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 311 - 320 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_340	29 CD630_03220 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_01900 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01890 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_28090 - Type: Gene Product:Conserved hypothetical protein, DUF1540 family \| Pathway: \| COG: Function unknown CD630_03160 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_06460 - Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_04540 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_27050 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_06440 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_32660 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03190 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_23730 - Type: Gene Product:Putative CstA-like carbon starvation protein \| Pathway: \| COG: Signal transduction mechanisms CD630_33200 - cprR Type: Gene Product:Two-component response regulator, cationicantimicrobial peptide resistance \| Pathway: \| COG: Signal transduction mechanisms CD630_18860 - Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription CD630_03230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33490 - bclA3 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Function unknown CD630_06720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06430 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03170 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_03210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32650 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_06450 - Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_32670 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22760 - Type: Gene Product:Sodium:alanine symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_23580 - Type: Gene Product:Oligoendopeptidase-related, clade2, M3B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_33500 - sgtA Type: Gene Product:Glycosyl transferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_03180 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_27991 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000000000018	`NA`	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_313	20 CD630_29460 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25320 - Type: Gene Product:Aminotransferase, alanine--glyoxylatetransaminase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14310 - Type: Gene Product:Putative helicase, DinG family \| Pathway: \| COG: Replication, recombination and repair CD630_29470 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29471 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_00340 - Type: Gene Product:Putative xylose transporter, sodium:galactosidesymporter family \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29430 - Type: Gene Product:Putative phage replication protein \| Pathway: \| COG: Replication, recombination and repair CD630_25310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29450 - Type: Gene Product:Putative bacteriophage resistance protein \| Pathway: \| COG: Function unknown CD630_25290 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29440 - Type: Gene Product:Putative phage essential recombination functionprotein \| Pathway: \| COG: Replication, recombination and repair CD630_29520 - Type: Gene Product:Putative phage site-specific integrase \| Pathway: \| COG: Replication, recombination and repair CD630_29490 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_29420 - Type: Gene Product:Putative phage resolvase/integrase \| Pathway: \| COG: CD630_29480 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Transcription CD630_00330 - Type: Gene Product:Putative glycoside hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14320 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Function unknown CD630_00320 - Type: Gene Product:Putative beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29500 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	0.06	`NA`	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_325	25 CD630_04160 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf10 \| Pathway: \| COG: Function unknown CD630_04040 - Type: Gene Product:Conserved hypothetical protein, DUF1904 family \| Pathway: \| COG: Function unknown CD630_04060 - Type: Gene Product:Putative tRNA (Uracil-5-)-methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04140 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf8 \| Pathway: \| COG: Function unknown 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_06190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04210 - Type: Gene Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn2-Orf16 \| Pathway: \| COG: Replication, recombination and repair 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_04180 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf12 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_06150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_04050 - rluA Type: Gene Product:Ribosomal small subunit pseudouridine synthase A \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04170 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf11 \| Pathway: \| COG: Function unknown CD630_04130 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn2-Orf7 \| Pathway: \| COG: Function unknown CD630_04150 - Type: Gene Product:Putative membrane protein Tn1549-like, CTn2-Orf9 \| Pathway: \| COG: Function unknown CD630_04110 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf4 \| Pathway: \| COG: Function unknown CD630_04220 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf17 \| Pathway: \| COG: Function unknown CD630_04200 - Type: Gene Product:Putative cell surface protein Tn1549-like,CTn2-Orf15 \| Pathway: \| COG: Function unknown CD630_04190 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf13 \| Pathway: \| COG: Function unknown CD630_04191 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf14 \| Pathway: \| COG: Function unknown CD630_04090 - Type: Gene Product:Putative replication initiation proteinTn1549-like, CTn2-Orf2 \| Pathway: \| COG: Replication, recombination and repair CD630_06200 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06160 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_06140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	`NA`	`NA`	0.57	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_135	