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 41 - 50 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_50	42 CD630_20350 - Type: Gene Product:Putative sporulation integral membrane protein \| Pathway: \| COG: Function unknown CD630_18591 - Type: Gene Product:Transcriptional regulator, AbrB family;Tn1549-like, CTn5-Orf17 \| Pathway: \| COG: Transcription CD630_18590 - Type: Gene Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn5-Orf16 \| Pathway: \| COG: Replication, recombination and repair CD630_24610 - dnaK Type: Gene Product:Chaperone protein dnaK (Heat shock protein 70)(Heat shock 70 kDa protein) (HSP70) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_18550 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf11 \| Pathway: \| COG: Function unknown CD630_18620 - Type: Gene Product:Putative DNA/RNA helicase Tn1549-like,CTn5-Orf21 \| Pathway: \| COG: Replication, recombination and repair CD630_31480 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: Function unknown CD630_20390 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18571 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf14 \| Pathway: \| COG: Function unknown CD630_18570 - Type: Gene Product:Putative cell wall hydrolase Tn1549-like,CTn5-Orf13 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_18530 - Type: Gene Product:Putative membrane protein Tn1549-like, CTn5-Orf9 \| Pathway: \| COG: Function unknown CD630_18510 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn5-Orf7 \| Pathway: \| COG: Function unknown CD630_10170 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_22660 - Type: Gene Product:Putative oxidoreductase, FAD dependent \| Pathway: \| COG: Energy production and conversion CD630_33100 - Type: Gene Product:Putative D-isomer specific 2-hydroxyaciddehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism, Coenzyme transport and metabolism CD630_22620 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Amino acid transport and metabolism CD630_10180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_18600 - Type: Gene Product:Putative conjugative transposon protein DUF1016family, Tn1549-like, CTn5-Orf18 \| Pathway: \| COG: Function unknown CD630_18580 - Type: Gene Product:Putative cell surface protein Tn1549-like,CTn5-Orf15 \| Pathway: \| COG: Function unknown CD630_24600 - dnaJ Type: Gene Product:Chaperone protein DnaJ \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_33120 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_20400 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_24640 - hemN Type: Gene Product:Oxygen-independent coproporphyrinogen-III oxidase(Coproporphyrinogenase) (Coprogen oxidase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_24620 - grpE Type: Gene Product:Protein grpE (HSP-70 cofactor) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_20360 - Type: Gene Product:Putative peptidylarginine deiminase \| Pathway: \| COG: Amino acid transport and metabolism CD630_31490 - Type: Gene Product:DNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_18540 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf10 \| Pathway: \| COG: Function unknown CD630_19941 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_19940 - Type: Gene Product:Putative membrane protein, DUF1648 family \| Pathway: \| COG: Function unknown CD630_18560 - Type: Gene Product:Putative hydrolase Tn1549-like, CTn5-Orf12 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_18610 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf19 \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_20380 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_18520 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf8 \| Pathway: \| COG: Function unknown CD630_36140 - Type: Gene Product:Conserved hypothetical protein, DUF1130 family \| Pathway: \| COG: Function unknown CD630_05650 - nth Type: Gene Product:Endonuclease III \| Pathway: \| COG: Replication, recombination and repair CD630_33110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22650 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18630 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn5-Orf22 \| Pathway: \| COG: Function unknown CD630_20370 - Type: Gene Product:Putative acyl-CoA acyltransferase \| Pathway: \| COG: Function unknown CD630_31500 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0	0	0.61	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription 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 TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_405	26 CD630_29220 - Type: Gene Product:Putative phage terminase large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29200 - Type: Gene Product:Putative phage head protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27360 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_14182 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17440 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_22991 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09450 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_09410 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09430 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: Function unknown CD630_12331 - Type: Gene Product:Fragment of phage protein \| Pathway: \| COG: CD630_29190 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29210 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_29230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_12450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_09440 - Type: Gene Product:Putative phage terminase, large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29071 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17430 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_09562 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_09461 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09460 - Type: Gene Product:Putative phage minor head protein \| Pathway: \| COG: Signal transduction mechanisms CD630_09420 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29240 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28630 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_25171 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	1.68156e-44	8.90007e-41	0.61	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_341	24 CD630_30880 - Type: Gene Product:Putative