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 221 - 230 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_250	24 CD630_30900 - treR Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_07360 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07320 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_07340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07300 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_17840 - truA2 Type: Gene Product:Pseudouridylate synthase (tRNA pseudouridinesynthase A) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17800 - Type: Gene Product:Putative methylase \| Pathway: \| COG: Replication, recombination and repair CD630_03250 - cbiN Type: Gene Product:ABC-type transport system, cobalt-specificextracellular solute-binding protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03270 - cbiO Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_27370 - Type: Gene Product:Putative nitrilase/cyanide hydratase andapolipoprotein N-acyltransferase \| Pathway: \| COG: Function unknown CD630_17790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_30910 - treA Type: Gene Product:Trehalose-6-phosphate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07310 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Function unknown CD630_07330 - Type: Gene Product:Putative biotin/lipoate-protein ligase \| Pathway: Protein modification \| COG: Coenzyme transport and metabolism CD630_27380 - Type: Gene Product:Putative cytosine permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_11370 - rnfC Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_03240 - cbiM Type: Gene Product:Cobalamin biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_17830 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_17810 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_03260 - cbiQ Type: Gene Product:ABC-type transport system, cobalt-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism	0.00015	`NA`	0.52	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_140	27 CD630_03340 - adhE Type: Gene Product:Aldehyde-alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_20430 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_24180 - Type: Gene Product:PTS system, Sorbitol-like IIC component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04570 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_31060 - Type: Gene Product:Transaldolase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_31100 - Type: Gene Product:6-phosphofructokinase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_23430 - cat1 Type: Gene Product:Succinyl-CoA:coenzyme A transferase \| Pathway: \| COG: Energy production and conversion CD630_15760 - Type: Gene Product:Putative esterase, SGNH hydrolase-type \| Pathway: \| COG: Amino acid transport and metabolism CD630_26270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21910 - Type: Gene Product:Putative phosphoesterase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_21870 - Type: Gene Product:Putative phage-related cell wall hydrolase \| Pathway: \| COG: Cell motility, Intracellular trafficking, secretion, and vesicular transport CD630_26260 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_34600 - tkt Type: Gene Product:Transketolase, thiamine diphosphate bindingsubunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32050 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_04580 - Type: Gene Product:Putative beta-lactamase \| Pathway: \| COG: Defense mechanisms CD630_25260 - glgB Type: Gene Product:1,4-alpha-glucan branching enzyme \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31070 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_15770 - pgm Type: Gene Product:Alpha-phosphoglucomutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31030 - Type: Gene Product:PTS system, glucose-like IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23420 - sucD Type: Gene Product:Succinate-semialdehyde dehydrogenase (NAD(P)+) \| Pathway: \| COG: Energy production and conversion CD630_04600 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_32060 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_05450 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_34590 - tkt Type: Gene Product:Transketolase, pyridine binding subunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04590 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms	2.4e-22	`NA`	0.52	Inferelator: 4 Hypergeometric: 1 TF Influences from Inferelator CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription
Module_373	18 CD630_20840 - Type: Gene Product:Putative peptidase, M20 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_20850 - dpaL Type: Gene Product:Diaminopropionate ammonia-lyase \| Pathway: \| COG: Amino acid transport and metabolism CD630_28350 - abgT Type: Gene Product:Aminobenzoyl-glutamate transport protein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_30660 - xylR Type: Gene Product:Transcriptional regulator, Xylose repressor \| Pathway: \| COG: Transcription CD630_28170 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_28340 - glyA Type: Gene Product:Serine hydroxymethyltransferase (Serinemethylase) (SHMT) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_28360 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_31521 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31530 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_04500 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_10160 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_00450 - Type: Gene Product:Putative sugar-phosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30640 - xylA Type: Gene Product:Xylose isomerase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31510 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_28180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_30650 - xylB Type: Gene Product:Xylulose kinase \| Pathway: \| COG: Carbohydrate transport and metabolism	0.000000015	0.00000086	0.52	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_267	24 CD630_10790 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_21230 - Type: Gene Product:Putative multiprotein-complex assembly TPRrepeat-containing protein \| Pathway: \| COG: Function unknown CD630_01530 - hpdB Type: Gene Product:4-hydroxyphenylacetate decarboxylase, catalyticsubunit \| Pathway: \| COG: Energy production and conversion CD630_11200 - pflD Type: Gene Product:Formate acetyltransferase (Pyruvateformate-lyase) \| Pathway: \| COG: Energy production and conversion CD630_11220 - Type: Gene Product:Transcriptional regulator, RmlC-type \| Pathway: \| COG: Transcription CD630_01550 - hpdA Type: Gene Product:4-hydroxyphenylacetate decarboxylase, activatingsubunit \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_09570 - Type: Gene Product:Putative phage lipoprotein \| Pathway: \| COG: Function unknown CD630_07710 - spoIIAB Type: Gene Product:Anti-sigma F factor (Stage II sporulation proteinAB) \| Pathway: \| COG: Signal transduction mechanisms CD630_08530 - oppB Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08550 - oppA Type: Gene Product:ABC-type transport system, oligopeptide-familyextracellular solute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_28140 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_09610 - Type: Gene Product:Putative phage cell wall hydrolase \| Pathway: \| COG: Function unknown CD630_09650 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_21240 - Type: Gene Product:Putative malate transporter \| Pathway: \| COG: Function unknown CD630_11210 - pflC Type: Gene Product:Pyruvate formate-lyase 2-activating enzyme \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07720 - sigF Type: Gene Product:RNA polymerase sigma-F factor \| Pathway: \| COG: Transcription CD630_10800 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_08560 - oppD Type: Gene Product:ABC-type transport system, ATP-binding component \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_07700 - spoIIAA Type: Gene Product:Anti-sigma F factor antagonist \| Pathway: \| COG: Signal transduction mechanisms CD630_09620 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_08540 - oppC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_09580 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28150 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.00000000028	0.000099	0.52	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_07720 - sigF Type: Gene Product:RNA polymerase sigma-F factor \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_26750 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_301	16 CD630_15880 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13590 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_15890 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13601 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_15870 - Type: Gene Product:ABC-type transport system, sugar-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15860 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13600 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_35920 - pyrF Type: Gene Product:Orotidine 5'-phosphate decarboxylase (OMPdecarboxylase) (OMPDCase) (OMPdecase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_13610 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_15840 - Type: Gene Product:Transcriptional regulator, repressor ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_35880 - carB1 Type: Gene Product:Carbamoyl-phosphate synthase large chain 1 \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism CD630_15850 - Type: Gene Product:Putative N-acetylglucosamine kinase NAGK-like \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35910 - carA Type: Gene Product:Carbamoyl-phosphate synthase small chain \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism CD630_35900 - carB2 Type: Gene Product:Carbamoyl-phosphate synthase large chain 2 \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism	0.17	`NA`	0.52	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_15840 - Type: Gene Product:Transcriptional regulator, repressor ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_22890 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30870 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_360	23 CD630_23800 - iorB Type: Gene Product:Indole pyruvate ferredoxin/flavodoxinoxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_30920 - Type: Gene Product:Putative amino acid permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_23790 - buk Type: Gene Product:Butyrate kinase (Branched-chain carboxylic acidkinase) (BK) \| Pathway: \| COG: Energy production and conversion CD630_28700 - kdgT1 Type: Gene Product:2-keto-3-deoxygluconate permease 1 \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28720 - uxaA Type: Gene Product:Fragment of C-terminal D-galactatedehydratase/Altronate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23820 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_20840 - Type: Gene Product:Putative peptidase, M20 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_00430 - Type: Gene Product:PTS system, galactitol-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_00410 - Type: Gene Product:PTS system, galactitol-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08000 - crt1 Type: Gene Product:3-hydroxybutyryl-CoA dehydratase (Crotonase) \| Pathway: \| COG: Lipid transport and metabolism CD630_04930 - Type: Gene Product:PTS system, mannose/fructose/sorbose IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04910 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30930 - Type: Gene Product:Putative gamma-glutamyl-gamma-aminobutyratehydrolase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_23810 - iorA Type: Gene Product:Indole pyruvate ferredoxin/flavodoxinoxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_28710 - uxaA Type: Gene Product:Fragment of N-terminal carbohydrate hydrolase,SAF domain \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_00440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_00400 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Signal transduction mechanisms CD630_20850 - dpaL Type: Gene Product:Diaminopropionate ammonia-lyase \| Pathway: \| COG: Amino acid transport and metabolism CD630_00420 - Type: Gene Product:PTS system, galactitol-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08010 - Type: Gene Product:Putative permease, divalent anion symporterfamily \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_04940 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIDcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04900 - Type: Gene Product:Putative sugar-phosphate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_04920 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism	0.0000000000000069	0.00093	0.52	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_31760 - glnF Type: Gene Product:RNA polymerase sigma-54 factor \| Pathway: \| COG: Transcription
