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 351 - 360 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_142	28 CD630_34910 - Type: Gene Product:Putative exopolyphosphatase \| Pathway: \| COG: Nucleotide transport and metabolism, Inorganic ion transport and metabolism CD630_34930 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_35090 - pilO Type: Gene Product:Type IV pilus assembly protein \| Pathway: \| COG: CD630_03530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28310 - Type: Gene Product:Collagen binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_05670 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_14720 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_35010 - mfd Type: Gene Product:Transcription-repair coupling factor (TRCFATP-dependent helicase mfd) \| Pathway: \| COG: Replication, recombination and repair CD630_35110 - pilC Type: Gene Product:Type IV pilus secretion protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_34960 - hbs Type: Gene Product:DNA-binding protein, non-specific \| Pathway: \| COG: Replication, recombination and repair CD630_35030 - pilD Type: Gene Product:Type IV prepilin leader peptidase \| Pathway: \| COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport CD630_35070 - pilU Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_35050 - pilT Type: Gene Product:Type IV pilus twitching motility protein \| Pathway: \| COG: Cell motility, Intracellular trafficking, secretion, and vesicular transport CD630_03541 - Type: Gene Product:Fragment of putative membrane protein \| Pathway: \| COG: Function unknown CD630_03520 - Type: Gene Product:Transcriptional regulator, RmlC-type \| Pathway: \| COG: Transcription CD630_35080 - pilV Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_26140 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_34980 - spoVB Type: Gene Product:Stage V sporulation protein B \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_14730 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease \| Pathway: \| COG: Defense mechanisms CD630_35120 - pilB Type: Gene Product:Type IV pilus transporter system, ATP-binding \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_35000 - prsA Type: Gene Product:Peptidylprolyl isomerase PrsA-like \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_35040 - pilD Type: Gene Product:Type IV prepilin peptidase, A24A family \| Pathway: \| COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport CD630_35020 - pth Type: Gene Product:Peptidyl-tRNA hydrolase (PTH) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35100 - pilMN Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Function unknown CD630_35060 - pilK Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_26150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_05660 - Type: Gene Product:Putative tRNA/rRNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34950 - Type: Gene Product:Putative RNA-binding S4 domain-containingprotein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.000081	0.02	0.59	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_16860 - Type: Gene Product:Transcriptional regulator, repressor-like \| 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`
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_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_100	21 CD630_20400 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_16632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_05160 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Signal transduction mechanisms CD630_02731 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_20051 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Transcription CD630_22290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06240 - Type: Gene Product:Putative transcriptional regulator, activatorMor \| Pathway: \| COG: Transcription CD630_17870 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_11031 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf20 \| Pathway: \| COG: CD630_05150 - Type: Gene Product:D-alanyl-D-alanine carboxypeptidase, S11peptidase family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_09060 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: CD630_02440 - Type: Gene Product:Putative CDP-glycerol:Poly(glycerophosphate)glycerophosphotransferase \| Pathway: \| COG: Function unknown CD630_18800 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_16731 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14181 - Type: Gene Product:Fragment of putative phage protein (Part 3) \| Pathway: \| COG: Replication, recombination and repair, Replication, recombination and repair CD630_17590 - Type: Gene Product:Putative SAM-dependent methyltransferase \| Pathway: \| COG: Function unknown CD630_05621 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_01340 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_02010 - Type: Gene Product:Putative chromate transporter \| Pathway: \| COG: Inorganic ion transport and metabolism	7.7	`NA`	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_05160 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Signal transduction mechanisms CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_406	21 CD630_33310 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf7 \| Pathway: \| COG: Function unknown CD630_14860 - Type: Gene Product:Putative ribosome recycling factor \| Pathway: \| COG: CD630_09420 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_33930 - rumA Type: Gene Product:23S rRNA (uracil-5-)-methyltransferase RumA (23SrRNA(M-5-U1939)-methyltransferase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09410 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29190 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_31990 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_34540 - Type: Gene Product:Putative nucleotide-binding protein \| Pathway: \| COG: Function unknown CD630_14850 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30800 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14281 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14280 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_29230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_23040 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_14290 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_31020 - Type: Gene Product:Putative peptidase, M20 family, peptidase Vrelated \| Pathway: \| COG: Amino acid transport and metabolism CD630_29210 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_25170 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_31010 - Type: Gene Product:PTS system, glucose-like IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism 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	0.00000000042	0.000000035	0.60	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_55	24 CD630_11890 - Type: Gene Product:Putative amino acid/polyamine transporter I \| Pathway: \| COG: Amino acid transport and metabolism CD630_00150 - tadA Type: Gene Product:tRNA specific adenosine deaminase \| Pathway: \| COG: Nucleotide transport and metabolism, Translation, ribosomal structure and biogenesis CD630_05300 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_21520 - Type: Gene Product:Putative glutamyl-aminopeptidase, M42 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_00450 - Type: Gene Product:Putative sugar-phosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15550 - Type: Gene Product:Putative amino acid permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_30040 - kdgT2 Type: Gene Product:2-keto-3-deoxygluconate permease 2 \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_11870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30020 - uxaA Type: Gene Product:D-galactate dehydratase/Altronate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30000 - dapA1 Type: Gene Product:Dihydrodipicolinate synthase 1 \| Pathway: \| COG: Amino acid transport and metabolism CD630_05280 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Amino acid transport and metabolism CD630_06210 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_22241 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: CD630_20050 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: Function unknown CD630_11880 - Type: Gene Product:Putative gamma-glutamyl-gamma-aminobutyratehydrolase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_06180 - Type: Gene Product:Transcriptional regulator, LytR family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_11190 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_18781 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_22560 - Type: Gene Product:Putative PTS system, EIIC component \| Pathway: \| COG: Function unknown CD630_02970 - bioB Type: Gene Product:Biotin synthase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_30010 - Type: Gene Product:Putative hydrolase/isomerase/hydratase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_30030 - Type: Gene Product:Putative N-terminus region of carbohydratehydrolase, SAF domain \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.0000000000000037	`NA`	0.60	Inferelator: 0 Hypergeometric: 1 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_266	21 CD630_17280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26660 - ptsG-A Type: Gene Product:PTS system, glucose-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_23360 - Type: Gene Product:Putative toxic anion resistance protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26670 - ptsG-BC Type: Gene Product:PTS system, glucose-specific IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23370 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_11190 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_20580 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_03400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30310 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_29360 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_22952 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_29370 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	0.01	`NA`	0.60	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_26650 - Type: Gene Product:Transcriptional regulator, AraC 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_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`