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_117	27 CD630_01920 - cls Type: Gene Product:Cardiolipin synthetase 1 \| Pathway: \| COG: Lipid transport and metabolism CD630_22870 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_30440 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_12630 - Type: Gene Product:Putative FMN-dependent dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_24750 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12610 - Type: Gene Product:Putative ribonucleotide-diphosphate reductase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_24770 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10130 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_24780 - Type: Gene Product:Putative DNA uptake transporter \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_25710 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_34120 - uvrB Type: Gene Product:Excinuclease ABC subunit B \| Pathway: \| COG: Replication, recombination and repair CD630_34100 - uvrC Type: Gene Product:Excinuclease ABC subunit C \| Pathway: \| COG: Replication, recombination and repair CD630_30450 - Type: Gene Product:Putative ATPase, BadF/BadG/BcrA/BcrD type \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34090 - hprK Type: Gene Product:PTS system, HPr kinase/phosphorylase \| Pathway: \| COG: Signal transduction mechanisms CD630_32170 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_22860 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_12620 - rnhB Type: Gene Product:Ribonuclease HII (RNase HII) \| Pathway: \| COG: Replication, recombination and repair CD630_24740 - Type: Gene Product:Putative DNA polymerase III, delta subunit \| Pathway: \| COG: Replication, recombination and repair CD630_25240 - nadD Type: Gene Product:Nicotinate-nucleotide adenylyltransferase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_01910 - Type: Gene Product:Putative DNA glycosylase \| Pathway: \| COG: Replication, recombination and repair CD630_24760 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10140 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_12640 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25700 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_34110 - uvrA Type: Gene Product:Excinuclease ABC subunit A \| Pathway: \| COG: Replication, recombination and repair CD630_25230 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Coenzyme transport and metabolism	0.04	`NA`	0.59	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_316	21 CD630_31730 - pgk Type: Gene Product:Phosphoglycerate kinase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_33950 - pfkA Type: Gene Product:6-phosphofructokinase (Phosphofructokinase)(Phosphohexokinase) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_26410 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_27500 - agrB Type: Gene Product:Accessory gene regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_31720 - tpi Type: Gene Product:Triosephosphate isomerase (TIM) (Triose-phosphateisomerase) \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_33940 - pyk Type: Gene Product:Pyruvate kinase (PK) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_31710 - gpmI Type: Gene Product:2,3-bisphosphoglycerate-independentphosphoglycerate mutase (Phosphoglyceromutase)(BPG-independent PGAM) (iPGM) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_27491 - agrD Type: Gene Product:Autoinducer prepeptide \| Pathway: \| COG: CD630_10670 - CdeC Type: Gene Product:Clostridium difficile exosporium cycteine-richprotein \| Pathway: \| COG: CD630_26380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_26350 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26390 - Type: Gene Product:Putative laccase protein \| Pathway: \| COG: Function unknown CD630_26370 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_31740 - gapA Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_26440 - spoIIGA Type: Gene Product:Sporulation sigma-E factor processing peptidase \| Pathway: \| COG: Function unknown CD630_26360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_26340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription	0.19	`NA`	0.60	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms
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_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_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_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_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`