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 291 - 300 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_401	21 CD630_06880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32470 - prdC Type: Gene Product:Putative electron transfer protein \| Pathway: \| COG: Energy production and conversion CD630_19340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30180 - Type: Gene Product:Putative redox-active protein \| Pathway: \| COG: Function unknown CD630_19330 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30190 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22070 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Function unknown CD630_15111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06820 - Type: Gene Product:Putative sodium:solute symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_12890 - Type: Gene Product:Ribonuclease J family protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00650 - Type: Gene Product:Putative NADP-dependent deshydrogenase \| Pathway: \| COG: Function unknown CD630_16671 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22090 - Type: Gene Product:Putative GTP-binding protein, HflX type \| Pathway: \| COG: Function unknown CD630_08040 - etfB Type: Gene Product:Electron transfer flavoprotein beta-subunit,core \| Pathway: \| COG: Energy production and conversion CD630_04030 - fba Type: Gene Product:Fructose-1,6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08020 - Type: Gene Product:Putative CoA-transferase, family III \| Pathway: \| COG: Energy production and conversion CD630_22080 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_27680 - Type: Gene Product:Putative cell-wall hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06830 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_26620 - Type: Gene Product:Putative GTP-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000000016	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_370	24 CD630_19780 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_24050 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_20040 - effR Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_01530 - hpdB Type: Gene Product:4-hydroxyphenylacetate decarboxylase, catalyticsubunit \| Pathway: \| COG: Energy production and conversion CD630_07810 - Type: Gene Product:Putative penicillin-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_01550 - hpdA Type: Gene Product:4-hydroxyphenylacetate decarboxylase, activatingsubunit \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25190 - Type: Gene Product:Integrase \| Pathway: \| COG: Replication, recombination and repair CD630_24080 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Function unknown CD630_03250 - cbiN Type: Gene Product:ABC-type transport system, cobalt-specificextracellular solute-binding protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_20030 - effD Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_03270 - cbiO Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_24060 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_19790 - Type: Gene Product:ABC-type transport system, extracellularsolute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10220 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18270 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_25180 - cwp29 Type: Gene Product:Cell surface protein \| Pathway: \| COG: Function unknown CD630_01540 - hpdC Type: Gene Product:4-hydroxyphenylacetate decarboxylase, regulatorysubunit \| Pathway: \| COG: Function unknown CD630_19800 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_19801 - Type: Gene Product:Conserved hypothetical protein, DUF77 family \| Pathway: \| COG: Function unknown CD630_31691 - secG Type: Gene Product:Protein-export membrane protein SecG \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_03240 - cbiM Type: Gene Product:Cobalamin biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_18280 - ftsH1 Type: Gene Product:Cell division protease FtsH1 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24070 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Defense mechanisms CD630_03260 - cbiQ Type: Gene Product:ABC-type transport system, cobalt-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism	0.00000009	1.9	0.55	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_389	11 CD630_25640 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_35450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31090 - Type: Gene Product:Putative pentose-5-phosphate 3-epimerase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02810 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_21610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_25630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14181 - Type: Gene Product:Fragment of putative phage protein (Part 3) \| Pathway: \| COG: Replication, recombination and repair, Replication, recombination and repair CD630_30420 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12401 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_20451 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25040 - Type: Gene Product:Putative D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0	`NA`	0.55	Inferelator: 0 Hypergeometric: 0 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_157	23 CD630_34280 - cbiE Type: Gene Product:Cobalt-precorrin-6Y C(5)-methyltransferase(Cobalt-precorrin-6 methyltransferase) (Cobalt-precorrin-6Ymethylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_34180 - sirC Type: Gene Product:Precorrin-2 dehydrogenase \| Pathway: Porphyrin-containing compound metabolism \| COG: Coenzyme transport and metabolism CD630_34350 - cobQ Type: Gene Product:Cobyric acid synthase CobQ \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_33550 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_34230 - cbiJ Type: Gene Product:Cobalt-precorrin-6A reductase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_34250 - cbiG Type: Gene Product:Cobalamin biosynthesis protein CbiG \| Pathway: \| COG: Coenzyme transport and metabolism CD630_29980 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34330 - cbiB Type: Gene Product:Cobalamin biosynthesis protein CbiB, CobD/CbiBfamily \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_34310 - Type: Gene Product:Putative cobalamin biosynthesis L-threoninePduX-like kinase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_04760 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_16190 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_34260 - cbiF Type: Gene Product:Cobalt-precorrin-4 C(11)-methyltransferase(Cobalt-precorrin-3 methylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_29970 - Type: Gene Product:ABC-type transport system, iron-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34340 - cobB Type: Gene Product:Cobyrinic acid A,C-diamide synthase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_29990 - Type: Gene Product:ABC-type transport system, iron-familyextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34300 - cbiC Type: Gene Product:Cobalt-precorrin-8X methylmutase(Cobalt-precorrin isomerase) (HBA synthase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16170 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_34240 - cbiH Type: Gene Product:Cobalt-precorrin-3B C(17)-methyltransferase(Cobalt-precorrin-3 methyltransferase) (Cobalt-precorrin-3methylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_34320 - cobD Type: Gene Product:Threonine-phosphate decarboxylase(L-threonine-O-3-phosphate decarboxylase), CobD/CbiBfamily \| Pathway: \| COG: Amino acid transport and metabolism CD630_34220 - cbiK Type: Gene Product:Sirohydrochlorin cobaltochelatase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_01810 - Type: Gene Product:Putative membrane-associated metalloprotease, M56family \| Pathway: \| COG: Transcription, Signal transduction mechanisms	0.14	`NA`	0.55	Inferelator: 2 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_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_93	25 CD630_31200 - Type: Gene Product:Transcriptional regulator, AbrB family \| Pathway: \| COG: Transcription CD630_31201 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24160 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_24140 - Type: Gene Product:PTS system, Sorbitol-like IIA component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_r0130 - 16s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_24850 - Type: Gene Product:Putative Xaa-Pro aminopeptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_12130 - spoIVB Type: Gene Product:Stage IV sporulation protein B, peptidase S55family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_31190 - Type: Gene Product:Putative UDP-glycosyltransferase, MGT subfamily \| Pathway: \| COG: Energy production and conversion, Carbohydrate transport and metabolism CD630_r0250 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_25560 - Type: Gene Product:PTS system, fructose/mannitol-family IIABcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24150 - Type: Gene Product:Putative sorbitol-like operon activator protein(Glucitol) \| Pathway: \| COG: CD630_24130 - Type: Gene Product:Putative NAD(P)-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_36160 - Type: Gene Product:Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31210 - Type: Gene Product:Putative flavodoxin/nitric oxide synthase \| Pathway: \| COG: Energy production and conversion CD630_31230 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_21340 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_24840 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_25550 - Type: Gene Product:PTS system, fructose/mannitol-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02671 - Type: Gene Product:Putative flagellar protein \| Pathway: \| COG: CD630_30390 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_14710 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_17950 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31220 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_36150 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription	0.00000044	1.4	0.55	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| 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_328	27 CD630_08370 - Type: Gene Product:Nitroreductase \| Pathway: \| COG: Function unknown CD630_30720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27930 - slpA Type: Gene Product:Precursor of the S-layer proteins \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_09820 - ubiA Type: Gene Product:Putative UbiA prenyltransferase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_02740 - Type: Gene Product:Putative iron-containing alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_08340 - icd Type: Gene Product:Isocitrate dehydrogenase NAD-dependent \| Pathway: \| COG: Amino acid transport and metabolism CD630_20670 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_09840 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_08320 - aksA Type: Gene Product:Trans-homoaconitate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_22710 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_14590 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Nucleotide transport and metabolism CD630_27010 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_30410 - pepI Type: Gene Product:Proline iminopeptidase (Proline aminopeptidase)(PIP), peptidase S33 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_30730 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_33030 - chrA Type: Gene Product:Chromate transport protein ChrA \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_09810 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_09850 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_01770 - cfa Type: Gene Product:Cyclopropane-fatty-acyl-phospholipid synthase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_09830 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIB \| Pathway: \| COG: Amino acid transport and metabolism CD630_08350 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_20620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27940 - cwp12 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_08330 - acnB Type: Gene Product:Aconitate hydratase (Citrate hydro-lyase) \| Pathway: \| COG: Energy production and conversion CD630_28420 - Type: Gene Product:Nitrilase (carbon-nitrogen hydrolase) \| Pathway: \| COG: Function unknown CD630_22720 - Type: Gene Product:Putative protein-tyrosine phosphatase \| Pathway: \| COG: Signal transduction mechanisms CD630_34040 - cls Type: Gene Product:Cardiolipin synthetase (Cardiolipin synthase) (CLsynthase) \| Pathway: \| COG: Lipid transport and metabolism	0.00000000000016	0.26	0.55	Inferelator: 3 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_362	20 CD630_10960 - Type: Gene Product:ABC-type transport system, multidrug-familypermease Tn1549-like, CTn4-Orf29 \| Pathway: \| COG: Function unknown CD630_10970 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein Tn1549-like, CTn4-Orf28 \| Pathway: \| COG: Defense mechanisms CD630_10950 - Type: Gene Product:ABC-type transport system, multidrug-familypermease Tn1549-like, CTn4-Orf30 \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10991 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf25 \| Pathway: \| COG: Function unknown CD630_10990 - Type: Gene Product:Two-component response regulator, Tn1549-like,CTn4-Orf26 \| Pathway: \| COG: Signal transduction mechanisms CD630_03650 - Type: Gene Product:ABC-type transport system, multidrug-familypermease Tn916-like, CTn1-Orf10 \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_03760 - Type: Gene Product:Putative antirestriction protein Tn916-like,CTn1-Orf21 \| Pathway: \| COG: Function unknown CD630_11180 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf1 \| Pathway: \| COG: Function unknown CD630_03670 - Type: Gene Product:Two-component sensor histidine kinase,Tn916-like, CTn1-Orf12 \| Pathway: \| COG: Signal transduction mechanisms CD630_03660 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein Tn916-like, CTn1-Orf11 \| Pathway: \| COG: Defense mechanisms CD630_03740 - Type: Gene Product:Putative ATPase Tn916-like, CTn1-Orf19 \| Pathway: \| COG: Function unknown CD630_10980 - Type: Gene Product:Two-component sensor histidine kinase,Tn1549-like, CTn4-Orf27 \| Pathway: \| COG: Signal transduction mechanisms CD630_11150 - Type: Gene Product:Putative conjugative transfer proteinTn1549-like, CTn4-Orf4 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_03770 - Type: Gene Product:Putative antirestriction protein Tn916-like,CTn1-Orf22 \| Pathway: \| COG: Function unknown CD630_03700 - Type: Gene Product:Transcriptional regulator, HTH-type Tn916-like,CTn1-Orf15 \| Pathway: \| COG: Transcription CD630_03680 - Type: Gene Product:Two-component response regulator, Tn916-like,CTn1-Orf13 \| Pathway: \| COG: Signal transduction mechanisms CD630_03710 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn1-Orf16 \| Pathway: \| COG: Function unknown CD630_11170 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf2 \| Pathway: \| COG: Function unknown CD630_03730 - Type: Gene Product:Putative membrane protein Tn916-like, CTn1-Orf18 \| Pathway: \| COG: Function unknown CD630_11160 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf3 \| Pathway: \| COG: Function unknown	5.4	`NA`	0.55	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_182	24 CD630_29550 - ntpB Type: Gene Product:V-type sodium ATPase subunit B \| Pathway: \| COG: Energy production and conversion CD630_10350 - cwp16 Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase,autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_29610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_07950 - Type: Gene Product:Conserved hypothetical protein, UPF0082 family \| Pathway: \| COG: Transcription CD630_28600 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29570 - ntpC Type: Gene Product:V-type sodium ATPase subunit C \| Pathway: \| COG: Energy production and conversion CD630_28620 - Type: Gene Product:Putative peptidase, M19 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_15820 - hisD Type: Gene Product:Histidinol dehydrogenase (HDH) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_07930 - Type: Gene Product:Putative membrane protein, DUF81 family \| Pathway: \| COG: Function unknown CD630_06630 - tcdA Type: Gene Product:Toxin A \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_07940 - nadE Type: Gene Product:NH3-dependent NAD(+) synthetase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_29590 - ntpK Type: Gene Product:V-type sodium ATPase subunit K \| Pathway: \| COG: Energy production and conversion CD630_29600 - ntpI Type: Gene Product:V-type sodium ATPase subunit I \| Pathway: \| COG: Energy production and conversion CD630_27620 - uppS Type: Gene Product:Putative undecaprenyl pyrophosphate synthetase \| Pathway: \| COG: Lipid transport and metabolism CD630_29540 - ntpD Type: Gene Product:V-type sodium ATPase subunit D \| Pathway: \| COG: Energy production and conversion CD630_10450 - Type: Gene Product:Putative sporulation integral membrane protein \| Pathway: \| COG: Function unknown CD630_29560 - ntpA Type: Gene Product:V-type sodium ATPase subunit A \| Pathway: \| COG: Energy production and conversion CD630_29561 - ntpF Type: Gene Product:V-type sodium ATPase subunit F \| Pathway: \| COG: Energy