Environment and Gene Regulatory Influence Network (EGRIN) model for C. difficile 630

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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 121 - 130 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_41	23 CD630_35940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_28520 - dltB Type: Gene Product:D-alanyl transferase DltB, MBOAT family \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_28540 - dltD Type: Gene Product:D-alanine transferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_22260 - sat Type: Gene Product:Streptogramin A acetyltransferase (Virginiamycinacetyltransferase D) (Vat(D)) \| Pathway: \| COG: Function unknown CD630_26030 - cdtR Type: Gene Product:Clostridium difficile binary toxin regulatorygene, LytTR family \| Pathway: \| COG: Signal transduction mechanisms CD630_16250 - vanS Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_01300 - metK Type: Gene Product:S-adenosylmethionine synthetase \| Pathway: Amino-acid biosynthesis \| COG: Coenzyme transport and metabolism CD630_17840 - truA2 Type: Gene Product:Pseudouridylate synthase (tRNA pseudouridinesynthase A) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_27151 - mldC Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: CD630_27170 - mldA Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: Function unknown CD630_35930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_28510 - dltC Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 2(D-alanyl carrier protein) (DCP) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_28530 - dltA Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 1 \| Pathway: Cell wall biogenesis \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_16220 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_17790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_23350 - guaB Type: Gene Product:Inositol-5'-monophosphate dehydrogenase (IMPdehydrogenase) (IMPDH) (IMPD) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_16240 - vanR Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_27160 - mldB Type: Gene Product:Midcell localizing division proteins \| Pathway: \| COG: Function unknown CD630_06680 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_01980 - guaA Type: Gene Product:Glutamine amidotransferase \| Pathway: Purine metabolism \| COG: Nucleotide 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	0.0000000032	`NA`	0.46	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_74	20 CD630_09540 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09550 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29200 - Type: Gene Product:Putative phage head protein \| Pathway: \| COG: Signal transduction mechanisms CD630_29240 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09470 - Type: Gene Product:Putative phage scaffold protein \| Pathway: \| COG: Function unknown CD630_29100 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29101 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09531 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09530 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09490 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29220 - Type: Gene Product:Putative phage terminase large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29110 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09520 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29130 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09560 - Type: Gene Product:Putative XkdN-like phage protein \| Pathway: \| COG: Function unknown CD630_09561 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09500 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09480 - Type: Gene Product:Putative phage major capsid protein \| Pathway: \| COG: Function unknown CD630_10921 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf32 \| Pathway: \| COG: Function unknown CD630_09510 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown	0.0002	2.5	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription 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_11	22 CD630_11480 - Type: Gene Product:Putative penicillin-binding protein with aN-terminal TonB-box \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_11510 - minE Type: Gene Product:Cell division topological specificity factor \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_01720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_13350 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_11440 - radC Type: Gene Product:DNA repair protein RadC homolog \| Pathway: \| COG: Replication, recombination and repair CD630_32990 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_11530 - mgsA Type: Gene Product:Methylglyoxal synthase (MGS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28270 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_28250 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Energy production and conversion CD630_28280 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_33260 - Type: Gene Product:Integrase, lambdoid phage family Tn916-like,CTn6-Orf1 \| Pathway: \| COG: Replication, recombination and repair CD630_11500 - minD Type: Gene Product:Septum site-determining protein MinD (Celldivision inhibitor MinD) \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_11490 - minC Type: Gene Product:Cell division regulator (septum placement) \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_02770 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11470 - Type: Gene Product:Putative permease \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_11520 - mrdB Type: Gene Product:Rod shape-determining protein MrdB \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_11450 - mreB2 Type: Gene Product:Rod shape-determining protein MreB \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_28260 - Type: Gene Product:Putative aldolase \| Pathway: \| COG: Energy production and conversion CD630_11430 - Type: Gene Product:Putative Maf-like protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_27040 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_05103 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf4 \| Pathway: \| COG: CD630_33270 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf2 \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_166	20 CD630_16830 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_25590 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_16820 - iunH Type: Gene Product:Putative nucleoside hydrolase, IUNH family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_11760 - Type: Gene Product:Conserved hypothetical protein, DUF177 family \| Pathway: \| COG: Function unknown CD630_25580 - coaD Type: Gene Product:Phosphopantetheine adenylyltransferase(Pantetheine-phosphate adenylyltransferase) \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_16840 