cellobiose-phosphate degrading protein \| Pathway: \| COG: Function unknown CD630_28470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_22340 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Signal transduction mechanisms CD630_04341 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf30 \| Pathway: \| COG: CD630_21620 - Type: Gene Product:Putative GCN5-related N-acetyltransferase-likeprotein \| Pathway: \| COG: Function unknown CD630_22360 - Type: Gene Product:Putative glucokinase, ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_34490 - Type: Gene Product:Putative phosphosugar isomerase; putativetagatose-6-phosphate ketose/aldose isomerase AgaS \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_07160 - cooS Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase (CODH) \| Pathway: \| COG: Energy production and conversion CD630_22410 - nanE Type: Gene Product:N-acetylmannosamine-6-phosphate 2-epimerase(ManNAc-6-P epimerase) \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_21600 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Defense mechanisms CD630_30890 - Type: Gene Product:PTS system, glucose-like IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_22380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21590 - Type: Gene Product:Putative membrane protein, DUF1114 family \| Pathway: \| COG: Replication, recombination and repair CD630_28460 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21630 - Type: Gene Product:Putative alanyl-tRNA synthetase \| Pathway: \| COG: Function unknown CD630_22350 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_22370 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_22400 - nanA Type: Gene Product:Acetylneuraminate lyase \| Pathway: Amino-sugar metabolism \| COG: Amino acid transport and metabolism, Cell wall/membrane/envelope biogenesis CD630_34480 - Type: Gene Product:Putative ketose-bisphophate aldolase class II;putative tagatose-bisphosphate aldolase GatY \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_22390 - Type: Gene Product:Putative Na+/solute symporter, SSS family \| Pathway: \| COG: Amino acid transport and metabolism CD630_07170 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, accessory protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning	1.3	`NA`	0.61	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_22340 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Signal transduction mechanisms CD630_22350 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_151	8 CD630_31561 - Type: Gene Product:Fragment of conserved hypothetical protein (Part2) \| Pathway: \| COG: Function unknown, Function unknown CD630_06470 - Type: Gene Product:Fragment of putative fic family protein(C-terminal region) \| Pathway: \| COG: Function unknown CD630_33410 - Type: Gene Product:Fragment of putative conjugative transposonprotein Tn916-like, CTn6-Orf18 (N-terminal region) \| Pathway: \| COG: Function unknown CD630_17930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21940 - Type: Gene Product:Putative ROK protein \| Pathway: \| COG: Transcription CD630_31110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18120 - Type: Gene Product:Fragment of putative two-component responseregulator (N-terminal region) \| Pathway: \| COG: CD630_16330 - Type: Gene Product:Putative serine protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	`NA`	`NA`	0.61	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_30110 - Type: Gene Product:Transcriptional regulator, HxlR family DUF24 \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_9	25 CD630_25540 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_20650 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_22340 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Signal transduction mechanisms CD630_15550 - Type: Gene Product:Putative amino acid permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_22360 - Type: Gene Product:Putative glucokinase, ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_15710 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_05170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_22410 - nanE Type: Gene Product:N-acetylmannosamine-6-phosphate 2-epimerase(ManNAc-6-P epimerase) \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_32280 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_16610 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_22380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21280 - ispG Type: Gene Product:4-hydroxy-3-methylbut-2-en-1-yl diphosphatesynthase \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_21300 - dxr Type: Gene Product:1-deoxy-D-xylulose 5-phosphate reductoisomerase \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_25531 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_05180 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20660 - Type: Gene Product:Putative integrase \| Pathway: \| COG: Replication, recombination and repair CD630_22350 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_22370 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05100 - Type: Gene Product:Putative RNA polymerase sigma factor Tn5397,CTn3-Orf7 \| Pathway: \| COG: Function unknown CD630_05101 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf8 \| Pathway: \| COG: Function unknown CD630_15720 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_22400 - nanA Type: Gene Product:Acetylneuraminate lyase \| Pathway: Amino-sugar metabolism \| COG: Amino acid transport and metabolism, Cell wall/membrane/envelope biogenesis CD630_22390 - Type: Gene Product:Putative Na+/solute symporter, SSS family \| Pathway: \| COG: Amino acid transport and metabolism CD630_16601 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_21290 - Type: Gene Product:Putative membrane-associated peptidase, M50family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.00000000000021	0.000000031	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_22340 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Signal transduction mechanisms CD630_22350 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_73	29 CD630_31200 - Type: Gene Product:Transcriptional regulator, AbrB family \| Pathway: \| COG: Transcription CD630_19350 - spoVS Type: Gene Product:Stage V sporulation protein S \| Pathway: \| COG: Function unknown CD630_16950 - Type: Gene Product:Putative symporter protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18190 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26310 - Type: Gene Product:Putative membrane protein, UPF0078 family \| Pathway: Lipid metabolism \| COG: Function unknown CD630_03530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13370 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_15060 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_21620 - Type: Gene Product:Putative GCN5-related N-acetyltransferase-likeprotein \| Pathway: \| COG: Function unknown CD630_09860 - rpsA Type: Gene Product:30S ribosomal protein S1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31190 - Type: Gene Product:Putative UDP-glycosyltransferase, MGT subfamily \| Pathway: \| COG: Energy production and conversion, Carbohydrate transport and metabolism CD630_21110 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_27660 - LcpB Type: Gene Product:Surface-anchoring factors, LytR-CpsA-Psr-likeprotein \| Pathway: \| COG: Transcription CD630_15200 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_07380 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: Function unknown CD630_21950 - ftnA Type: Gene Product:Ferritin \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05830 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_17300 - Type: Gene Product:Putative ATP-binding protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_03541 - Type: Gene Product:Fragment of putative membrane protein \| Pathway: \| COG: Function unknown CD630_26300 - gpsA Type: Gene Product:Glycerol-3-phosphate dehydrogenase (NAD(P)+)(NAD(P)H-dependent glycerol-3-phosphate dehydrogenase) \| Pathway: Membrane lipid metabolism \| COG: Energy production and conversion CD630_21610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_03520 - Type: Gene Product:Transcriptional regulator, RmlC-type \| Pathway: \| COG: Transcription CD630_21630 - Type: Gene Product:Putative alanyl-tRNA synthetase \| Pathway: \| COG: Function unknown CD630_15190 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Function unknown CD630_26320 - Type: Gene Product:Putative GTP-binding protein EngA \| Pathway: \| COG: Nucleotide transport and metabolism CD630_16940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05840 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_05610 - Type: Gene Product:Putative aldo/keto reductase ; putativeferredoxin \| Pathway: \| COG: Energy production and conversion CD630_13390 - aspB Type: Gene Product:Aspartate aminotransferase (AspAT) (TransaminaseA) \| Pathway: \| COG: Amino acid transport and metabolism	0.00000000000089	`NA`	0.60	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`
Module_258	28 CD630_01080 - nrdD Type: Gene Product:Anaerobic ribonucleoside triphosphate reductase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_24300 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription CD630_18200 - ade Type: Gene Product:Adenine deaminase (Disrupted IStron) \| Pathway: \| COG: Nucleotide transport and metabolism, Nucleotide 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_07420 - Type: Gene Product:Putative ethanolamine transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_29900 - ssuB2 Type: Gene Product:ABC-type transport system, sulfonate-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29920 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26010 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_07400 - Type: Gene Product:Putative pyridoxal phosphate-dependentaminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_27590 - Type: Gene Product:Transcriptional regulator, Rrf2 family \| Pathway: \| COG: Transcription CD630_07160 - cooS Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase (CODH) \| Pathway: \| COG: Energy production and conversion CD630_27570 - Type: Gene Product:Putative acyl transferase/phospholipase \| Pathway: \| COG: Function unknown CD630_26750 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_06880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27600 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_01090 - nrdG Type: Gene Product:Anaerobic ribonucleoside-triphosphatereductase-activating protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_04400 - cwp27 Type: Gene Product:Putative cell wall binding protein \| Pathway: \| COG: Function unknown CD630_29910 - ssuC2 Type: Gene Product:ABC-type transport system, sulfonate-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26000 - cstA Type: Gene Product:Carbon starvation protein, CstA \| Pathway: \| COG: Signal transduction mechanisms CD630_29830 - Type: Gene Product:Putative Helix-Turn-Helix DNA-binding protein \| Pathway: \| COG: Transcription CD630_26020 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_07410 - glpK1 Type: Gene Product:Glycerol kinase (GK) \| Pathway: Polyol metabolism \| COG: Energy production and conversion CD630_25910 - ltaE Type: Gene Product:Low specificity L-threonine aldolase \| Pathway: \| COG: Amino acid transport and metabolism CD630_27580 - Type: Gene Product:Putative N6 adenine-specific DNAmethyltransferase, N12 class \| Pathway: \| COG: Defense mechanisms CD630_29890 - ssuA2 Type: Gene Product:ABC-type transport system, sulfonate-familyextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_07170 - Type: Gene Product:Bifunctional carbon monoxidedehydrogenase/acetyl-CoA synthase, accessory protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_09940 - Type: Gene Product:Putative serine-pyruvate aminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_27560 - ptsH Type: Gene Product:PTS system, HPr protein \| Pathway: \| COG: Carbohydrate transport and metabolism	0.0000000038	`NA`	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_335	13 CD630_33430 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn6-Orf21 \| Pathway: \| COG: Replication, recombination and repair CD630_33480 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: Function unknown CD630_33421 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf20 \| Pathway: \| COG: Function unknown CD630_33460 - Type: Gene Product:Putative conjugative transposon protein DUF961family Tn916-like, CTn6-Orf24 \| Pathway: \| COG: Function unknown CD630_18260 - metA Type: Gene Product:Homoserine O-succinyltransferase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_33440 - Type: Gene Product:Putative cell-division FtsK/SpoIIIE-familyprotein Tn916-like, CTn6-Orf22 \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_10910 - int Type: Gene Product:Integrase Tn1549-like, CTn4-Orf34 \| Pathway: \| COG: Replication, recombination and repair CD630_33450 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf23 \| Pathway: \| COG: Function unknown CD630_33470 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_10940 - Type: Gene Product:Putative RNA polymerase sigma factor Tn1549-like,CTn4-Orf31 \| Pathway: \| COG: Function unknown CD630_10920 - xis Type: Gene Product:Excisionase Tn1549-like, CTn4-Orf33 \| Pathway: \| COG: Function unknown CD630_10921 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf32 \| Pathway: \| COG: Function unknown CD630_18250 - metY Type: Gene Product:O-acetylhomoserine sulfhydrylase \| Pathway: \| COG: Amino acid transport and metabolism	0.000000000091	0.00023	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_13790 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_22850 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_324	28 CD630_25520 - Type: Gene Product:Putative phosphosugar isomerase \| Pathway: \| COG: Function unknown CD630_35590 - ftsH2 Type: Gene Product:Cell division protease FtsH2 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_27260 - glyA Type: Gene Product:Serine hydroxymethyltransferase \| Pathway: One-carbon metabolism \| COG: Amino acid transport and metabolism CD630_14840 - ssuA Type: Gene Product:ABC-type transport system,alkanesulfonates-family extracellular solute-bindingprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_01100 - Type: Gene Product:Conserved hypothetical protein, CHP00159 family \| Pathway: \| COG: Function unknown CD630_30900 - treR Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_14820 - ssuC Type: Gene Product:ABC-type transport system, sulfonates-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16490 - Type: Gene Product:ABC-type transport system, iron-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29940 - nrdF Type: Gene Product:Ribonucleoside-diphosphate reductase subunit beta(Ribonucleotide reductase small subunit) \| Pathway: Genetic information processing \| COG: Nucleotide transport and metabolism CD630_30380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16470 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25510 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_27270 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_25530 - Type: Gene Product:PTS system, fructose/mannitol-family IICcomponent (Disrupted IStron) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14830 - ssuB Type: Gene Product:ABC-type transport system, sulfonates-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_14810 - Type: Gene Product:Putative tryptophan RNA-binding attenuationprotein \| Pathway: \| COG: Signal transduction mechanisms CD630_16480 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_01111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_01110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30910 - treA Type: Gene Product:Trehalose-6-phosphate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32190 - hslO Type: Gene Product:33 kDa chaperonin (Heat shock protein 33 homolog)(HSP33) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_29930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_16500 - Type: Gene Product:ABC-type transport system, iron-familyextracellular substrate-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_29950 - nrdE Type: Gene Product:Ribonucleoside-diphosphate reductase subunitalpha (Ribonucleotide reductase large subunit) \| Pathway: Genetic information processing \| COG: Nucleotide transport and metabolism CD630_16220 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_27280 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_35600 - tilS Type: Gene Product:tRNA(Ile)-lysidine synthase (tRNA(Ile)-lysidinesynthetase) (tRNA(Ile)-2-lysyl-cytidine synthase) \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning	0.0000000014	0.13	0.60	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_128	26 CD630_13120 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_25540 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_11550 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15720 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_06810 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06052 - Type: Gene Product: \| Pathway: \| COG: CD630_35210 - Type: Gene Product:Putative peptidase T, M20B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_15000 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_07080 - pepD Type: Gene Product:Peptidase D, aminoacyl-histidine dipeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_17190 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_07100 - Type: Gene Product:Conserved hypothetical protein, DUF523 family \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_06790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16610 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_20440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_18210 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_25531 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_33670 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_11540 - cdPadR1 Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription CD630_08980 - Type: Gene Product:Conserved hypothetical protein, DUF1846-family \| Pathway: \| COG: Function unknown CD630_06800 - Type: Gene Product:Conserved hypothetical protein, DUF1486 family \| Pathway: \| COG: Function unknown CD630_15710 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_07090 - mutS2 Type: Gene Product:DNA mismatch repair protein \| Pathway: \| COG: Replication, recombination and repair CD630_06380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_08170 - tlpB Type: Gene Product:Transposase-like protein B \| Pathway: \| COG: Replication, recombination and repair CD630_16601 - tlpA Type: Gene Product:Transposase-like protein A \| Pathway: \| COG: CD630_20450 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	4.3e-29	1.6e-21	0.60	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_06830 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`