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 311 - 320 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_340	29 CD630_03220 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_01900 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01890 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_28090 - Type: Gene Product:Conserved hypothetical protein, DUF1540 family \| Pathway: \| COG: Function unknown CD630_03160 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_06460 - Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_04540 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_27050 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_06440 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_32660 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03190 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_23730 - Type: Gene Product:Putative CstA-like carbon starvation protein \| Pathway: \| COG: Signal transduction mechanisms CD630_33200 - cprR Type: Gene Product:Two-component response regulator, cationicantimicrobial peptide resistance \| Pathway: \| COG: Signal transduction mechanisms CD630_18860 - Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription CD630_03230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33490 - bclA3 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Function unknown CD630_06720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06430 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03170 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_03210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32650 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_06450 - Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_32670 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22760 - Type: Gene Product:Sodium:alanine symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_23580 - Type: Gene Product:Oligoendopeptidase-related, clade2, M3B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_33500 - sgtA Type: Gene Product:Glycosyl transferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_03180 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_27991 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000000000018	`NA`	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_96	6 CD630_12870 - fur Type: Gene Product:Transcriptional regulator, Fur family \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31470 - Type: Gene Product:Putative DNA-methyltransferase \| Pathway: \| COG: Replication, recombination and repair CD630_36340 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_09740 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29640 - Type: Gene Product:Putative tRNA-binding protein \| Pathway: \| COG: Function unknown CD630_05320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription	`NA`	`NA`	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_05320 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_12870 - fur Type: Gene Product:Transcriptional regulator, Fur family \| Pathway: \| COG: Inorganic ion transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_113	11 CD630_21170 - trxB Type: Gene Product:Thioredoxin reductase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25400 - Type: Gene Product:Coenzyme A disulfide reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30360 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Amino acid transport and metabolism CD630_08670 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26691 - Type: Gene Product:Putative Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_17780 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18990 - Type: Gene Product:Putative dCMP deaminase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_09740 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17770 - Type: Gene Product:Putative arsenate reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26120 - Type: Gene Product:Putative amino acid permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_17452 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	4	`NA`	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown 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_325	25 CD630_04160 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf10 \| Pathway: \| COG: Function unknown CD630_04040 - Type: Gene Product:Conserved hypothetical protein, DUF1904 family \| Pathway: \| COG: Function unknown CD630_04060 - Type: Gene Product:Putative tRNA (Uracil-5-)-methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04140 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf8 \| Pathway: \| COG: Function unknown CD630_04121 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf6 \| Pathway: \| COG: CD630_04120 - Type: Gene Product:Putative conjugative transfer proteinTn1549-like, CTn2-Orf5 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_06190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04210 - Type: Gene Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn2-Orf16 \| Pathway: \| COG: Replication, recombination and repair CD630_04080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04081 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf2 \| Pathway: \| COG: Function unknown CD630_04180 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf12 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_06150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_04050 - rluA