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 291 - 300 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_332	21 CD630_06660 - cdd3 Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_31910 - Type: Gene Product:Putative oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_01230 - murA Type: Gene Product:UDP-N-acetylglucosamine1-carboxyvinyltransferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_01420 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_06650 - cdd2 Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_06690 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_01220 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: Function unknown CD630_00220 - fusA1 Type: Gene Product:Elongation factor G (EF-G) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31890 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_24440 - Type: Gene Product:Putative ribosome-associated sigma 54 modulationprotein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_01430 - secA1 Type: Gene Product:Protein translocase subunit SecA1 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_24370 - era Type: Gene Product:GTP-binding protein Era \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_21100 - Type: Gene Product:Putative transaldolaseC-like \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_01440 - prfB Type: Gene Product:Peptide chain release factor 2 (RF-2) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_22150 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_21580 - gabT Type: Gene Product:4-aminobutyrate aminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_24380 - cdd Type: Gene Product:Cytidine deaminase (Cytidine aminohydrolase)(CDA) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_24350 - recO Type: Gene Product:DNA repair protein RecO (Recombination proteinO) \| Pathway: \| COG: Replication, recombination and repair CD630_24340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000000000052	5.8	0.55	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_348	34 CD630_13780 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31540 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31560 - Type: Gene Product:phage integrase \| Pathway: \| COG: Replication, recombination and repair CD630_08890 - speH Type: Gene Product:S-adenosylmethionine decarboxylase proenzyme \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_13940 - Type: Gene Product:Putative NAD(P)-binding oxidoreductase,GFO/IDH/MOCA family \| Pathway: \| COG: Function unknown CD630_05480 - Type: Gene Product:Putative penicillin-binding peptidase BlaR1-like,M56 family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_17220 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: CD630_15060 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_11260 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_16210 - Type: Gene Product:Putative mechanosensitive ion channel protein,MscS family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_03330 - ppaC Type: Gene Product:Putative inorganic pyrophosphatase \| Pathway: \| COG: Energy production and conversion CD630_15040 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_23470 - Type: Gene Product:Putative Xaa-Pro dipeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14620 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_24780 - Type: Gene Product:Putative DNA uptake transporter \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_05930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20420 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_15050 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: CD630_08900 - speE Type: Gene Product:Spermidine synthase \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_31550 - Type: Gene Product:Putative Fic/Doc-related protein \| Pathway: \| COG: Function unknown CD630_20280 - Type: Gene Product:Putative aspartate racemase RacX \| Pathway: \| COG: Amino acid transport and metabolism CD630_08880 - speA Type: Gene Product:Arginine decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_05490 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17230 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_16590 - Type: Gene Product:Cation-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15030 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_15690 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_17930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05470 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_17660 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_08910 - speB Type: Gene Product:Agmatinase (Agmatine ureohydrolase) (AUH) \| Pathway: \| COG: Amino acid transport and metabolism CD630_07110 - argS Type: Gene Product:Arginyl-tRNA synthetase (Arginine--tRNA ligase)(ArgRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000039	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms 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_380	29 CD630_33980 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_36710 - spo0J Type: Gene Product:Stage 0 sporulation protein J, site-specificDNA-binding protein \| Pathway: \| COG: Transcription CD630_36730 - Type: Gene Product:Putative stage 0 sporulation protein, DNA-bindingprotein Spo0J-like \| Pathway: \| COG: Transcription CD630_17350 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_17370 - Type: Gene Product:Putative divalent ion symporter \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_05340 - cheC Type: Gene Product:Chemotaxis protein CheY-P phosphatase CheC \| Pathway: \| COG: Cell motility, Signal transduction mechanisms CD630_08260 - Type: Gene Product:Putative ferric-uptake regulator \| Pathway: \| COG: Transcription CD630_17390 - Type: Gene Product:Two-component response regulator, sigma-54dependent regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_05360 - cheW Type: Gene Product:Purine-binding chemotaxis protein CheW \| Pathway: \| COG: Cell motility, Signal transduction mechanisms CD630_34010 - Type: Gene Product:putative phosphoesterase \| Pathway: \| COG: Replication, recombination and repair CD630_33960 - dnaE Type: Gene Product:DNA polymerase III DnaE subunit alpha \| Pathway: \| COG: Replication, recombination and repair CD630_05380 - Type: Gene Product:Putative methyl-accepting chemotaxis receptor,MCP family \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05420 - Type: Gene Product:Putative protein-glutamate methylesterase \| Pathway: \| COG: Signal transduction mechanisms CD630_36720 - soj Type: Gene Product:Transcriptional regulator, sporulation initiationinhibitor, chromosome partitioning protein \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_05330 - cheY Type: Gene Product:Chemotaxis protein CheY \| Pathway: \| COG: Signal transduction mechanisms CD630_36700 - Type: Gene Product:Putative cysteine desulfurase family protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_33990 - Type: Gene Product:Conserved hypothetical protein, UPF0052 family \| Pathway: \| COG: Function unknown CD630_25640 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_17360 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_17380 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_05350 - cheD Type: Gene Product:Probable chemoreceptor glutamine deamidase CheD \| Pathway: \| COG: Cell motility, Signal transduction mechanisms CD630_34000 - Type: Gene Product:Conserved hypothetical protein, UPF0042 family \| Pathway: \| COG: Function unknown CD630_05370 - Type: Gene Product:Putative CheY-like chemosensory protein \| Pathway: \| COG: Signal transduction mechanisms CD630_08270 - rbo Type: Gene Product:Rubredoxin oxidoreductase (desulfoferrodoxin) \| Pathway: \| COG: Energy production and conversion CD630_33970 - whiA Type: Gene Product:Putative sporulation transcription regulatorwhiA \| Pathway: \| COG: Transcription CD630_05390 - cheA Type: Gene Product:Chemotaxis protein CheA \| Pathway: \| COG: Signal transduction mechanisms CD630_05410 - cheR Type: Gene Product:Methyl-accepting chemotaxis proteinsmethyltransferase, MCP family \| Pathway: \| COG: Signal transduction mechanisms CD630_34020 - murB Type: Gene Product:UDP-N-acetylenolpyruvoylglucosamine reductase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis	0	`NA`	0.55	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_08260 - Type: Gene Product:Putative ferric-uptake regulator \| Pathway: \| COG: Transcription CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_93	25 CD630_31200 - Type: Gene Product:Transcriptional regulator, AbrB family \| Pathway: \| COG: Transcription CD630_31201 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24160 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_24140 - Type: Gene Product:PTS system, Sorbitol-like IIA component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_r0130 - 16s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_24850 - Type: Gene Product:Putative Xaa-Pro aminopeptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_12130 - spoIVB Type: Gene Product:Stage IV sporulation protein B, peptidase S55family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_31190 - Type: Gene Product:Putative UDP-glycosyltransferase, MGT subfamily \| Pathway: \| COG: Energy production and conversion, Carbohydrate transport and metabolism CD630_r0250 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_25560 - Type: Gene Product:PTS system, fructose/mannitol-family IIABcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_24150 - Type: Gene Product:Putative sorbitol-like operon activator protein(Glucitol) \| Pathway: \| COG: CD630_24130 - Type: Gene Product:Putative NAD(P)-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_36160 - Type: Gene Product:Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31210 - Type: Gene Product:Putative flavodoxin/nitric oxide synthase \| Pathway: \| COG: Energy production and conversion CD630_31230 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_21340 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_24840 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_25550 - Type: Gene Product:PTS system, fructose/mannitol-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02671 - Type: Gene Product:Putative flagellar protein \| Pathway: \| COG: CD630_30390 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_14710 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_17950 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31220 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_36150 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription	0.00000044	1.4	0.55	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_30540 - 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_157	23 CD630_34280 - cbiE Type: Gene Product:Cobalt-precorrin-6Y C(5)-methyltransferase(Cobalt-precorrin-6 methyltransferase) (Cobalt-precorrin-6Ymethylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_34180 - sirC Type: Gene Product:Precorrin-2 dehydrogenase \| Pathway: Porphyrin-containing compound metabolism \| COG: Coenzyme transport and metabolism CD630_34350 - cobQ Type: Gene Product:Cobyric acid synthase CobQ \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_33550 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_34230 - cbiJ Type: Gene Product:Cobalt-precorrin-6A reductase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_34250 - cbiG Type: Gene Product:Cobalamin biosynthesis protein CbiG \| Pathway: \| COG: Coenzyme transport and metabolism CD630_29980 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34330 - cbiB Type: Gene Product:Cobalamin biosynthesis protein CbiB, CobD/CbiBfamily \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_34310 - Type: Gene Product:Putative cobalamin biosynthesis L-threoninePduX-like kinase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_04760 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_16190 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_34260 - cbiF Type: Gene Product:Cobalt-precorrin-4 C(11)-methyltransferase(Cobalt-precorrin-3 methylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_29970 - Type: Gene Product:ABC-type transport system, iron-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34340 - cobB Type: Gene Product:Cobyrinic acid A,C-diamide synthase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_29990 - Type: Gene Product:ABC-type transport system, iron-familyextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34300 - cbiC Type: Gene Product:Cobalt-precorrin-8X methylmutase(Cobalt-precorrin isomerase) (HBA synthase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_16170 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_34240 - cbiH Type: Gene Product:Cobalt-precorrin-3B C(17)-methyltransferase(Cobalt-precorrin-3 methyltransferase) (Cobalt-precorrin-3methylase) \| Pathway: \| COG: Coenzyme transport and metabolism CD630_34320 - cobD Type: Gene Product:Threonine-phosphate decarboxylase(L-threonine-O-3-phosphate decarboxylase), CobD/CbiBfamily \| Pathway: \| COG: Amino acid transport and metabolism CD630_34220 - cbiK Type: Gene Product:Sirohydrochlorin cobaltochelatase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_01810 - Type: Gene Product:Putative membrane-associated metalloprotease, M56family \| Pathway: \| COG: Transcription, Signal transduction mechanisms	0.14	`NA`	0.55	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_401	21 CD630_06880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32470 - prdC Type: Gene Product:Putative electron transfer protein \| Pathway: \| COG: Energy production and conversion CD630_19340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30180 - Type: Gene Product:Putative redox-active protein \| Pathway: \| COG: Function unknown CD630_19330 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30190 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22070 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Function unknown CD630_15111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06820 - Type: Gene Product:Putative sodium:solute symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_12890 - Type: Gene Product:Ribonuclease J family protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00650 - Type: Gene Product:Putative NADP-dependent deshydrogenase \| Pathway: \| COG: Function unknown CD630_16671 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22090 - Type: Gene Product:Putative GTP-binding protein, HflX type \| Pathway: \| COG: Function unknown CD630_08040 - etfB Type: Gene Product:Electron transfer flavoprotein beta-subunit,core \| Pathway: \| COG: Energy production and conversion CD630_04030 - fba Type: Gene Product:Fructose-1,6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08020 - Type: Gene Product:Putative CoA-transferase, family III \| Pathway: \| COG: Energy production and conversion CD630_22080 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_27680 - Type: Gene Product:Putative cell-wall hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06830 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_26620 - Type: Gene Product:Putative GTP-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000000016	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_353	24 CD630_21050 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20410 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_21060 - Type: Gene Product:Putative ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_31990 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_21040 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_22240 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_27030 - Type: Gene Product:Putative pentapeptide repeat-containing protein \| Pathway: \| COG: Function unknown CD630_09200 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09220 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09150 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_08060 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_09110 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: CD630_09130 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_32010 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_19270 - Type: Gene Product:Fragment of ABC-type transport system,ATP-binding protein (Part 2) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_32000 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_22230 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_28181 - Type: Gene Product:Fragment of dihydrofolate reductase familyprotein \| Pathway: \| COG: CD630_05060 - Type: Gene Product:Reverse transcriptase/maturase/endonuclease,Group II intron \| Pathway: \| COG: Replication, recombination and repair CD630_09230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25930 - Type: Gene Product:ABC-type transport system,pristinamycin/multidrug-family ATP-binding protein \| Pathway: \| COG: Function unknown CD630_09160 - Type: Gene Product:Putative phage protein involved in bacteriophageresistance \| Pathway: \| COG: Function unknown CD630_09210 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09140 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	0.00000000012	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_14550 - sigA1 Type: Gene Product:RNA polymerase sigma factor SigA1 (sigma-43) \| 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_338	24 CD630_32260 - dapB1 Type: Gene Product:Dihydrodipicolinate reductase 1 (DHPR 1) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32240 - asd Type: Gene Product:Aspartate-semialdehyde dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_36470 - licA Type: Gene Product:PTS system, lichenan-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06940 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_21080 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_02940 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_15020 - deoC Type: Gene Product:Deoxyribose-phosphate aldolase(Phosphodeoxyriboaldolase) (Deoxyriboaldolase) (DERA) \| Pathway: Carbohydrate degradation \| COG: Nucleotide transport and metabolism CD630_15740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32720 - Type: Gene Product:Putative membrane 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_32250 - dapA3 Type: Gene Product:Dihydrodipicolinate synthase 3 \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_14390 - Type: Gene Product:Putative transporter, LrgA family \| Pathway: \| COG: Function unknown CD630_32270 - dapH Type: Gene Product:2,3,4,5-tetrahydropyridine-2,6-dicarboxylateN-acetyltransferase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_31660 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_36480 - licB Type: Gene Product:PTS system, lichenan-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06930 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_14420 - Type: Gene Product:Putative MORN repeat-containing protein \| Pathway: \| COG: Function unknown CD630_21090 - Type: Gene Product:Putative anion:Na+ symporter \| Pathway: \| COG: Function unknown CD630_14400 - Type: Gene Product:Putative transporter, LrgB family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02930 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_30010 - Type: Gene Product:Putative hydrolase/isomerase/hydratase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_32710 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31930 - Type: Gene Product:Putative phage-related protein \| Pathway: \| COG: Function unknown	0.00000000000012	0.36	0.56	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_387	26 CD630_28760 - fhuG Type: Gene Product:ABC-type transport system, ferrichrome-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28780 - fhuD Type: Gene Product:ABC-type transport system, ferrichrome-specificextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_21060 - Type: Gene Product:Putative ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_28740 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_04790 - spaE Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_21040 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_14410 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_04850 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_12330 - cwp26 Type: Gene Product:Putative cell surface protein \| Pathway: \| COG: Function unknown CD630_18020 - Type: Gene Product:Putative hydrolase, metallo-beta-lactamasesuperfamily \| Pathway: \| COG: Function unknown CD630_22430 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_04810 - spaR Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_21050 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_28770 - fhuB Type: Gene Product:ABC-type transport system, ferrichrome-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28750 - fhuC Type: Gene Product:ABC-type transport system, ferrichrome-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12120 - bltD Type: Gene Product:Diamine N-acetyltransferase \| Pathway: \| COG: Transcription CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms CD630_04780 - spaF Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_28790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12320 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_04800 - spaG Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_12110 - Type: Gene Product:Putative N-acetyltransferase \| Pathway: \| COG: Transcription CD630_04860 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_04820 - spaK Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_18010 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	0.0000000016	0.0000013	0.56	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_06480 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_20650 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_388	29 CD630_28130 - garR Type: Gene Product:Tartronate semialdehyde reductase \| Pathway: \| COG: Lipid transport and metabolism CD630_32120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20410 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_33581 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_19710 - Type: Gene Product:Putative protein, Sir2 family; putativesilencing, chromosome stability or ageing; putative ADPribosyltransferase \| Pathway: \| COG: Function unknown CD630_10070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_32130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19660 - Type: Gene Product:Putative acyl-CoA thioesterase \| Pathway: \| COG: Function unknown CD630_15431 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15430 - Type: Gene Product:putative FMN-dependent NADH-azoreductase \| Pathway: \| COG: Lipid transport and metabolism CD630_09240 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_19850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30060 - Type: Gene Product:Alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_10890 - rgbR Type: Gene Product:Two-component response regulator VirR-like \| Pathway: \| COG: Signal transduction mechanisms CD630_12810 - mnmA Type: Gene Product:tRNA-specific 2-thiouridylase MnmA \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17730 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33590 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_28120 - Type: Gene Product:Putative gluconate permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_32340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19650 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_32440 - prdA Type: Gene Product:D-proline reductase proprotein prdA \| Pathway: \| COG: Function unknown CD630_29400 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10900 - rgbS Type: Gene Product:Fragment of two-component sensor histidine kinase(N-terminal region) \| Pathway: \| COG: Signal transduction mechanisms CD630_29390 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_18780 - Type: Gene Product:Putative sigma factor Tn1549-like, CTn5-Orf38 \| Pathway: \| COG: Function unknown CD630_22760 - Type: Gene Product:Sodium:alanine symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_29380 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	8.8e-19	0	0.56	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`