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Function unknown CD630_04520 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_25610 - Type: Gene Product:Putative phosphatase \| Pathway: \| COG: Function unknown CD630_25570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11750 - ackA Type: Gene Product:Acetate kinase (Acetokinase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Energy production and conversion CD630_04530 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_20580 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_25620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04510 - Type: Gene Product:Putative dioxygenase \| Pathway: \| COG: Function unknown CD630_25600 - recG Type: Gene Product:ATP-dependent DNA helicase RecG \| Pathway: \| COG: Replication, recombination and repair CD630_20590 - glnS Type: Gene Product:Glutaminyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_11761 - rpmF Type: Gene Product:50S ribosomal protein L32 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_15220 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21890 - pgmB Type: Gene Product:Beta-phosphoglucomutase (beta-D-Glucose1,6-phosphomutase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21880 - mapA Type: Gene Product:Maltose phosphorylase/glycosyl hydrolase/vacuolaracid trehalase \| Pathway: \| COG: Carbohydrate transport and metabolism	`NA`	2.1	0.46	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_361	8 CD630_06380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05800 - gapN Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase(NADP(+)) (GADPH) \| Pathway: \| COG: Energy production and conversion CD630_06910 - Type: Gene Product:Putative short chain dehydrogenase/reductase, SDRfamily \| Pathway: \| COG: Function unknown CD630_27120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06370 - Type: Gene Product:Putative acetyltransferase \| Pathway: \| COG: Function unknown CD630_05620 - Type: Gene Product:Putative RusA-like endodeoxyribonuclease \| Pathway: \| COG: Function unknown CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_17920 - Type: Gene Product:Putative L-threonine 3-dehydrogenase \| Pathway: \| COG: Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis	6.4	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_198	21 CD630_16940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_01230 - murA Type: Gene Product:UDP-N-acetylglucosamine1-carboxyvinyltransferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_05091 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf10 \| Pathway: \| COG: CD630_22270 - Type: Gene Product:Putative radical SAM superfamily lipoprotein \| Pathway: \| COG: Energy production and conversion CD630_33000 - engB Type: Gene Product:GTP-binding protein EngB; putative endoglucanase \| Pathway: \| COG: Function unknown CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_33010 - lon Type: Gene Product:ATP-dependent protease La, S16 peptidase family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_01220 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: Function unknown CD630_26890 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_26910 - hpt Type: Gene Product:Hypoxanthine phosphoribosyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_33940 - pyk Type: Gene Product:Pyruvate kinase (PK) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_33030 - chrA Type: Gene Product:Chromate transport protein ChrA \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26900 - Type: Gene Product:Putative membrane-associated phosphatase \| Pathway: \| COG: Lipid transport and metabolism CD630_22280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26920 - Type: Gene Product:Putative threonine-phosphate decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_26880 - sspA Type: Gene Product:Small, acid-soluble spore protein alpha \| Pathway: \| COG: Function unknown CD630_01280 - fabZ Type: Gene Product:(3R)-hydroxymyristoyl-[acyl-carrier-protein]dehydratase \| Pathway: \| COG: Lipid transport and metabolism CD630_33950 - pfkA Type: Gene Product:6-phosphofructokinase (Phosphofructokinase)(Phosphohexokinase) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_33020 - chrA Type: Gene Product:Chromate transport protein ChrA \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_16950 - Type: Gene Product:Putative symporter protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_01270 - mreB1 Type: Gene Product:Rod shape-determining protein MreB \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning	0.000083	0	0.46	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_393	26 CD630_00670 - rpoC Type: Gene Product:DNA-directed RNA polymerase subunit beta' \| Pathway: \| COG: Transcription CD630_26720 - appA Type: Gene Product:ABC-type transport system, oligopeptide-familysolute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_26700 - appF Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_28520 - dltB Type: Gene Product:D-alanyl transferase DltB, MBOAT family \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_05480 - Type: Gene Product:Putative penicillin-binding peptidase BlaR1-like,M56 family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_28540 - dltD Type: Gene Product:D-alanine transferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_35560 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_28510 - dltC Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 2(D-alanyl carrier protein) (DCP) \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_35540 - dusB Type: Gene Product:tRNA-dihydrouridine synthase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35520 - lysS Type: Gene Product:Lysyl-tRNA synthetase (Lysine--tRNA ligase)(LysRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_07040 - Type: Gene Product:Putative metal-dependent phosphohydrolase \| Pathway: \| COG: Function unknown CD630_26710 - appD Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_00660 - rpoB Type: Gene Product:DNA-directed RNA polymerase subunit beta \| Pathway: \| COG: Transcription CD630_35580 - birA Type: Gene Product:BirA bifunctional protein [Includes: biotinoperon repressor and biotin--[acetyl-CoA-carboxylase]synthetase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_28530 - dltA Type: Gene Product:D-alanine--poly(phosphoribitol) ligase subunit 1 \| Pathway: Cell wall biogenesis \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_19630 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_35570 - Type: Gene Product:Putative peptidase \| Pathway: \| COG: Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_35530 - greA Type: Gene Product:Transcription elongation factor greA (Transcriptcleavage factor GreA) \| Pathway: \| COG: Transcription CD630_35550 - coaX Type: Gene Product:Type III pantothenate kinase (Pantothenic