolQ/ExbB proton channel family protein compare
GFF6042 -3.5 -5.7 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF944 -3.2 -3.1 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF2835 -3.2 -4.3 putative TonB-dependent receptor compare
GFF7294 -3.2 -3.7 PTS IIA-like nitrogen-regulatory protein PtsN compare
GFF3889 -3.0 -2.8 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF255 -3.0 -3.4 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF3888 -2.9 -6.2 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF2627 -2.9 -5.7 Chorismate synthase (EC 4.2.3.5) compare
GFF2344 -2.8 -4.5 ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines) compare
GFF5065 -2.8 -1.9 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF3651 -2.8 -2.6 PTS system, IIA component compare
GFF6512 -2.6 -3.0 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF3928 -2.5 -2.8 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF5325 -2.4 -2.3 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF3941 -2.4 -1.6 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF5307 -2.3 -4.4 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF3600 -2.3 -3.8 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF5523 -2.3 -1.5 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF3890 -2.1 -3.5 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF2730 -2.1 -4.2 DNA topoisomerase IV subunit A (EC 5.99.1.3) compare
GFF5424 -2.1 -2.4 Membrane protein TerC, possibly involved in tellurium resistance compare
GFF5324 -2.0 -3.3 Shikimate kinase I (EC 2.7.1.71) compare
GFF5317 -2.0 -2.3 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF7295 -2.0 -4.9 HPr kinase/phosphorylase compare
GFF240 -2.0 -10.4 Cytosol aminopeptidase PepA (EC 3.4.11.1) compare
GFF1324 -2.0 -4.1 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF2949 -1.9 -2.7 no description compare
GFF489 -1.9 -6.3 ATP-dependent Clp protease proteolytic subunit ClpP (EC 3.4.21.92) compare
GFF5491 -1.9 -6.2 Peptide deformylase (EC 3.5.1.88) compare
GFF4454 -1.8 -6.3 Exoribonuclease II (EC 3.1.13.1) compare
GFF1119 -1.8 -5.1 Ribonuclease HI (EC 3.1.26.4) compare
GFF5877 -1.8 -4.8 Probable proline rich signal peptide protein compare
GFF1984 -1.7 -2.9 Phospholipid and glycerol acyltransferase (EC 2.3.1.51) compare
GFF4557 -1.7 -5.0 Dihydroorotase (EC 3.5.2.3) compare
GFF339 -1.6 -3.6 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF3952 -1.6 -3.9 LSU ribosomal protein L19p compare
GFF6128 -1.6 -2.9 Exodeoxyribonuclease VII small subunit (EC 3.1.11.6) compare
GFF5896 -1.6 -7.0 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF966 -1.5 -7.1 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF408 -1.5 -2.2 Two-component system response regulator OmpR compare
GFF4298 -1.5 -1.7 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase compare
GFF2804 -1.5 -2.8 Membrane protein compare
GFF5383 -1.5 -2.8 DNA topoisomerase III, Burkholderia type (EC 5.99.1.2) compare
GFF219 -1.5 -4.2 GTP-binding protein TypA/BipA compare
GFF5512 -1.4 -2.8 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF3790 -1.4 -4.7 Formyltetrahydrofolate deformylase (EC 3.5.1.10) compare
GFF4112 -1.4 -1.6 Rhodanese-related sulfurtransferase, 4 domains compare
GFF4000 -1.4 -5.8 ATP-dependent DNA helicase UvrD/PcrA (EC 3.6.4.12) compare