23 CD630_28130 - garR Type: Gene Product:Tartronate semialdehyde reductase \| Pathway: \| COG: Lipid transport and metabolism CD630_02500 - fliH Type: Gene Product:Flagellar assembly protein FliH \| Pathway: \| COG: Cell motility CD630_33230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06730 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02450 - flgB Type: Gene Product:Flagellar basal-body rod protein FlgB \| Pathway: \| COG: Cell motility CD630_19480 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_16800 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Function unknown CD630_16790 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Coenzyme transport and metabolism CD630_33250 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_33880 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn7-Orf27 \| Pathway: \| COG: Transcription CD630_19470 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_28120 - Type: Gene Product:Putative gluconate permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_17670 - gapB Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01880 - Type: Gene Product:Putative ketopantoate reductase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_02550 - flgE Type: Gene Product:Flagellar hook protein FlgE (Distal rod protein) \| Pathway: \| COG: Cell motility CD630_08090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02590 - fliZ Type: Gene Product:Flagellar protein FliZ \| Pathway: \| COG: Cell motility CD630_32201 - Type: Gene Product:Small acid-soluble spore protein \| Pathway: \| COG: Function unknown CD630_32200 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_19460 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_16810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription	0.00000000085	0.64	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_187	27 CD630_14880 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_26760 - thlA2 Type: Gene Product:Acetoacetyl-CoA thiolase 2 \| Pathway: \| COG: Lipid transport and metabolism CD630_02330 - fliW Type: Gene Product:Flagellar assembly factor FliW \| Pathway: \| COG: Signal transduction mechanisms CD630_02370 - fliD Type: Gene Product:Flagellar hook-associated protein 2 FliD (orHAP2) \| Pathway: \| COG: Cell motility CD630_02310 - flgK Type: Gene Product:Flagellar hook-associated protein FlgK (or HAP1) \| Pathway: \| COG: Cell motility CD630_19520 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_02350 - fliS1 Type: Gene Product:Flagellar protein FliS1 \| Pathway: \| COG: Cell motility CD630_02270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26790 - bdhA Type: Gene Product:3-hydroxybutyrate dehydrogenase \| Pathway: \| COG: Function unknown CD630_02780 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_02280 - fliN Type: Gene Product:Flagellar motor switch protein FliN \| Pathway: \| COG: Cell motility CD630_02380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26770 - scoA Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit A \| Pathway: \| COG: Lipid transport and metabolism CD630_14870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13830 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_02320 - flgL Type: Gene Product:Flagellar hook-associated protein FlgL (or HAP3) \| Pathway: \| COG: Cell motility CD630_07370 - hisK Type: Gene Product:Histidinol-phosphatase (HolPase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_19530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02300 - Type: Gene Product:Putative flagellar biosynthesis protein \| Pathway: \| COG: Function unknown CD630_02260 - Type: Gene Product:Putative lytic transglycosylase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02340 - csrA Type: Gene Product:Carbon storage regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_02360 - fliS2 Type: Gene Product:Flagellar protein FliS2 \| Pathway: \| COG: Cell motility CD630_02790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26800 - Type: Gene Product:Putative permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_02290 - flgM Type: Gene Product:Anti-sigma factor repressor of sigma(D)-dependenttranscription \| Pathway: \| COG: CD630_26780 - scoB Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit B \| Pathway: \| COG: Lipid transport and metabolism CD630_02390 - fliC Type: Gene Product:Flagellin C \| Pathway: \| COG: Cell motility	0.01	0.04	0.57	Inferelator: 0 Hypergeometric: 1 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_299	20 CD630_28090 - Type: Gene Product:Conserved hypothetical protein, DUF1540 family \| Pathway: \| COG: Function unknown CD630_29150 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29170 - Type: Gene Product:Putative scaffold protein \| Pathway: \| COG: Function unknown CD630_28970 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_03110 - GerG Type: Gene Product:Germination regulator \| Pathway: \| COG: CD630_29000 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_29010 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29030 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_10633 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_29140 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29120 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_28980 - Type: Gene Product:Putative phage tail fiber protein \| Pathway: \| COG: Function unknown CD630_29020 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29050 - Type: Gene Product:Putative phage tail tape measure protein \| Pathway: \| COG: Function unknown CD630_10632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29040 - Type: Gene Product:Putative phage cell wall hydrolase \| Pathway: \| COG: Function unknown CD630_29090 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29060 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29080 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown	0	`NA`	0.57	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms
Module_374	20 CD630_15500 - hisB Type: Gene Product:Imidazoleglycerol-phosphate dehydratase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32690 - Type: Gene Product:Putative oligoendopeptidase F, M3B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_10370 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15530 - hisF Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisF \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15480 - hisG Type: Gene Product:ATP phosphoribosyltransferase (ATP-PRTase)(ATP-PRT) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_10430 - sbcC Type: Gene Product:Nuclease SbcCD subunit C \| Pathway: \| COG: Replication, recombination and repair CD630_15520 - hisA Type: Gene Product:1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32700 - Type: Gene Product:Putative magnesium transport ATPase, MgtC/SapBfamily \| Pathway: \| COG: Function unknown CD630_15470 - hisZ Type: Gene Product:ATP phosphoribosyltransferase regulatory subunit \| Pathway: \| COG: Amino acid transport and metabolism CD630_15490 - hisC Type: Gene Product:Histidinol-phosphate aminotransferase (Imidazoleacetol-phosphate transaminase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_10410 - addA Type: Gene Product:ATP-dependent nuclease subunit A (ATP-dependenthelicase addA) \| Pathway: \| COG: Replication, recombination and repair CD630_21430 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_10400 - addB Type: Gene Product:ATP-dependent nuclease subunit B (ATP-dependenthelicase addB), Superfamily 1 UvrD-family \| Pathway: \| COG: Replication, recombination and repair CD630_10380 - Type: Gene Product:Putative helicase, superfamily 1, UvrD-family \| Pathway: \| COG: Replication, recombination and repair CD630_10420 - sbcD Type: Gene Product:Nuclease SbcCD subunit D \| Pathway: \| COG: Replication, recombination and repair CD630_10390 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15540 - hisI Type: Gene Product:Histidine biosynthesis bifunctional protein HisIE[Includes: Phosphoribosyl-AMP cyclohydrolase ;Phosphoribosyl-ATP pyrophosphatase] \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15510 - hisH Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisH \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_21440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20020 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	0.76	`NA`	0.57	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_21430 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription
Module_58	4 CD630_03780 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn1-Orf23 \| Pathway: \| COG: Function unknown CD630_05400 - cheW Type: Gene Product:Chemotaxis protein CheW \| Pathway: \| COG: Cell motility, Signal transduction mechanisms CD630_22170 - aroD Type: Gene Product:Dehydroquinate dehydratase (3-dehydroquinatedehydratase) (Dehydroquinase) (DHQase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_03280 - pcrA Type: Gene Product:DNA helicase, UvrD/REP type \| Pathway: \| COG: Replication, recombination and repair	0.11	`NA`	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_05400 - cheW Type: Gene Product:Chemotaxis protein CheW \| Pathway: \| COG: Cell motility, Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_291	31 CD630_21270 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_25400 - Type: Gene Product:Coenzyme A disulfide reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_05091 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf10 \| Pathway: \| COG: CD630_28880 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_19640 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_10520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18410 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_21640 - ldh Type: Gene Product:L-lactate dehydrogenase (L-LDH) \| Pathway: Fermentation \| COG: Energy production and conversion CD630_18400 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_04401 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10480 - Type: Gene Product:Putative phosphodiesterase \| Pathway: \| COG: Function unknown CD630_25060 - LinCd Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_09772 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09771 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_03090 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIB \| Pathway: \| COG: Amino acid transport and metabolism CD630_10500 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_25040 - Type: Gene Product:Putative D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_33300 - Type: Gene Product:Transcriptional regulator, HTH-type Tn916-like,CTn6-Orf6 \| Pathway: \| COG: Transcription CD630_18310 - Type: Gene Product:Putative cation (Mg2+ and Co2+)transport-related, membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_21340 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_28890 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10530 - Type: Gene Product:Putative aminoacyl-tRNA synthetase-associateddomain \| Pathway: \| COG: Function unknown CD630_10510 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: CD630_19630 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_18420 - Type: Gene Product:Conserved hypothetical protein, DUF218 family \| Pathway: \| COG: Function unknown CD630_10490 - ppnK Type: Gene Product:Inorganic polyphosphate/ATP-NAD kinase(Poly(P)/ATP NAD kinase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14990 - Type: Gene Product:Putative virulence factor, MviN family protein(Disrupted IStron) \| Pathway: Cell wall biogenesis \| COG: Signal transduction mechanisms, Signal transduction mechanisms CD630_31870 - tdcF Type: Gene Product:Putative regulatory endoribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25250 - recX Type: Gene Product:Regulatory protein RecX \| Pathway: \| COG: Function unknown CD630_25050 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription	2e-21	0.000016	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_18400 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_96	6 CD630_12870 - fur Type: Gene Product:Transcriptional regulator, Fur family \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31470 - Type: Gene Product:Putative DNA-methyltransferase \| Pathway: \| COG: Replication, recombination and repair CD630_36340 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_09740 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29640 - Type: Gene Product:Putative tRNA-binding protein \| Pathway: \| COG: Function unknown CD630_05320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription	`NA`	`NA`	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_05320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_12870 - fur Type: Gene Product:Transcriptional regulator, Fur family \| Pathway: \| COG: Inorganic ion transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`