acidkinase) (PanK-III) \| Pathway: Cofactor biosynthesis \| COG: Transcription CD630_02030 - Type: Gene Product:Putative UvrABC system protein A 1 (UvrA protein1) (Excinuclease ABC subunit A 1) \| Pathway: \| COG: Replication, recombination and repair CD630_07030 - Type: Gene Product:Putative peptidase, U32 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07050 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_36690 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_05470 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_26740 - appC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease protein \| Pathway: \| COG: Inorganic ion transport and metabolism	0.0000000000019	`NA`	0.46	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_30	22 CD630_25270 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_34380 - cobU Type: Gene Product:Bifunctional adenosylcobalamin biosynthesisprotein CobU [Adenosylcobinamide kinase;Adenosylcobinamide-phosphate guanylyltransferase] \| Pathway: \| COG: Coenzyme transport and metabolism CD630_08870 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_11750 - ackA Type: Gene Product:Acetate kinase (Acetokinase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Energy production and conversion CD630_07580 - pflA Type: Gene Product:Pyruvate formate-lyase activating enzyme \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_05200 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_15380 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_14190 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_05210 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_14210 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_08410 - Type: Gene Product:5-aminoimidazole-4-carboxamide ribonucleotidetransformylase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_08100 - Type: Gene Product:Putative flavodoxin/nitric oxide synthase \| Pathway: \| COG: Function unknown CD630_26630 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_08360 - Type: Gene Product:Putative acetyltransferase \| Pathway: \| COG: Transcription CD630_25280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16540 - Type: Gene Product:Putative lipoate-protein ligase \| Pathway: Protein modification \| COG: Coenzyme transport and metabolism CD630_24920 - Type: Gene Product:Two-component sensor histidine kinase,sporulation-associated spo0A \| Pathway: \| COG: Signal transduction mechanisms CD630_07590 - plfB Type: Gene Product:Formate acetyltransferase (Pyruvateformate-lyase) \| Pathway: \| COG: Energy production and conversion CD630_08400 - Type: Gene Product:Putative isomerase/hydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_15150 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_14200 - dccA Type: Gene Product:Diguanylate cyclase protein \| Pathway: \| COG: Signal transduction mechanisms CD630_13920 - Type: Gene Product:Putative endoribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.000000000000032	`NA`	0.46	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_25270 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_62	9 CD630_06012 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_20060 - Type: Gene Product:Fragment of putative topoisomerase (C-terminalregion) \| Pathway: \| COG: Function unknown CD630_19901 - Type: Gene Product:Fragment of transcriptional regulator,beta-lactams repressor (Part 2) \| Pathway: \| COG: Transcription CD630_23052 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_20131 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14220 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_20090 - Type: Gene Product:Fragment of putative topoisomerase (C-terminalregion) \| Pathway: \| COG: Replication, recombination and repair CD630_11230 - Type: Gene Product:Putative phosphoesterase \| Pathway: \| COG: Function unknown CD630_06620 - Type: Gene Product:Fragment of phage endolysin CwlH \| Pathway: \| COG:	`NA`	`NA`	0.46	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_14220 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_169	25 CD630_30190 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_00220 - fusA1 Type: Gene Product:Elongation factor G (EF-G) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_00260 - clpC Type: Gene Product:class III stress response-related ATPase, AAA+superfamily \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_26330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_00240 - mcsA Type: Gene Product:Activator of protein kinase McsB \| Pathway: \| COG: Function unknown CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_00470 - ispD Type: Gene Product:2-C-methyl-D-erythritol 4-phosphatecytidylyltransferase \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_17960 - Type: Gene Product:Putative nitrite and sulfite reductase subunit \| Pathway: \| COG: Energy production and conversion CD630_36020 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning 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_05600 - nfo Type: Gene Product:Endonuclease IV \| Pathway: \| COG: Replication, recombination and repair CD630_00290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30180 - Type: Gene Product:Putative redox-active protein \| Pathway: \| COG: Function unknown CD630_00230 - ctsR Type: Gene Product:Transcriptional regulator, CtsR family \| Pathway: \| COG: Transcription CD630_00480 - ispF Type: Gene Product:2-C-methyl-D-erythritol 2,4-cyclodiphosphatesynthase \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_35990 - rolA Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_26310 - Type: Gene Product:Putative membrane protein, UPF0078 family \| Pathway: Lipid metabolism \| COG: Function unknown CD630_26320 - Type: Gene Product:Putative GTP-binding protein EngA \| Pathway: \| COG: Nucleotide transport and metabolism CD630_00250 - mcsB Type: Gene Product:Tyrosine kinase protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_00270 - radA Type: Gene Product:DNA repair protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00460 - Type: Gene Product:Putative lipoate-protein ligase \| Pathway: Protein modification \| COG: Coenzyme transport and metabolism CD630_36010 - Type: Gene Product:D-alanyl-D-alanine carboxypeptidase, M15 family(DD-peptidase) (DD-carboxypeptidase) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_17970 - Type: Gene Product:Coenzyme A disulfide reductase (CoA-disulfidereductase) (CoADR) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_36000 - rolB Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_00280 - disA Type: Gene Product:DNA integrity scanning protein disA \| Pathway: \| COG: Replication, recombination and repair	0.00000018	0.0000076	0.47	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_19980 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_27220 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`