production and conversion CD630_07920 - Type: Gene Product:Putative membrane protein, DUF81 family \| Pathway: \| COG: Function unknown CD630_28610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_28590 - Type: Gene Product:Putative D-aminoacylase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_29580 - ntpE Type: Gene Product:V-type sodium ATPase subunit E \| Pathway: \| COG: Energy production and conversion CD630_10610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27630 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG:	0.000000000023	0.06	0.56	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_149	20 CD630_09960 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_16530 - Type: Gene Product:Putative Probable D-methionine-bindinglipoprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_14890 - metN Type: Gene Product:ABC-type transport system, methionine-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_14900 - metI Type: Gene Product:ABC-type transport system, methionine-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_20600 - Type: Gene Product:Putative lipid kinase \| Pathway: \| COG: Lipid transport and metabolism CD630_20610 - Type: Gene Product:Conserved hypothetical protein, DUF1121 family \| Pathway: \| COG: Function unknown CD630_28570 - Type: Gene Product:Putative hydrolase, HAD superfamily, IAsubfamily \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17740 - Type: Gene Product:ABC-type transport system, aminoacid-familyextracellular solute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_15820 - hisD Type: Gene Product:Histidinol dehydrogenase (HDH) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_28560 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Replication, recombination and repair CD630_14910 - metQ Type: Gene Product:ABC-type transport system, methionine-specificsubstrate-binding lipoprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_17750 - Type: Gene Product:ABC-type transport system, aminoacid-familypermease \| Pathway: \| COG: Amino acid transport and metabolism CD630_20620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28580 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16520 - Type: Gene Product:Putative tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_09950 - serA Type: Gene Product:Putative D-3-phosphoglycerate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_23300 - xpt Type: Gene Product:Xanthine phosphoribosyltransferase (XPRTase) \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_23290 - tal Type: Gene Product:Transaldolase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_17760 - Type: Gene Product:ABC-type transport system, aminoacid-familyATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism	0.0000000000000079	2.6	0.56	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_06700 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_21	29 CD630_04650 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_20690 - Type: Gene Product:Putative molybdopterin cofactor biosynthesisprotein \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_01700 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_36730 - Type: Gene Product:Putative stage 0 sporulation protein, DNA-bindingprotein Spo0J-like \| Pathway: \| COG: Transcription CD630_25130 - Type: Gene Product:Putative translation inhibitor endoribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_30350 - Type: Gene Product:Putative diaminopimelate epimerase, PhzF family \| Pathway: \| COG: Function unknown CD630_32890 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26130 - Type: Gene Product:Putative peptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_36710 - spo0J Type: Gene Product:Stage 0 sporulation protein J, site-specificDNA-binding protein \| Pathway: \| COG: Transcription CD630_34780 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_04690 - Type: Gene Product:PTS system, sucrose-specific IIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_20710 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32870 - Type: Gene Product:Putative oxidoreductase, FAD dependent \| Pathway: \| COG: Function unknown CD630_04670 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIIB \| Pathway: \| COG: Function unknown CD630_25140 - tdcB Type: Gene Product:Threonine dehydratase II \| Pathway: \| COG: Amino acid transport and metabolism CD630_04660 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_36700 - Type: Gene Product:Putative cysteine desulfurase family protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription CD630_30340 - Type: Gene Product:Transcriptional regulator, TrmB family \| Pathway: \| COG: Transcription CD630_01880 - Type: Gene Product:Putative ketopantoate reductase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_32880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04680 - malL Type: Gene Product:oligo-1,6-glucosidase (Sucrase-isomaltase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32860 - Type: Gene Product:Putative sodium:phosphate symporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_20700 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_36720 - soj Type: Gene Product:Transcriptional regulator, sporulation initiationinhibitor, chromosome partitioning protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_32900 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_01690 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_32840 - HtrA Type: Gene Product:High temperature requirement A protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_08930 - Type: Gene Product:Putative iron-dependent hydrogenase \| Pathway: \| COG: Energy production and conversion	0.00000000067	0.00014	0.56	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription 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`