Module_376	24 CD630_04570 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_10680 - Type: Gene Product:Putative polysaccharide biosynthesis/sporulationprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_10710 - Type: Gene Product:Conserved hypothetical protein, UPF0291 proteinfamily \| Pathway: \| COG: Function unknown CD630_18880 - rsiU Type: Gene Product:Anti Sigma Factor, ECF family \| Pathway: \| COG: Function unknown CD630_31960 - Type: Gene Product:Putative penicillin-binding protein \| Pathway: \| COG: Defense mechanisms CD630_22120 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_18900 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_31940 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_22100 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease \| Pathway: \| COG: Defense mechanisms CD630_16760 - pcp Type: Gene Product:Pyrrolidone-carboxylate peptidase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_18860 - Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription CD630_04580 - Type: Gene Product:Putative beta-lactamase \| Pathway: \| COG: Defense mechanisms CD630_31980 - cme Type: Gene Product:Multidrug resistance protein Cme; Transporter,Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16770 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_10720 - Type: Gene Product:Putative aminopeptidase I, M18 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_10700 - Type: Gene Product:Putative aminotransferase \| Pathway: \| COG: Transcription CD630_16780 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18890 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_10690 - Type: Gene Product:Putative histidinol phosphatase/hydrolase, PHPfamily \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_31970 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_31950 - Type: Gene Product:Putative UvrABC system protein A 2 (UvrA protein2) (Excinuclease ABC subunit A 2) \| Pathway: \| COG: Replication, recombination and repair CD630_18870 - csfU Type: Gene Product:Extra-Cytoplasmic Function sigma factors, ECFfamily \| Pathway: \| COG: Transcription CD630_22110 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease \| Pathway: \| COG: Defense mechanisms CD630_18850 - Type: Gene Product:Putative acetylesterase \| Pathway: \| COG: Function unknown	0	`NA`	0.52	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22120 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_287	23 CD630_26550 - murF Type: Gene Product:UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase (UDP-MurNAc-pentapeptide synthetase)(D-alanyl-D-alanine-adding enzyme) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_33310 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf7 \| Pathway: \| COG: Function unknown CD630_26470 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26490 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14640 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_07460 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_14660 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_11850 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_31680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_26520 - spoVE Type: Gene Product:Cell division/stage V sporulation protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_07480 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_26500 - Type: Gene Product:Putative cell division protein Fts-Q type \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_26540 - mraY Type: Gene Product:Phospho-N-acetylmuramoyl-pentapeptide-transferase(UDP- MurNAc-pentapeptide phosphotransferase) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_33320 - Type: Gene Product:Transcriptional regulator, TetR family;Tn916-like, CTn6-Orf8 \| Pathway: \| COG: Transcription CD630_26480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07470 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_14650 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_11860 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_14670 - Type: Gene Product:ABC-type transport system, permease protein \| Pathway: \| COG: Defense mechanisms CD630_31690 - Type: Gene Product:Putative malate transporter \| Pathway: \| COG: Function unknown CD630_26530 - murD Type: Gene Product:UDP-N-acetylmuramoylalanine--D-glutamate ligase(UDP-N- acetylmuramoyl-L-alanyl-D-glutamate synthetase)(D-glutamic acid- adding enzyme) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_33330 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf9 \| Pathway: \| COG: Transcription CD630_26510 - murG Type: Gene Product:UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosaminetransferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis	0.13	`NA`	0.52	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| 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_146	14 CD630_29530 - Type: Gene Product:ABC-type transport system, iron-familyextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_01670 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_31860 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_33650 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27350 - cwp14 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12100 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28370 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_27020 - brnQ Type: Gene Product:Branched-chain amino acid transport system IIcarrier protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_04380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30840 - garK Type: Gene Product:Glycerate kinase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06640 - tcdC Type: Gene Product:Negative regulator of toxin gene expression \| Pathway: \| COG: Function unknown CD630_27950 - cwp11 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.0000000000028	`NA`	0.52	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_32600 - phoU Type: Gene Product:Phosphate uptake regulator, PhoU \| Pathway: \| COG: Inorganic ion transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_290	14 CD630_19921 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_21270 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_19430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31562 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16750 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_23050 - pilW Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Function unknown CD630_17110 - Type: Gene Product:Conserved hypothetical protein, UPF0145 family \| Pathway: \| COG: Function unknown CD630_14280 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_31920 - cwp21 Type: Gene Product:Putative cell surface peptidase, M4 family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10360 - cwp17 Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase,autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27980 - cwp9 Type: Gene Product:Cell wall binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription	0.01	`NA`	0.52	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16750 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`