GFF968 -1.4 -2.8 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF5513 -1.4 -2.6 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF4447 -1.4 -7.3 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF3048 -1.4 -1.5 Glutamate/aspartate ABC transporter, permease protein GltJ (TC 3.A.1.3.4) compare
GFF3960 -1.4 -6.9 3'-to-5' oligoribonuclease (orn) compare
GFF2973 -1.4 -1.8 Transcriptional regulator compare
GFF5988 -1.4 -1.7 Sensory histidine kinase BaeS compare
GFF967 -1.4 -10.7 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF6700 -1.4 -3.2 Single-stranded-DNA-specific exonuclease RecJ compare
GFF232 -1.4 -6.6 Arginine decarboxylase (EC 4.1.1.19); Ornithine decarboxylase (EC 4.1.1.17); Lysine decarboxylase (EC 4.1.1.18) compare
GFF6036 -1.3 -6.1 DNA translocase FtsK compare
GFF497 -1.3 -6.0 Phytoene synthase (EC 2.5.1.32) compare
GFF3870 -1.3 -5.2 Ribonuclease III (EC 3.1.26.3) compare
GFF2734 -1.3 -5.8 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF1756 -1.3 -1.5 hypothetical protein compare
GFF431 -1.3 -2.6 Esterase/lipase compare
GFF5876 -1.3 -6.4 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF3649 -1.2 -8.4 C-type cytochrome biogenesis protein ResA (thioredoxin) compare
GFF6294 -1.2 -3.9 Cell division protein compare
GFF3905 -1.2 -4.6 Aconitate hydratase 2 (EC 4.2.1.3) compare
GFF2847 -1.2 -2.2 histone-like nucleoid-structuring protein H-NS compare
GFF487 -1.2 -7.9 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF577 -1.2 -2.8 TolA protein compare
GFF1105 -1.2 -3.0 Helicase compare
GFF2815 -1.2 -2.4 Primosomal replication protein N compare
GFF4305 -1.2 -1.4 ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF3377 -1.2 -1.3 Enoyl-CoA hydratase (EC 4.2.1.17) @ Enoyl-CoA hydratase EchA5 (EC 4.2.1.17) compare
GFF1106 -1.2 -2.6 UvrD/REP helicase compare
GFF1013 -1.1 -1.9 hypothetical protein compare
GFF5509 -1.1 -3.1 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF5267 -1.1 -2.1 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF4145 -1.1 -1.5 transcriptional regulators-like protein compare
GFF5666 -1.1 -2.8 Prevent host death protein, Phd antitoxin compare
GFF6787 -1.1 -1.7 Copper tolerance protein compare
GFF5057 -1.1 -9.7 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF341 -1.1 -7.7 ATP-dependent Clp protease ATP-binding subunit ClpA compare
GFF2262 -1.1 -1.9 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases compare
GFF1831 -1.1 -2.2 TRAP dicarboxylate transporter, DctQ subunit, unknown substrate 3 compare
GFF6876 -1.1 -8.2 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF3089 -1.1 -1.1 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF2112 -1.0 -2.1 no description compare
GFF2819 -1.0 -2.8 Phosphoenolpyruvate synthase regulatory protein compare
GFF372 -1.0 -5.5 PMID: 11481431 compare
GFF272 -1.0 -1.4 thioesterase superfamily protein compare
GFF6324 -1.0 -8.0 Kup system potassium uptake protein compare
GFF1858 -1.0 -1.6 ABC transporter, ATP-binding protein (cluster 3, basic aa/glutamine/opines) compare
GFF1535 -1.0 -1.4 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF89 -1.0 -2.0 hypothetical protein compare
GFF409 -1.0 -4.5 Osmolarity sensory histidine kinase EnvZ compare
GFF1219 -1.0 -2.1 SAM-dependent methyltransferase compare
GFF7255 -1.0 -1.6 BUG/TctC family periplasmic protein compare
GFF7251 -1.0 -0.8 Mobile element protein compare