Type: Gene Product:Ribosomal small subunit pseudouridine synthase A \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04170 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf11 \| Pathway: \| COG: Function unknown CD630_04130 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn2-Orf7 \| Pathway: \| COG: Function unknown CD630_04150 - Type: Gene Product:Putative membrane protein Tn1549-like, CTn2-Orf9 \| Pathway: \| COG: Function unknown CD630_04110 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf4 \| Pathway: \| COG: Function unknown CD630_04220 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf17 \| Pathway: \| COG: Function unknown CD630_04200 - Type: Gene Product:Putative cell surface protein Tn1549-like,CTn2-Orf15 \| Pathway: \| COG: Function unknown CD630_04190 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf13 \| Pathway: \| COG: Function unknown CD630_04191 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn2-Orf14 \| Pathway: \| COG: Function unknown CD630_04090 - Type: Gene Product:Putative replication initiation proteinTn1549-like, CTn2-Orf2 \| Pathway: \| COG: Replication, recombination and repair CD630_06200 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06160 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_06140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	`NA`	`NA`	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription 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_374	20 CD630_15500 - hisB Type: Gene Product:Imidazoleglycerol-phosphate dehydratase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32690 - Type: Gene Product:Putative oligoendopeptidase F, M3B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_10370 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15530 - hisF Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisF \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15480 - hisG Type: Gene Product:ATP phosphoribosyltransferase (ATP-PRTase)(ATP-PRT) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_10430 - sbcC Type: Gene Product:Nuclease SbcCD subunit C \| Pathway: \| COG: Replication, recombination and repair CD630_15520 - hisA Type: Gene Product:1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_32700 - Type: Gene Product:Putative magnesium transport ATPase, MgtC/SapBfamily \| Pathway: \| COG: Function unknown CD630_15470 - hisZ Type: Gene Product:ATP phosphoribosyltransferase regulatory subunit \| Pathway: \| COG: Amino acid transport and metabolism CD630_15490 - hisC Type: Gene Product:Histidinol-phosphate aminotransferase (Imidazoleacetol-phosphate transaminase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_10410 - addA Type: Gene Product:ATP-dependent nuclease subunit A (ATP-dependenthelicase addA) \| Pathway: \| COG: Replication, recombination and repair CD630_21430 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_10400 - addB Type: Gene Product:ATP-dependent nuclease subunit B (ATP-dependenthelicase addB), Superfamily 1 UvrD-family \| Pathway: \| COG: Replication, recombination and repair CD630_10380 - Type: Gene Product:Putative helicase, superfamily 1, UvrD-family \| Pathway: \| COG: Replication, recombination and repair CD630_10420 - sbcD Type: Gene Product:Nuclease SbcCD subunit D \| Pathway: \| COG: Replication, recombination and repair CD630_10390 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15540 - hisI Type: Gene Product:Histidine biosynthesis bifunctional protein HisIE[Includes: Phosphoribosyl-AMP cyclohydrolase ;Phosphoribosyl-ATP pyrophosphatase] \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15510 - hisH Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisH \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_21440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20020 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	0.76	`NA`	0.57	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_21430 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription
Module_130	28 CD630_00010 - dnaA Type: Gene Product:Chromosomal replication initiator protein \| Pathway: \| COG: Replication, recombination and repair CD630_00110 - sigB Type: Gene Product:RNA polymerase sigma-B factor \| Pathway: \| COG: Transcription CD630_00030 - Type: Gene Product:Putative RNA-binding mediating protein \| Pathway: \| COG: Function unknown CD630_00070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_00050 - gyrB Type: Gene Product:DNA gyrase subunit B \| Pathway: \| COG: Replication, recombination and repair CD630_17460 - gltC Type: Gene Product:Sodium/glutamate symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_00090 - rsbV Type: Gene Product:Anti-anti-sigma factor \| Pathway: \| COG: Signal transduction mechanisms CD630_24910 - pmi Type: Gene Product:Mannose-6-phosphate isomerase (Phosphomannoseisomerase) (PMI) (Phosphohexomutase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21070 - Type: Gene Product:Xanthine/uracil/thiamine/ascorbate permeasefamily protein \| Pathway: \| COG: Function unknown CD630_16900 - trxA Type: Gene Product:Thioredoxin \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24820 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_18000 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_26160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_00040 - recF Type: Gene Product:DNA replication and repair protein RecF \| Pathway: \| COG: Replication, recombination