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 271 - 280 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_336	27 CD630_10460 - pepT Type: Gene Product:Peptidase T \| Pathway: \| COG: Amino acid transport and metabolism CD630_28470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_05190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04360 - Type: Gene Product:Putative recombinase Tn1549-like, CTn2-Orf34 \| Pathway: \| COG: Replication, recombination and repair CD630_17680 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_21640 - ldh Type: Gene Product:L-lactate dehydrogenase (L-LDH) \| Pathway: Fermentation \| COG: Energy production and conversion CD630_06420 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_06400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_08300 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18820 - Type: Gene Product:Site-specific recombinase \| Pathway: \| COG: Replication, recombination and repair CD630_31820 - Type: Gene Product:Putative D-aminoacylase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_16120 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_28480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_32320 - CdsB Type: Gene Product:Cysteine desulfidase \| Pathway: \| COG: Function unknown CD630_08940 - Type: Gene Product:Putative iron-dependent hydrogenase \| Pathway: \| COG: Energy production and conversion CD630_13790 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_06590 - tcdR Type: Gene Product:Alternative RNA polymerase sigma factors \| Pathway: \| COG: CD630_27510 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28460 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12600 - brnQ-2 Type: Gene Product:Branched chain amino acid transport systemcarrier protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_30050 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription CD630_06410 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_22130 - cynT Type: Gene Product:Carbonic anhydrase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06300 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_10470 - cwp18 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_26250 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Carbohydrate transport and metabolism	1.9e-23	`NA`	0.54	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_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_248	30 CD630_32120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_34810 - Type: Gene Product:Protein-tyrosine phosphatase reductase \| Pathway: \| COG: Signal transduction mechanisms CD630_34870 - rho Type: Gene Product:Transcription termination factor Rho \| Pathway: \| COG: Transcription CD630_34850 - hemK Type: Gene Product:Modification methylase HemK \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34830 - Type: Gene Product:Putative zinc/iron permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10830 - Type: Gene Product:PTS system, lactose/cellobiose specific IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21780 - Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Energy production and conversion CD630_09860 - rpsA Type: Gene Product:30S ribosomal protein S1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_10810 - moeA Type: Gene Product:Molybdenum cofactor biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_34860 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_14590 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Nucleotide transport and metabolism CD630_34030 - Type: Gene Product:Putative formate/nitrite transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33090 - ligA Type: Gene Product:DNA ligase (Polydeoxyribonucleotide synthase[NAD+]) \| Pathway: \| COG: Replication, recombination and repair CD630_27480 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Replication, recombination and repair CD630_21850 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22840 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18000 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_32130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17671 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_34800 - rpiB2 Type: Gene Product:Ribose-5-phosphate isomerase 2 \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10820 - mobB Type: Gene Product:Molybdopterin-guanine dinucleotide biosynthesisprotein B \| Pathway: \| COG: Coenzyme transport and metabolism CD630_27490 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Function unknown CD630_34820 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34861 - rpmE Type: Gene Product:50S ribosomal protein L31 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21790 - Type: Gene Product:Putative anaerobic dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_34840 - prfA Type: Gene Product:Peptide chain release factor 1 (RF-1) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17990 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_34790 - upp Type: Gene Product:Uracil phosphoribosyltransferase (UMPpyrophosphorylase) (UPRTase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_17680 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_21860 - Type: Gene Product:Putative phage-like protein \| Pathway: \| COG:	0.06	`NA`	0.54	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_27220 - 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_368	28 CD630_06980 - Type: Gene