Environment and Gene Regulatory Influence Network (EGRIN) model for C. difficile 630

The Environment and Gene Regulatory Influence Network (EGRIN) model of C. difficile 630 was inferred using cMonkey2 and a compendium of 136 transcriptomes (retrieved from the Gene Expression Omnibus repository) with 4,070 sequence features including 35 rRNAs and 90 tRNAs . The C. difficile EGRIN model groups genes in subsets (406 modules in total), that are co-regulated in specific environments, and also identifies the associated, putative cis-acting gene regulatory elements (GREs), which represent potential TF binding locations. Transcriptome compendium included conditions: response to iron limitation, response to oxygen, in vivo vs in vitro growth, short term infection (0, 30, 60, 120 mins), response to commensals and host diet, transition from exponential to stationary phase, fur KO, codY KO, sporulation TF (and sigma factors) KOs.

Explore Regulatory Modules

Displaying 151 - 160 of 406

Candidate transcriptional regulators for each module were determined with a linear regression based approach (Inferelator) and by evaluating the statistical significance of the overlap (Hypergeometric) between modules and putative TF and alternative sigma factor regulons (CcpA, CodY, Fur, PrdR, SigB, SigD, SigE, SigF, SigG, SigH, SigK, Spo0A) compiled from available literature.

* Given that translation start was used to define the 3' end of putative promoters, some cis-regulatory motifs are likely to be ribosome binding sites (i.e., Shine-Dalgarno sequence). RBS is typically a six nucleotide sequence 5'-GGAGGA-3'.

Title	Gene Count	Motif 1 e-value	Motif 2 e-value	Residual	TF Influences
Module_176	27 CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_31890 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_07970 - Type: Gene Product:Putative pyruvate carboxyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_07420 - Type: Gene Product:Putative ethanolamine transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_23690 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33290 - Type: Gene Product:Putative RNA polymerase sigma factor Tn916-like,CTn6-Orf5 \| Pathway: \| COG: Function unknown CD630_16120 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_32850 - pgi Type: Gene Product:Glucose-6-phosphate isomerase (GPI)(Phosphoglucose isomerase) (PGI) (Phosphohexose isomerase)(PHI) \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_34050 - Type: Gene Product:Putative iron-onlyhydrogenase,electron-transferring subunit HymA-like \| Pathway: \| COG: Energy production and conversion CD630_34030 - Type: Gene Product:Putative formate/nitrite transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34070 - Type: Gene Product:Putative iron-only hydrogenase, catalytic subunitHymC-like \| Pathway: \| COG: Energy production and conversion CD630_26830 - Type: Gene Product:Putative propanediol utilization protein \| Pathway: Polyol metabolism \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_21810 - Type: Gene Product:Putative alpha/beta hydrolase \| Pathway: \| COG: Function unknown CD630_20460 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13790 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_27550 - ptsI Type: Gene Product:PTS system, EI component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_03560 - xis Type: Gene Product:Excisionase Tn916-like, CTn1-Orf2 \| Pathway: \| COG: Function unknown CD630_32460 - Type: Gene Product:Putative surface protein \| Pathway: \| COG: Function unknown CD630_33280 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf4 \| Pathway: \| COG: Function unknown CD630_25960 - Type: Gene Product:Putative pseudouridylate synthase, RluC/RluDfamily \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25970 - lspA Type: Gene Product:Lipoprotein signal peptidase (Prolipoproteinsignal peptidase) (Signal peptidase II) (SPase II) \| Pathway: Protein modification \| COG: Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport CD630_15111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31910 - Type: Gene Product:Putative oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_34060 - Type: Gene Product:Putative iron-onlyhydrogenase,electron-transferring subunit HymB-like \| Pathway: \| COG: Energy production and conversion CD630_34040 - cls Type: Gene Product:Cardiolipin synthetase (Cardiolipin synthase) (CLsynthase) \| Pathway: \| COG: Lipid transport and metabolism CD630_21100 - Type: Gene Product:Putative transaldolaseC-like \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism	4e-31	`NA`	0.47	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_305	18 CD630_04160 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf10 \| Pathway: \| COG: Function unknown CD630_04080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04081 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf2 \| Pathway: \| COG: Function unknown CD630_04170 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf11 \| Pathway: \| COG: Function unknown CD630_04190 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf13 \| Pathway: \| COG: Function unknown CD630_04150 - Type: Gene Product:Putative membrane protein Tn1549-like, CTn2-Orf9 \| Pathway: \| COG: Function unknown CD630_04130 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn2-Orf7 \| Pathway: \| COG: Function unknown CD630_04180 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf12 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_04060 - Type: Gene Product:Putative tRNA (Uracil-5-)-methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04090 - Type: Gene Product:Putative replication initiation proteinTn1549-like, CTn2-Orf2 \| Pathway: \| COG: Replication, recombination and repair CD630_04140 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf8 \| Pathway: \| COG: Function unknown CD630_04110 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf4 \| Pathway: \| COG: Function unknown CD630_04100 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf3 \| Pathway: \| COG: Replication, recombination and repair CD630_04121 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf6 \| Pathway: \| COG: CD630_04120 - Type: Gene Product:Putative conjugative transfer proteinTn1549-like, CTn2-Orf5 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_04191 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf14 \| Pathway: \| COG: Function unknown CD630_04200 - Type: Gene Product:Putative cell surface protein Tn1549-like,CTn2-Orf15 \| Pathway: \| COG: Function unknown CD630_04210 - Type: Gene Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn2-Orf16 \| Pathway: \| COG: Replication, recombination and repair	`NA`	`NA`	0.48	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_345	18 CD630_29340 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_12690 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_15910 - kdpA Type: Gene Product:Potassium-translocating ATPase A chain \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12700 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_15930 - kdpC Type: Gene Product:Potassium-transporting ATPase C chain \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12740 - topA Type: Gene Product:DNA topoisomerase I \| Pathway: \| COG: Replication, recombination and repair CD630_12720 - Type: Gene Product:Putative magnesium chelatase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_36320 - Type: Gene Product:Putative isochorismatase (2,3 dihydro-2,3dihydroxybenzoate synthase) \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_12760 - Type: Gene Product:Putative replication-associated recombinationprotein A RarA \| Pathway: \| COG: Replication, recombination and repair CD630_29330 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: CD630_29290 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_29320 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_36330 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29300 - Type: Gene Product:Putative phage anti-repressor protein \| Pathway: \| COG: Transcription CD630_12670 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_12780 - iscR Type: Gene Product:Transcriptional regulator, Rrf2 family \| Pathway: \| COG: Transcription CD630_29310 - Type: Gene Product:Putative phage endodeoxyribonuclease RusA-like \| Pathway: \| COG: Replication, recombination and repair	`NA`	`NA`	0.48	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_322	20 CD630_27720 - tuaG Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_25730 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIA \| Pathway: \| COG: Function unknown CD630_27600 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27710 - rkpK Type: Gene Product:UDP-glucose 6-dehydrogenase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_25720 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_03910 - asnB Type: Gene Product:Asparagine synthetase [glutamine-hydrolyzing] \| Pathway: \| COG: Amino acid transport and metabolism CD630_27650 - LcpA Type: Gene Product:Surface-anchoring factors, LytR-CpsA-Psr-likeprotein \| Pathway: \| COG: Transcription CD630_27740 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_13960 - Type: Gene Product:Putative amino acid amidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_27800 - pgm Type: Gene Product:Alpha-phosphoglucomutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_27750 - Type: Gene Product:Putative glycerophosphotransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27810 - mviN Type: Gene Product:Cell well glycopolymers exporter, flipase-type \| Pathway: Cell wall biogenesis \| COG: Signal transduction mechanisms CD630_27730 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_17510 - cwp13 Type: Gene Product:Cell surface protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_27670 - cwp19 Type: Gene Product:Cell surface protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27690 - Type: Gene Product:Putative polysaccharide biosynthesis protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_01730 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27760 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27790 - manC Type: Gene Product:Putative mannose-1-phosphate guanylyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27770 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	0.06	`NA`	0.48	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_136	25 CD630_13660 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_12440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13640 - Type: Gene Product:Putative phage XkdM-like protein \| Pathway: \| COG: Function unknown CD630_13700 - Type: Gene Product:Putative phage XkdS-like protein \| Pathway: \| COG: Function unknown CD630_12420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13720 - Type: Gene Product:Putative phage XkdT-like protein \| Pathway: \| COG: Function unknown CD630_13680 - Type: Gene Product:Putative phage cell wall XkdQ-like hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_14150 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_13760 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_13740 - Type: Gene Product:Putative beta-lactamase-inhibitor protein II \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning, Cytoskeleton CD630_25710 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30410 - pepI Type: Gene Product:Proline iminopeptidase (Proline aminopeptidase)(PIP), peptidase S33 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_14170 - Type: Gene Product:Putative ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_13670 - Type: Gene Product:Putative phage XkdP-like protein \| Pathway: \| COG: Function unknown CD630_13651 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13650 - Type: Gene Product:Putative phage XkdN-like protein \| Pathway: \| COG: Function unknown