GFF2343 -1.0 -4.6 ABC transporter, permease protein 2 (cluster 5, nickel/peptides/opines) compare
GFF1782 -1.0 -3.9 integral membrane sensor signal transduction histidine kinase compare
GFF4215 -0.9 -1.7 L-amino acid ABC transporter (Glu/Asp/His/...), permease protein 1 AapQ compare
GFF7370 -0.9 -1.8 PAS domain with LuxR-type DNA-binding domain compare
GFF1474 -0.9 -1.8 Transcriptional regulator, LysR family compare
GFF6182 -0.9 -2.6 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF575 -0.9 -5.6 Tol-Pal system protein TolQ compare
GFF302 -0.9 -1.4 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5080 -0.9 -4.4 DNA recombination-dependent growth factor RdgC compare
GFF1966 -0.8 -5.9 Apolipoprotein N-acyltransferase / Copper homeostasis protein CutE compare
GFF4790 -0.8 -4.4 Nudix-related transcriptional regulator NrtR compare
GFF3152 -0.8 -2.3 hypothetical protein compare
GFF6246 -0.8 -3.5 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF6328 -0.8 -1.1 LPS-assembly lipoprotein LptE compare
GFF6129 -0.8 -3.8 (2E,6E)-farnesyl diphosphate synthase (EC 2.5.1.10) compare
GFF799 -0.8 -1.4 Rrf2 family transcriptional regulator, group III compare
GFF3034 -0.8 -1.3 no description compare
GFF1665 -0.8 -2.2 Nicotinamidase/isochorismatase family protein compare
GFF5203 -0.8 -1.6 hypothetical protein compare
GFF7321 -0.8 -1.7 Sensor histidine kinase GlrK compare
GFF5118 -0.8 -2.4 gluconolactonase family protein compare
GFF4788 -0.8 -1.7 Uncharacterized protein COG3236 compare
GFF2090 -0.8 -2.3 Holliday junction ATP-dependent DNA helicase RuvB (EC 3.6.4.12) compare
GFF2139 -0.8 -1.8 Ribose ABC transporter, ATP-binding protein RbsA (TC 3.A.1.2.1) compare
GFF7043 -0.8 -1.1 Putative transmembrane protein compare
GFF821 -0.8 -1.5 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF4216 -0.7 -0.9 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF292 -0.7 -6.2 Tol-Pal system beta propeller repeat protein TolB compare
GFF3885 -0.7 -4.0 tRNA pseudouridine(38-40) synthase (EC 5.4.99.12) compare
GFF2926 -0.7 -3.2 FIG00349048: hypothetical protein compare
GFF5208 -0.7 -5.2 Efflux ABC transporter, permease/ATP-binding protein Reut_A2584 compare
GFF549 -0.7 -3.0 DNA-3-methyladenine glycosylase II (EC 3.2.2.21) compare
GFF3576 -0.7 -1.6 no description compare
GFF2073 -0.7 -2.7 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF399 -0.7 -6.2 3'-to-5' exoribonuclease RNase R compare
GFF6263 -0.7 -0.8 Uncharacterized protein Atu0170, clustered with phosphonate utilization compare
GFF371 -0.7 -1.7 RNA-binding protein YhbY compare
GFF3320 -0.7 -1.4 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.179) compare
GFF2523 -0.7 -1.9 Peptide chain release factor N(5)-glutamine methyltransferase (EC 2.1.1.297) compare
GFF3986 -0.7 -1.5 Oxidoreductase, short-chain dehydrogenase/reductase family compare
GFF2341 -0.7 -1.2 ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) compare
GFF970 -0.7 -4.9 Dihydrolipoamide dehydrogenase of pyruvate dehydrogenase complex (EC 1.8.1.4) compare
GFF303 -0.7 -3.0 Probable transcriptional regulatory protein YebC compare
GFF3394 -0.7 -1.0 Benzoate ABC transporter, ATP-binding protein 1 compare
GFF3085 -0.7 -1.8 no description compare
GFF6290 -0.7 -6.2 RNA polymerase sigma-54 factor RpoN compare
GFF5246 -0.7 -4.9 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF1821 -0.7 -2.0 D-glycerate 2-kinase (EC 2.7.1.165) compare
GFF3854 -0.7 -1.2 FIG01269488: protein, clustered with ribosomal protein L32p compare
GFF2293 -0.7 -2.3 tRNA (cytidine(34)-2'-O)-methyltransferase (EC 2.1.1.207) compare
GFF633 -0.7 -1.3 Urea ABC transporter, ATPase protein UrtD compare
GFF488 -0.7 -4.7 ATP-dependent Clp protease ATP-binding subunit ClpX compare
GFF269 -0.7 -2.9 2-methylaconitate isomerase compare
GFF1159 -0.7 -3.8 Acetolactate synthase small subunit (EC 2.2.1.6) compare
GFF213 -0.7 -2.7 tmRNA-binding protein SmpB compare
GFF884 -0.7 -2.4 BUG/TctC family periplasmic protein compare
GFF3426 -0.7 -1.8 Predicted kinase compare
GFF4149 -0.7 -1.7 hypothetical protein compare
GFF7100 -0.7 -2.3 similar to protocatechuate 4,5-dioxygenase beta chain compare
GFF212 -0.7 -4.6 Ribosome association toxin RatA compare
GFF2740 -0.7 -4.5 4-hydroxy-tetrahydrodipicolinate synthase (EC 4.3.3.7) compare
GFF1493 -0.7 -2.5 BUG/TctC family periplasmic protein compare
GFF1614 -0.7 -2.3 Phosphonate ABC transporter ATP-binding protein PhnC (TC 3.A.1.9.1) compare
GFF643 -0.7 -1.2 no description compare
GFF1213 -0.7 -2.6 Oligopeptide transport permease protein OppB-like @ Glutathione ABC transporter, permease protein GsiC compare
GFF443 -0.7 -1.6 Cobalamin biosynthesis protein BluB @ 5,6-dimethylbenzimidazole synthase, flavin destructase family compare
GFF7258 -0.6 -2.0 Transcriptional regulator, IclR family compare
GFF1789 -0.6 -1.7 Hydroxymethylpyrimidine ABC transporter, transmembrane component compare
GFF2631 -0.6 -1.7 Transcriptional regulator, ArsR family compare
GFF2010 -0.6 -3.7 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) compare
GFF1120 -0.6 -2.3 diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s) compare
GFF2515 -0.6 -1.5 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF2978 -0.6 -1.4 Aromatic ring-cleaving dioxygenase compare
GFF1256 -0.6 -0.9 Probable NADH dehydrogenase/NAD(P)H nitroreductase compare
GFF690 -0.6 -2.3 Transcriptional regulator, IclR family compare
GFF6878 -0.6 -5.3 hypothetical protein compare
GFF994 -0.6 -3.3 Cytoskeleton protein RodZ compare
GFF524 -0.6 -3.0 Tripartite tricarboxylate transporter TctB family compare
GFF3772 -0.6 -1.5 Arginase (EC 3.5.3.1) compare
GFF5952 -0.6 -1.4 no description compare
GFF3624 -0.6 -4.9 Putative transmembrane protein compare
GFF5036 -0.6 -2.6 Opine oxidase subunit B compare
GFF3845 -0.6 -2.9 Ribonuclease E (EC 3.1.26.12) compare
GFF990 -0.6 -2.5 LSU rRNA pseudouridine(2605) synthase (EC 5.4.99.22) compare
GFF4334 -0.6 -1.4 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF5209 -0.6 -1.9 DUF1854 domain-containing protein compare
GFF2372 -0.6 -1.8 Similar to citrate lyase beta chain, 3 compare
GFF3864 -0.6 -2.4 Sigma factor RpoE negative regulatory protein RseA compare
GFF627 -0.6 -1.5 Secretion protein HlyD compare
GFF4006 -0.6 -3.8 DNA polymerase I (EC 2.7.7.7) compare
GFF997 -0.6 -2.2 UPF0070 protein YfgM compare
GFF1079 -0.6 -2.3 no description compare
GFF6875 -0.6 -3.0 hypothetical protein compare
GFF7075 -0.6 -2.3 no description compare
GFF7322 -0.6 -2.9 hypothetical protein compare
GFF2838 -0.6 -1.3 hypothetical protein compare
GFF2050 -0.6 -1.1 hypothetical protein compare
GFF4143 -0.6 -1.0 Dihydrofolate reductase (EC 1.5.1.3) compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in no phage control experiments