Product:Putative tRNA/rRNA methyltransferase, SpoU \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_10770 - Type: Gene Product:PTS system, mannose/fructose/sorbose IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17330 - hemE Type: Gene Product:Uroporphyrinogen decarboxylase (URO-D) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_00070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_00050 - gyrB Type: Gene Product:DNA gyrase subunit B \| Pathway: \| COG: Replication, recombination and repair CD630_10750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_00090 - rsbV Type: Gene Product:Anti-anti-sigma factor \| Pathway: \| COG: Signal transduction mechanisms CD630_10730 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_14070 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_22640 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14050 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_15300 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_10780 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIDcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_00110 - sigB Type: Gene Product:RNA polymerase sigma-B factor \| Pathway: \| COG: Transcription CD630_00040 - recF Type: Gene Product:DNA replication and repair protein RecF \| Pathway: \| COG: Replication, recombination and repair CD630_00020 - dnaN Type: Gene Product:DNA polymerase III subunit beta \| Pathway: \| COG: Replication, recombination and repair CD630_10760 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17320 - Type: Gene Product:Putative cobalamin-binding protein \| Pathway: \| COG: Function unknown CD630_00060 - gyrA Type: Gene Product:DNA gyrase subunit A \| Pathway: \| COG: Replication, recombination and repair CD630_10740 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_06970 - Type: Gene Product:Putative regulator of K+ conductance \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_14080 - ddl Type: Gene Product:D-alanine--D-alanine ligase (D-alanylalaninesynthetase) (D-Ala-D-Ala ligase) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_14060 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23051 - Type: Gene Product:Fragment of transposase (N-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_06960 - Type: Gene Product:Putative cation transport protein, Trk family \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15310 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22630 - prsA Type: Gene Product:Peptidyl-prolyl cis-trans isomerase, PpiC-type \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	1.3	`NA`	0.54	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_386	20 CD630_17050 - thiH Type: Gene Product:Thiamine biosynthesis protein ThiH \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16010 - thiE Type: Gene Product:Thiamine-phosphate pyrophosphorylase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_07670 - srlB Type: Gene Product:PTS system, sorbitol-specific IIA component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17040 - thiG Type: Gene Product:Thiazole biosynthesis protein ThiG \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_17021 - thiS Type: Gene Product:Thiamine biosynthesis protein ThiS \| Pathway: \| COG: Coenzyme transport and metabolism CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown CD630_16040 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_07620 - srlR Type: Gene Product:PTS operon regulator \| Pathway: \| COG: Transcription CD630_17060 - thiE2 Type: Gene Product:Thiamine-phosphate pyrophosphorylase ThiE2 \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16000 - thiM Type: Gene Product:Hydroxyethylthiazole kinase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_17020 - thiC Type: Gene Product:Thiamine biosynthesis protein ThiC \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_16030 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Defense mechanisms CD630_17030 - thiF Type: Gene Product:Thiamine biosynthesis protein ThiF \| Pathway: \| COG: Coenzyme transport and metabolism CD630_07680 - srlD Type: Gene Product:Sorbitol 6-phosphate 2-dehydrogenase (Glucitol) \| Pathway: \| COG: Function unknown CD630_32510 - Type: Gene Product:Putative dehydrogenase \| Pathway: \| COG: Function unknown CD630_07640 - srlA Type: Gene Product:PTS system, sorbitol-specific IIC component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16050 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_15990 - thiD Type: Gene Product:Phosphomethylpyrimidine kinase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_32520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0	2.9	0.54	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_07620 - srlR Type: Gene Product:PTS operon regulator \| Pathway: \| COG: Transcription CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown CD630_27360 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_54	24 CD630_20061 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17130 - moaA Type: Gene Product:Molybdenum cofactor biosynthesis protein MoaA \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_29630 - ldtcd1 Type: Gene Product:L,D-transpeptidases \| Pathway: \| COG: Function unknown CD630_20100 - ermB Type: Gene Product:rRNA adenine N-6-methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17400 - Type: Gene Product:Glycine/sarcosine/betaine reductase complex,protein B, alpha and beta subunits \| Pathway: \| COG: Function unknown CD630_10830 - Type: Gene Product:PTS system, lactose/cellobiose specific IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10810 - moeA Type: Gene Product:Molybdenum cofactor biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_10850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20091 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31410 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_31390 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_27480 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Replication, recombination and repair CD630_20070 - ermB Type: Gene Product:rRNA adenine N-6-methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17140 - moaC Type: Gene Product:Molybdenum cofactor biosynthesis protein MoaC \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_10820 - mobB Type: Gene Product:Molybdopterin-guanine dinucleotide biosynthesisprotein B \| Pathway: \| COG: Coenzyme transport and metabolism CD630_27490 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Function unknown CD630_05270 - Type: Gene Product:Putative beta-lactamase-like hydrolase \| Pathway: \| COG: Function unknown CD630_29620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10840 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_10860 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_17150 - Type: Gene Product:Putative molybdenum cofactor sulfurase \| Pathway: \| COG: Function unknown CD630_20080 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_31400 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_17120 - moaB Type: Gene Product:Molybdenum cofactor biosynthesis protein MoaB \| Pathway: \| COG: Coenzyme transport and metabolism	0.00000036	`NA`	0.54	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_08870 - Type: Gene Product:Transcriptional regulator, GntR 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_286	27 CD630_22860 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_22870 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_33870 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf24 \| Pathway: \| COG: Function unknown CD630_25680 - Type: Gene Product:PTS system, mannose-specfic IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_12350 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_16270 - vanY Type: Gene Product:D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_r0090 - 5s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_02430 - Type: Gene Product:Methyltransferase \| Pathway: \| COG: Function unknown CD630_05240 - Type: Gene Product:Putative peptidase, M20 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_25650 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Transcription CD630_25670 - Type: Gene Product:PTS system, mannose-specfic IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_25201 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal part) \| Pathway: \| COG: CD630_17860 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31531 - Type: Gene Product:Fragment of putative phage protein (N-terminalregion) \| Pathway: \| COG: Function unknown CD630_30630 - Type: Gene Product:Putative peptidase, S41 family \| Pathway: \| COG: Function unknown CD630_r0310 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_33871 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf25 \| Pathway: \| COG: Function unknown CD630_13010 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_21220 - Type: Gene Product:Putative cations transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14180 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_15831 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16260 - vanG Type: Gene Product:D-alanine--D-alanine ligase 2 \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_25660 - Type: Gene Product:PTS system, mannose-specfic IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16280 - vanT Type: Gene Product:Alanine racemase 1 \| Pathway: Amino-acid biosynthesis \| COG: Cell wall/membrane/envelope biogenesis	0	0.57	0.54	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_22150 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| 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_254	4 CD630_18430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02920 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_30070 - Type: Gene Product:Putative L,D-transpeptidases \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_29570 - ntpC Type: Gene Product:V-type sodium ATPase subunit C \| Pathway: \| COG: Energy production and conversion	`NA`	`NA`	0.54	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_25950 - pyrR Type: Gene Product:Bifunctional protein PyrR [Includes: Pyrimidineoperon regulatory protein; Uracil phosphoribosyltransferase(UPRTase)] \| Pathway: \| COG: Nucleotide transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_270	19 CD630_04990 - Type: Gene Product:Putative replication initiation factor Tn5397,CTn3-Orf20 \| Pathway: \| COG: Transcription CD630_04991 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf19 \| Pathway: \| COG: Function unknown CD630_05010 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf17 \| Pathway: \| COG: Function unknown CD630_04980 - Type: Gene Product:Putative cell-division FtsK/SpoIIIE-familyprotein Tn5397, CTn3-Orf21 \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_05070 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf13 \| Pathway: \| COG: Function unknown CD630_05030 - Type: Gene Product:Putative membrane protein Tn5397, CTn3-Orf15 \| Pathway: \| COG: Function unknown CD630_04960 - Type: Gene Product:Putative conjugative transposon protein DUF961family Tn5397, CTn3-Orf23 \| Pathway: \| COG: Function unknown CD630_33460 - Type: Gene Product:Putative conjugative transposon protein DUF961family Tn916-like, CTn6-Orf24 \| Pathway: \| COG: Function unknown CD630_05020 - Type: Gene Product:Putative ATPase Tn5397, CTn3-Orf16 \| Pathway: \| COG: Function unknown CD630_05000 - Type: Gene Product:Putative antirestriction protein Tn5397,CTn3-Orf18 \| Pathway: \| COG: Function unknown CD630_04970 - Type: Gene Product:Putative conjugative transposon protein DUF961family Tn5397, CTn3-Orf22 \| Pathway: \| COG: Function unknown 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_09071 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_33450 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf23 \| Pathway: \| COG: Function unknown CD630_22222 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: CD630_33470 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_09080 - Type: Gene Product:Putative antirepressor protein \| Pathway: \| COG: Transcription CD630_33480 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: Function unknown CD630_09090 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	0.0000004	0.15	0.54	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_36680 - rstA Type: Gene Product:Regulator of sporulation and toxins \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_155	23 CD630_03550 - int Type: Gene Product:Integrase Tn916-like, CTn1-Orf1 \| Pathway: \| COG: Replication, recombination and repair CD630_11041 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf18 \| Pathway: \| COG: Function unknown CD630_11180 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf1 \| Pathway: \| COG: Function unknown CD630_03800 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn1-Orf25 \| Pathway: \| COG: Function unknown CD630_23260 - gatB Type: Gene Product:PTS system, galactitol-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05110 - tndX Type: Gene Product:Recombinase site-specific resolvase familyTn5397, CTn3-Orf3 \| Pathway: \| COG: Replication, recombination and repair CD630_03590 - Type: Gene Product:Putative RNA polymerase sigma factor Tn916-like,CTn1-Orf4 \| Pathway: \| COG: Function unknown CD630_23240 - Type: Gene Product:Putative sugar-phosphate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_11030 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf21 \| Pathway: \| COG: Function unknown CD630_11150 - Type: Gene Product:Putative conjugative transfer proteinTn1549-like, CTn4-Orf4 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_11170 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf2 \| Pathway: \| COG: Function unknown CD630_11010 - Type: Gene Product:Putative mobilization protein Tn1549-like,CTn4-Orf23 \| Pathway: \| COG: Function unknown CD630_11130 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf6 \| Pathway: \| COG: Function unknown CD630_03790 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn1-Orf24 \| Pathway: \| COG: Function unknown CD630_03560 - xis Type: Gene Product:Excisionase Tn916-like, CTn1-Orf2 \| Pathway: \| COG: Function unknown CD630_03810 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn1-Orf26 \| Pathway: \| COG: Transcription CD630_23180 - Type: Gene Product:Putative phosphohexomutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_03580 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn1-Orf3 \| Pathway: \| COG: Function unknown CD630_23270 - gatA Type: Gene Product:PTS system, galactitol-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23230 - Type: Gene Product:Putative sugar-phosphate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_23250 - gatC Type: Gene Product:PTS system, galactitol-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_11020 - Type: Gene Product:Putative endonuclease relaxase Tn1549-like,CTn4-Orf22 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_11160 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf3 \| Pathway: \| COG: Function unknown	0.000000000000093	0.00036	0.54	Inferelator: 1 Hypergeometric: 2 TF Influences from Inferelator CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription CD630_31760 - glnF Type: Gene Product:RNA polymerase sigma-54 factor \| Pathway: \| COG: Transcription
Module_271	11 CD630_34400 - Type: Gene Product:Putative glycoside hydrolase-typecarbohydrate-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01730 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_18940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22220 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_06642 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26630 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_08310 - Type: Gene Product:Putative ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_18130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20541 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_10150 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_22180 - int Type: Gene Product:Fragment of putative integrase (C-terminalregion) \| Pathway: \| COG: Replication, recombination and repair	0.5	`NA`	0.54	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_24300 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`