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 121 - 130 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_159	24 CD630_04000 - etfB1 Type: Gene Product:Beta-subunit of electron transfer flavoprotein \| Pathway: \| COG: Energy production and conversion CD630_07280 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, subunit alpha/beta \| Pathway: \| COG: Energy production and conversion CD630_03940 - ldhA Type: Gene Product:D-lactate dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_07180 - fhs Type: Gene Product:Formate--tetrahydrofolate ligase(Formyltetrahydrofolate synthetase) (FHS) (FTHFS) \| Pathway: One-carbon metabolism \| COG: Nucleotide transport and metabolism CD630_03960 - hadI Type: Gene Product:Activator of 2-hydroxyisocaproyl-CoA dehydratase \| Pathway: \| COG: Lipid transport and metabolism CD630_07200 - folD Type: Gene Product:Bifunctional protein folD [Includes:Methylenetetrahydrofolate dehydrogenase ;Methenyltetrahydrofolate cyclohydrolase] \| Pathway: One-carbon metabolism \| COG: Coenzyme transport and metabolism CD630_03980 - hadC Type: Gene Product:Subunit of oxygen-sensitive2-hydroxyisocaproyl-CoA dehydratase C \| Pathway: \| COG: Amino acid transport and metabolism CD630_23490 - grdC Type: Gene Product:Glycine reductase complex component C subunitbeta (Protein PC beta) \| Pathway: \| COG: Energy production and conversion CD630_20200 - clpB Type: Gene Product:Chaperone protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07220 - metF Type: Gene Product:5,10-methylenetetrahydrofolate reductase \| Pathway: One-carbon metabolism \| COG: Amino acid transport and metabolism CD630_07260 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, delta subunit \| Pathway: \| COG: Energy production and conversion CD630_07240 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase,nickel-inserting subunit \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_04010 - etfA1 Type: Gene Product:Alpha-subunit of electron transfer flavoprotein \| Pathway: \| COG: Energy production and conversion CD630_07290 - gcvH Type: Gene Product:Glycine cleavage system H protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_03950 - hadA Type: Gene Product:Isocaprenoyl-CoA:2-hydroxyisocaproateCoA-transferase \| Pathway: \| COG: Energy production and conversion CD630_03970 - hadB Type: Gene Product:Subunit of oxygen-sensitive2-hydroxyisocaproyl-CoA dehydratase B \| Pathway: \| COG: Amino acid transport and metabolism CD630_07190 - fchA Type: Gene Product:Methenyltetrahydrofolate cyclohydrolase(5,10-methenyltetrahydrofolate 5-hydrolase) \| Pathway: \| COG: Amino acid transport and metabolism CD630_03990 - acdB Type: Gene Product:Acyl-CoA dehydrogenase, short-chain specific \| Pathway: \| COG: Lipid transport and metabolism CD630_07210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07250 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, subunit delta \| Pathway: \| COG: Energy production and conversion CD630_07230 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, dihydrolipoyldehydrogenase subunit \| Pathway: \| COG: Energy production and conversion CD630_07270 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, methyltransferasesubunit \| Pathway: \| COG: Amino acid transport and metabolism CD630_23480 - grdD Type: Gene Product:Glycine reductase complex component C subunitalpha (Protein PC alpha) \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.46	Inferelator: 1 Hypergeometric: 2 TF Influences from Inferelator CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown TF Influences from Hypergeometric Test CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_31760 - glnF Type: Gene Product:RNA polymerase sigma-54 factor \| Pathway: \| COG: Transcription
Module_283	10 CD630_13970 - Type: Gene Product:Conserved hypothetical protein, UPF0066 family \| Pathway: \| COG: Function unknown CD630_16510 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27110 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_27360 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_21220 - Type: Gene Product:Putative cations transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_13980 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_09970 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_22940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18782 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf39 \| Pathway: \| COG: Function unknown CD630_16600 - Type: Gene Product:Conserved hypothetical protein, DUF 1255 family \| Pathway: \| COG: Function unknown	0.85	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_14070 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_31	23 CD630_28640 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_29650 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_09790 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_22220 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_27970 - Type: Gene Product:Putative calcium-binding adhesion protein \| Pathway: \| COG: Function unknown CD630_06560 - Type: Gene Product:Chloride ion channel protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18920 - Type: Gene Product:Putative methyltransferase, type 11 family \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_28730 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27640 - Type: Gene Product:Putative hydrolase, HAD superfamily, IIBsubfamily \| Pathway: \| COG: Function unknown CD630_28650 - Type: Gene Product:Putative bacterioferritin \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25690 - Type: Gene Product:Putative glycoside hydrolase, family 38; Putativealpha-mannosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17290 - Type: Gene Product:Putative sodium:phosphate symporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06590 - tcdR Type: Gene Product:Alternative RNA polymerase sigma factors \| Pathway: \| COG: CD630_03420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15730 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_12510 - ftsY Type: Gene Product:signal recognition particle receptor \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_34550 - Type: Gene Product:Putative carboxy-terminal protease \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06570 - cdu2 Type: Gene Product:Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_22440 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_06610 - tcdE Type: Gene Product:Holin-like pore-forming protein \| Pathway: \| COG: Function unknown CD630_28690 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_15110 - cotB Type: Gene Product:Spore outer coat layer protein CotB \| Pathway: \| COG: Function unknown CD630_23760 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	5.2e-21	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G 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_47	20 CD630_23130 - Type: Gene Product:ABC-type transport system, molybdenum-likeATP-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08610 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25450 - bcsA Type: Gene Product:Cellulose synthase catalytic subunit(UDP-forming) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_08620 - Type: Gene Product:PTS system, lactose/cellobiose-family IICmembrane component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25460 - Type: Gene Product:Endoglucanase (cellulase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23120 - Type: Gene Product:ABC-type transport system, molybdenum-likepermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08640 - Type: Gene Product:Maltose-6'-phosphate glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_20180 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_25420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23110 - Type: Gene Product:ABC-type transport system, molybdenum-likeextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08630 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25430 - Type: Gene Product:Putative membrane-bound 0-ACYL transferase, MBOATfamily \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.05	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_20180 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_393	26 CD630_00670 - rpoC Type: Gene Product:DNA-directed RNA polymerase subunit beta' \| Pathway: \| COG: Transcription CD630_26720 - appA Type: Gene Product:ABC-type transport system, oligopeptide-familysolute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_26700 - appF Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_28520 - dltB Type: Gene Product:D-alanyl transferase DltB, MBOAT family \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_05480 - Type: Gene Product:Putative penicillin-binding peptidase BlaR1-like,M56 family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_28540 - dltD Type: Gene Product:D-alanine transferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_35560 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_28510 - dltC Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 2(D-alanyl carrier protein) (DCP) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_35540 - dusB Type: Gene Product:tRNA-dihydrouridine synthase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35520 - lysS Type: Gene Product:Lysyl-tRNA synthetase (Lysine--tRNA ligase)(LysRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_07040 - Type: Gene Product:Putative metal-dependent phosphohydrolase \| Pathway: \| COG: Function unknown CD630_26710 - appD Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_00660 - rpoB Type: Gene Product:DNA-directed RNA polymerase subunit beta \| Pathway: \| COG: Transcription CD630_35580 - birA Type: Gene Product:BirA bifunctional protein [Includes: biotinoperon repressor and biotin--[acetyl-CoA-carboxylase]synthetase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_28530 - dltA Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 1 \| Pathway: Cell wall biogenesis \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_19630 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_35570 - Type: Gene Product:Putative peptidase \| Pathway: \| COG: Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_35530 - greA Type: Gene Product:Transcription elongation factor greA (Transcriptcleavage factor GreA) \| Pathway: \| COG: Transcription CD630_35550 - coaX Type: Gene Product:Type III pantothenate kinase (Pantothenic acidkinase) (PanK-III) \| Pathway: Cofactor biosynthesis \| COG: Transcription CD630_02030 - Type: Gene Product:Putative UvrABC system protein A 1 (UvrA protein1) (Excinuclease ABC subunit A 1) \| Pathway: \| COG: Replication, recombination and repair CD630_07030 - Type: Gene Product:Putative peptidase, U32 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07050 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_36690 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_05470 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_26740 - appC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease protein \| Pathway: \| COG: Inorganic ion transport and metabolism	0.0000000000019	`NA`	0.46	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_204	24 CD630_20160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_03100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20750 - pbuX Type: Gene Product:Putative xanthine permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_23450 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_25940 - uraA Type: Gene Product:Putative uracil permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_21260 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_22730 - Type: Gene Product:Putative sporulation integral membrane protein \| Pathway: \| COG: Function unknown CD630_22170 - aroD Type: Gene Product:Dehydroquinate dehydratase (3-dehydroquinatedehydratase) (Dehydroquinase) (DHQase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_10060 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_27030 - Type: Gene Product:Putative pentapeptide repeat-containing protein \| Pathway: \| COG: Function unknown CD630_01990 - Type: Gene Product:Putative membrane-associated nucleotidase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_33200 - cprR Type: Gene Product:Two-component response regulator, cationicantimicrobial peptide resistance \| Pathway: \| COG: Signal transduction mechanisms CD630_16590 - Type: Gene Product:Cation-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_r0020 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_27190 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10020 - Type: Gene Product:Putative nucleotide/oligonucleotide bindingprotein \| Pathway: \| COG: Function unknown CD630_30080 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Function unknown CD630_25950 - pyrR Type: Gene Product:Bifunctional protein PyrR [Includes: Pyrimidineoperon regulatory protein; Uracil phosphoribosyltransferase(UPRTase)] \| Pathway: \| COG: Nucleotide transport and metabolism CD630_20680 - Type: Gene Product:ABC drug efflux pump \| Pathway: \| COG: Function unknown CD630_27040 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_05630 - Type: Gene Product:Putative iron-sulfur cluster-binding protein \| Pathway: \| COG: Energy production and conversion CD630_22500 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_02170 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_33600 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms	`NA`	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_33600 - 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_361	8 CD630_06380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05800 - gapN Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase(NADP(+)) (GADPH) \| Pathway: \| COG: Energy production and conversion CD630_06910 - Type: Gene Product:Putative short chain dehydrogenase/reductase, SDRfamily \| Pathway: \| COG: Function unknown CD630_27120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06370 - Type: Gene Product:Putative acetyltransferase \| Pathway: \| COG: Function unknown CD630_05620 - Type: Gene Product:Putative RusA-like endodeoxyribonuclease \| Pathway: \| COG: Function unknown CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_17920 - Type: Gene Product:Putative L-threonine 3-dehydrogenase \| Pathway: \| COG: Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis	6.4	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_1	18 CD630_12170 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12230 - drm Type: Gene Product:Phosphopentomutase (Phosphodeoxyribomutase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_12200 - nudF Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_12250 - pdp Type: Gene Product:Pyrimidine-nucleoside phosphorylase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_36590 - Type: Gene Product:Putative signal transduction phosphoesterase \| Pathway: \| COG: Signal transduction mechanisms CD630_12160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12240 - pupG Type: Gene Product:Purine nucleoside phosphorylase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_12180 - Type: Gene Product:Putative glycosyl transferase \| Pathway: \| COG: Function unknown CD630_12190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36570 - dnaB Type: Gene Product:Replicative DNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_12220 - Type: Gene Product:Putative phage integrase site-specificrecombinase XerD-like \| Pathway: \| COG: Replication, recombination and repair CD630_36610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12150 - Type: Gene Product:Putative pyrophosphokinase, DUF115 family \| Pathway: \| COG: Function unknown CD630_12210 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_36630 - rpsF Type: Gene Product:30S ribosomal protein S6 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36620 - ssb Type: Gene Product:Single-stranded DNA-binding protein(Helix-destabilizing protein) \| Pathway: \| COG: Replication, recombination and repair CD630_36580 - rplI Type: Gene Product:50S ribosomal protein L9 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36611 - rpsR Type: Gene Product:30S ribosomal protein S18 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	`NA`	`NA`	0.46	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_05590 - Type: Gene Product:Transcriptional regulator, ArsR family \| 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_34	6 CD630_15461 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18930 - Type: Gene Product:Putative oligonucleotide binding regulator \| Pathway: \| COG: Function unknown CD630_06020 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33331 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf10 \| Pathway: \| COG: Function unknown CD630_33340 - Type: Gene Product:Putative transcriptional regulator Tn916-like,CTn6-Orf11 \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.46	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_19640 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_23080 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_26030 - cdtR Type: Gene Product:Clostridium difficile binary toxin regulatorygene, LytTR family \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
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`