CD630_13630 - Type: Gene Product:Putative phage XkdK-like protein \| Pathway: \| COG: Function unknown CD630_12430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13710 - Type: Gene Product:Putative baseplate assembly predicted J-like \| Pathway: \| COG: Function unknown CD630_13730 - Type: Gene Product:Putative phage tail fiber protein \| Pathway: \| COG: Function unknown CD630_13690 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25700 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_14140 - Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Function unknown CD630_14160 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	0.000016	`NA`	0.48	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_163	25 CD630_18840 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_27540 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21991 - Type: Gene Product:Putative 4Fe-4S ferredoxin iron-sulfur bindingdomain-containing protein \| Pathway: \| COG: Energy production and conversion CD630_21990 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,alpha subunit \| Pathway: \| COG: Energy production and conversion CD630_22000 - hisC Type: Gene Product:Histidinol-phosphate aminotransferase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_06190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_21440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_23740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22660 - Type: Gene Product:Putative oxidoreductase, FAD dependent \| Pathway: \| COG: Energy production and conversion CD630_35420 - spmA Type: Gene Product:Spore maturation protein A \| Pathway: \| COG: Function unknown CD630_21970 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,gamma subunit \| Pathway: \| COG: Energy production and conversion CD630_23130 - Type: Gene Product:ABC-type transport system, molybdenum-likeATP-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27530 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21430 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_21980 - Type: Gene Product:Putative ferredoxin/flavodoxin oxidoreductase,beta subunit \| Pathway: \| COG: Energy production and conversion CD630_23110 - Type: Gene Product:ABC-type transport system, molybdenum-likeextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06200 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23120 - Type: Gene Product:ABC-type transport system, molybdenum-likepermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_23140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_35410 - spmB Type: Gene Product:Spore maturation protein B \| Pathway: \| COG: Function unknown CD630_22650 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_21960 - Type: Gene Product:Putative succinyl-CoA synthetase-like ATP-bindingprotein \| Pathway: \| COG: Energy production and conversion CD630_32510 - Type: Gene Product:Putative dehydrogenase \| Pathway: \| COG: Function unknown	0.000000000047	0.03	0.48	Inferelator: 2 Hypergeometric: 2 TF Influences from Inferelator CD630_25990 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription
Module_57	26 CD630_17640 - Type: Gene Product:Putative phenylalanyl-tRNA synthetase beta chain \| Pathway: \| COG: Function unknown CD630_28050 - ruvB Type: Gene Product:Holliday junction ATP-dependent DNA helicaseRuvB \| Pathway: \| COG: Replication, recombination and repair CD630_28070 - ruvC Type: Gene Product:Crossover junction endodeoxyribonuclease RuvC(Holliday junction nuclease RuvC) (Holliday junctionresolvase RuvC) \| Pathway: \| COG: Replication, recombination and repair CD630_13310 - sip3 Type: Gene Product:Signal peptidase I, S26A family \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_27870 - cwp84 Type: Gene Product:Cell surface protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_13330 - Type: Gene Product:Putative phage tyrosine recombinase \| Pathway: \| COG: Replication, recombination and repair CD630_13270 - pgsA Type: Gene Product:CDP-diacylglycerol--glycerol-3-phosphate3-phosphatidyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_25960 - Type: Gene Product:Putative pseudouridylate synthase, RluC/RluDfamily \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35810 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17630 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_22620 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Amino acid transport and metabolism CD630_06170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_28060 - ruvA Type: Gene Product:Holliday junction ATP-dependent DNA helicaseRuvA \| Pathway: \| COG: Replication, recombination and repair CD630_35830 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_17650 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_27880 - Type: Gene Product:Putative membrane protein, GtrA family \| Pathway: \| COG: Function unknown CD630_31640 - rnr Type: Gene Product:Ribonuclease R \| Pathway: \| COG: Transcription CD630_13340 - purB Type: Gene Product:Adenylosuccinate lyase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_19510 - Type: Gene Product:putative Acyl-CoA N-acyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_13260 - rimO Type: Gene Product:Ribosomal protein S12 methylthiotransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_29830 - Type: Gene Product:Putative Helix-Turn-Helix DNA-binding protein \| Pathway: \| COG: Transcription CD630_13240 - ftsK Type: Gene Product:DNA FtsK/SpoIIIE translocase \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_13320 - uppP1 Type: Gene Product:Undecaprenyl-diphosphatase 1 (Undecaprenylpyrophosphate phosphatase 1) (Bacitracin resistance protein1) \| Pathway: \| COG: Defense mechanisms CD630_25970 - lspA Type: Gene Product:Lipoprotein signal peptidase (Prolipoproteinsignal peptidase) (Signal peptidase II) (SPase II) \| Pathway: Protein modification \| COG: Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport CD630_35820 - Type: Gene Product:Putative pseudouridine synthase RsuA-like \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21250 - Type: Gene Product:Putative acetyltransferase \| Pathway: \| COG: Function unknown	9e-17	0	0.48	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_08870 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_379	28 CD630_35230 - ksgA Type: Gene Product:Dimethyladenosine transferase(S-adenosylmethionine-6-N', N'-adenosyl(rRNA)dimethyltransferase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_01470 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Function unknown CD630_16550 - Type: Gene Product:Putative Na+/H+ antiporter NhaC-like \| Pathway: \| COG: Energy production and conversion CD630_09000 - opuCA Type: Gene Product:ABC-type transport system, glycinebetaine/carnitine/choline ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription CD630_21770 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family extracellular solute-bindingprotein \| Pathway: \| COG: Amino acid transport and metabolism CD630_22020 - Type: Gene Product:Putative Na+/solute symporter, SSS family \| Pathway: \| COG: Amino acid transport and metabolism CD630_15780 - Type: Gene Product:Putative membrane-associated ribonuclease BN-like(Rbn) \| Pathway: \| COG: Function unknown CD630_05580 - glsA Type: Gene Product:Glutaminase (L-glutamine amidohydrolase) \| Pathway: \| COG: Amino acid transport and metabolism CD630_16290 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25160 - ansB Type: Gene Product:L-asparaginase \| Pathway: \| COG: Amino acid transport and metabolism CD630_21750 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_21490 - Type: Gene Product:Putative vancomycin resistance protein, vanWfamily \| Pathway: \| COG: Defense mechanisms CD630_36210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21730 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_21450 - Type: Gene Product:DNA mismatch repair protein \| Pathway: \| COG: Replication, recombination and repair CD630_00210 - pycA Type: Gene Product:Pyruvate carboxylase \| Pathway: \| COG: Energy production and conversion CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_35240 - Type: Gene Product:Putative DNA-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_09010 - opuCC Type: Gene Product:ABC-type transport system, glycinebetaine/carnitine/choline permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_35620 - murI Type: Gene Product:Glutamate racemase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_35430 - Type: Gene Product:Putative nicotinate phosphribosyltransferase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_21760 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_22030 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_21330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21720 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_05590 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_21740 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family extracellular solute-bindingprotein \| Pathway: \| COG: Amino acid transport and metabolism, Signal transduction mechanisms	0.000000014	`NA`	0.48	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_24300 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_90	4 CD630_22510 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19930 - Type: Gene Product:Putative decarboxylase \| Pathway: \| COG: Function unknown CD630_31080 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_31090 - Type: Gene Product:Putative pentose-5-phosphate 3-epimerase \| Pathway: \| COG: Carbohydrate transport and metabolism	`NA`	`NA`	0.48	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_44	21 CD630_16360 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_25900 - dapF Type: Gene Product:Diaminopimelate epimerase (DAP epimerase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_16370 - Type: Gene Product:Putative calcium-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25780 - Type: Gene Product:Putative serine/threonine-protein kinase andphosphatase \| Pathway: \| COG: Signal transduction mechanisms CD630_16350 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_25790 - Type: Gene Product:Putative phosphatase, 2C family \| Pathway: \| COG: Signal transduction mechanisms CD630_25810 - rsmB Type: Gene Product:Ribosomal RNA small subunit methyltransferase B(rRNA (cytosine-C(5)-)-methyltransferase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_16400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25830 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16410 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25740 - thiN Type: Gene Product:Thiamine pyrophosphokinase (TPK) (Thiaminediphospho kinase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_13580 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_16430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25770 - fabG Type: Gene Product:3-oxoacyl-[acyl-carrier-protein] reductase(3-ketoacyl- acyl carrier protein reductase) \| Pathway: \| COG: Function unknown CD630_16380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25860 - priA Type: Gene Product:Primosomal protein N' (ATP-dependent helicasepriA) (Replication factor Y) \| Pathway: \| COG: Replication, recombination and repair CD630_16390 - Type: Gene Product:Putative tellurite associated resistance protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16330 - Type: Gene Product:Putative serine protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_13570 - Type: Gene Product:Putative peptidyl-prolyl isomerase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25871 - rpoZ Type: Gene Product:DNA-directed RNA polymerase subunit omega (RNAPomega subunit) (Transcriptase subunit omega) (RNApolymerase omega subunit) \| Pathway: \| COG: Transcription	`NA`	`NA`	0.48	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`