and repair CD630_24830 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_00020 - dnaN Type: Gene Product:DNA polymerase III subunit beta \| Pathway: \| COG: Replication, recombination and repair CD630_32290 - dapB2 Type: Gene Product:Dihydrodipicolinate reductase 2 (DHPR 2) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_00060 - gyrA Type: Gene Product:DNA gyrase subunit A \| Pathway: \| COG: Replication, recombination and repair CD630_04030 - fba Type: Gene Product:Fructose-1,6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_24900 - Type: Gene Product:Putative peptidase, M20A family \| Pathway: \| COG: Amino acid transport and metabolism CD630_17451 - feoA Type: Gene Product:Ferrous iron transport protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_01070 - aspC Type: Gene Product:Aspartate aminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_24411 - Type: Gene Product:PhoH-like protein \| Pathway: \| COG: Signal transduction mechanisms CD630_28290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_24810 - ung Type: Gene Product:Uracil-DNA glycosylase (UDG) \| Pathway: \| COG: Replication, recombination and repair CD630_20590 - glnS Type: Gene Product:Glutaminyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_13390 - aspB Type: Gene Product:Aspartate aminotransferase (AspAT) (TransaminaseA) \| Pathway: \| COG: Amino acid transport and metabolism CD630_16910 - trxB Type: Gene Product:Putative thioredoxin-disulfide reductase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	2.1e-32	6.4	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_313	20 CD630_29460 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25320 - Type: Gene Product:Aminotransferase, alanine--glyoxylatetransaminase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14310 - Type: Gene Product:Putative helicase, DinG family \| Pathway: \| COG: Replication, recombination and repair CD630_29470 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29471 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_00340 - Type: Gene Product:Putative xylose transporter, sodium:galactosidesymporter family \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29430 - Type: Gene Product:Putative phage replication protein \| Pathway: \| COG: Replication, recombination and repair CD630_25310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29450 - Type: Gene Product:Putative bacteriophage resistance protein \| Pathway: \| COG: Function unknown CD630_25290 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29440 - Type: Gene Product:Putative phage essential recombination functionprotein \| Pathway: \| COG: Replication, recombination and repair CD630_29520 - Type: Gene Product:Putative phage site-specific integrase \| Pathway: \| COG: Replication, recombination and repair CD630_29490 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_29420 - Type: Gene Product:Putative phage resolvase/integrase \| Pathway: \| COG: CD630_29480 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Transcription CD630_00330 - Type: Gene Product:Putative glycoside hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14320 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Function unknown CD630_00320 - Type: Gene Product:Putative beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_29500 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription	0.06	`NA`	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_25300 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_37	29 CD630_32470 - prdC Type: Gene Product:Putative electron transfer protein \| Pathway: \| COG: Energy production and conversion CD630_32530 - folC Type: Gene Product:Folylpolyglutamate synthase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_24590 - Type: Gene Product:Putative glucokinase, ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism 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_13560 - Type: Gene Product:Putative CBS domain-containing protein \| Pathway: \| COG: Function unknown CD630_14600 - Type: Gene Product:Putative phosphohydrolase, HD superfamily \| Pathway: \| COG: Function unknown CD630_08000 - crt1 Type: Gene Product:3-hydroxybutyryl-CoA dehydratase (Crotonase) \| Pathway: \| COG: Lipid transport and metabolism CD630_22770 - Type: Gene Product:Class II aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08430 - Type: Gene Product:Putative glycosyl transferase, group 1 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_24110 - Type: Gene Product:Putative positive regulator of gluconeogenesis;putative phosphotransferase \| Pathway: \| COG: Function unknown CD630_35150 - glmU Type: Gene Product:Bifunctional protein GlmU [Includes:UDP-N-acetylglucosamine pyrophosphorylase ;Glucosamine-1-phosphate N-acetyltransferase] \| Pathway: Nucleotide-sugar biosynthesis \| COG: Cell wall/membrane/envelope biogenesis CD630_22160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22790 - Type: Gene Product:Putative sugar-phosphate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_32540 - Type: Gene Product:Putative peptidase, S8 or S52 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24580 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_28710 - uxaA Type: Gene Product:Fragment of N-terminal carbohydrate hydrolase,SAF domain \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08600 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17690 - Type: Gene Product:Putative CoA enzyme activase \| Pathway: \| COG: Lipid transport and metabolism CD630_08440 - cwp25 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Function unknown CD630_14630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_08010 - Type: Gene Product:Putative permease, divalent anion symporterfamily \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_08400 - Type: Gene Product:Putative isomerase/hydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_08420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24100 - ppdK Type: Gene Product:Pyruvate phosphate dikinase (ATP:pyruvate,phosphate phosphotransferase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08650 - Type: Gene Product:Putative ADP-ribose binding protein \| Pathway: \| COG: Function unknown CD630_22780 - araD Type: Gene Product:L-ribulose-5-phosphate 4-epimerase(Phosphoribulose isomerase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35140 - prs Type: Gene Product:Ribose-phosphate pyrophosphokinase \| Pathway: Metabolic intermediate biosynthesis \| COG: Nucleotide transport and metabolism CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription	0.0000000000047	0.00011	0.57	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_187	27 CD630_14880 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_26760 - thlA2 Type: Gene Product:Acetoacetyl-CoA thiolase 2 \| Pathway: \| COG: Lipid transport and metabolism CD630_02330 - fliW Type: Gene Product:Flagellar assembly factor FliW \| Pathway: \| COG: Signal transduction mechanisms CD630_02370 - fliD Type: Gene Product:Flagellar hook-associated protein 2 FliD (orHAP2) \| Pathway: \| COG: Cell motility CD630_02310 - flgK Type: Gene Product:Flagellar hook-associated protein FlgK (or HAP1) \| Pathway: \| COG: Cell motility CD630_19520 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_02350 - fliS1 Type: Gene Product:Flagellar protein FliS1 \| Pathway: \| COG: Cell motility CD630_02270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26790 - bdhA Type: Gene Product:3-hydroxybutyrate dehydrogenase \| Pathway: \| COG: Function unknown CD630_02780 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_02280 - fliN Type: Gene Product:Flagellar motor switch protein FliN \| Pathway: \| COG: Cell motility CD630_02380 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26770 - scoA Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit A \| Pathway: \| COG: Lipid transport and metabolism CD630_14870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13830 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_02320 - flgL Type: Gene Product:Flagellar hook-associated protein FlgL (or HAP3) \| Pathway: \| COG: Cell motility CD630_07370 - hisK Type: Gene Product:Histidinol-phosphatase (HolPase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_19530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02300 - Type: Gene Product:Putative flagellar biosynthesis protein \| Pathway: \| COG: Function unknown CD630_02260 - Type: Gene Product:Putative lytic transglycosylase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02340 - csrA Type: Gene Product:Carbon storage regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_02360 - fliS2 Type: Gene Product:Flagellar protein FliS2 \| Pathway: \| COG: Cell motility CD630_02790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26800 - Type: Gene Product:Putative permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_02290 - flgM Type: Gene Product:Anti-sigma factor repressor of sigma(D)-dependenttranscription \| Pathway: \| COG: CD630_26780 - scoB Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit B \| Pathway: \| COG: Lipid transport and metabolism CD630_02390 - fliC Type: Gene Product:Flagellin C \| Pathway: \| COG: Cell motility	0.01	0.04	0.57	Inferelator: 0 Hypergeometric: 1 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_299	20 CD630_28090 - Type: Gene Product:Conserved hypothetical protein, DUF1540 family \| Pathway: \| COG: Function unknown CD630_29150 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29170 - Type: Gene Product:Putative scaffold protein \| Pathway: \| COG: Function unknown CD630_28970 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_03110 - GerG Type: Gene Product:Germination regulator \| Pathway: \| COG: CD630_29000 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_29010 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29030 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_10633 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_29140 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29120 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_28980 - Type: Gene Product:Putative phage tail fiber protein \| Pathway: \| COG: Function unknown CD630_29020 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29050 - Type: Gene Product:Putative phage tail tape measure protein \| Pathway: \| COG: Function unknown CD630_10632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_28080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_29040 - Type: Gene Product:Putative phage cell wall hydrolase \| Pathway: \| COG: Function unknown CD630_29090 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29060 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29080 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown	0	`NA`	0.57	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms