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 41 - 50 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_64	23 CD630_30460 - murQ Type: Gene Product:N-acetylmuramic acid 6-phosphate etherase \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_30480 - Type: Gene Product:PTS system, lactose/cellobiose-family IICmembrane component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30960 - bglA Type: Gene Product:6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30970 - bglF Type: Gene Product:PTS system, beta-glucoside-specific IIABCcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_33510 - clpP2 Type: Gene Product:ATP-dependent Clp protease proteolytic subunit 2(Endopeptidase Clp 2) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24290 - Type: Gene Product:Putative flavodoxin/ferredoxin oxidoreductasealpha subunit \| Pathway: \| COG: Energy production and conversion CD630_33530 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_24250 - ptb Type: Gene Product:Phosphate butyryltransferase(Phosphotransbutyrylase) \| Pathway: \| COG: Energy production and conversion CD630_24260 - buk1 Type: Gene Product:Butyrate kinase 1 (BK 1) (Branched-chaincarboxylic acid kinase 1) \| Pathway: \| COG: Energy production and conversion CD630_24270 - Type: Gene Product:Putative flavodoxin/ferredoxin oxidoreductasegamma subunit \| Pathway: \| COG: Energy production and conversion CD630_30470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24230 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35890 - carA Type: Gene Product:Carbamoyl-phosphate synthase small chain \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism CD630_30490 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBsubunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30950 - bglA Type: Gene Product:6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_24291 - Type: Gene Product:Putative 4Fe-4S ferredoxin, iron-sulfur bindingdomain protein, delta subunit \| Pathway: \| COG: Energy production and conversion CD630_28180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms CD630_33540 - Type: Gene Product:Putative tRNA-binding protein \| Pathway: \| COG: Function unknown CD630_30980 - bglG Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_24280 - Type: Gene Product:Putative flavodoxin/ferredoxin oxidoreductasebeta subunit \| Pathway: \| COG: Energy production and conversion CD630_33520 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_24240 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Transcription CD630_28170 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease protein \| Pathway: \| COG: Defense mechanisms	0.26	0.02	0.45	Inferelator: 0 Hypergeometric: 0 TF Influences from Inferelator `No TF influences from Inferelator` TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_189	21 CD630_09540 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_03600 - Type: Gene Product:Transcriptional regulator, GntR family,Tn916-like, CTn1-Orf5 \| Pathway: \| COG: Transcription CD630_09550 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03610 - Type: Gene Product:Two-component sensor histidine kinase Tn916-like,CTn1-Orf6 \| Pathway: \| COG: Signal transduction mechanisms CD630_09470 - Type: Gene Product:Putative phage scaffold protein \| Pathway: \| COG: Function unknown CD630_31290 - Type: Gene Product:Glycosyl hydrolase/phosphorylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_03630 - Type: Gene Product:ABC-type transport system, permease Tn916-like,CTn1-Orf8 \| Pathway: \| COG: Defense mechanisms CD630_30530 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03620 - Type: Gene Product:Two-component response regulator Tn916-like,CTn1-Orf7 \| Pathway: \| COG: Signal transduction mechanisms CD630_09531 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09530 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_03640 - Type: Gene Product:ABC-type transport system, ATP-binding proteinTn916-like, CTn1-Orf9 \| Pathway: \| COG: Defense mechanisms CD630_09520 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_31300 - bglA Type: Gene Product:6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism 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_20150 - Type: Gene Product:Putative VanZ-like transposon protein \| Pathway: \| COG: Defense mechanisms CD630_09510 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown	0.25	`NA`	0.51	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_343	23 CD630_33701 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf2 \| Pathway: \| COG: Function unknown CD630_26760 - thlA2 Type: Gene Product:Acetoacetyl-CoA thiolase 2 \| Pathway: \| COG: Lipid transport and metabolism CD630_02210 - purG Type: Gene Product:Phosphoribosylformylglycinamidine cyclo-ligase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_28190 - Type: Gene Product:Putative amino acid racemase \| Pathway: \| COG: Amino acid transport and metabolism CD630_02230 - purH Type: Gene Product:Bifunctional purine biosynthesis protein purH[Includes: Phosphoribosylaminoimidazolecarboxamideformyltransferase ; IMP cyclohydrolase] \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_26770 - scoA Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit A \| Pathway: \| COG: Lipid transport and metabolism CD630_02250 - purL Type: Gene Product:Phosphoribosylformylglycinamidine synthase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_22320 - asrB Type: Gene Product:Anaerobic sulfite reductase subunit B \| Pathway: \| COG: Energy production and conversion CD630_22300 - Type: Gene Product:Putative formate/nitrite transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26790 - bdhA Type: Gene Product:3-hydroxybutyrate dehydrogenase \| Pathway: \| COG: Function unknown CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_04760 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33710 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf3 \| Pathway: \| COG: Function unknown CD630_02200 - purF Type: Gene Product:Amidophosphoribosyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_02240 - purD Type: Gene Product:Phosphoribosylamine--glycine ligase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_02220 - purN Type: Gene Product:Phosphoribosylglycinamide formyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_22310 - asrC Type: Gene Product:Anaerobic sulfite reductase subunit C \| Pathway: \| COG: Energy production and conversion CD630_22330 - asrA Type: Gene Product:Anaerobic sulfite reductase subunit A (Anaerobicsulfite reductase iron-sulfur subunit) \| Pathway: \| COG: Energy production and conversion CD630_06100 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_26800 - Type: Gene Product:Putative permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_26780 - scoB Type: Gene Product:Succinyl CoA:3-oxoacid CoA-transferase subunit B \| Pathway: \| COG: Lipid transport and metabolism CD630_04750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_33720 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf4 \| Pathway: \| COG:	0.25	1.2	0.50	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_06930 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_152	16 CD630_01870 - pyrE Type: Gene Product:Orotate phosphoribosyltransferase (OPRT)(OPRTase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_02710 - fliN Type: Gene Product:Flagellar motor switch phosphatase FliN \| Pathway: \| COG: Cell motility CD630_30270 - Type: Gene Product:PTS system, glucose-like IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01860 - pyrD Type: Gene Product:Dihydroorotate dehydrogenase catalytic subunit \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_01840 - pyrB Type: Gene Product:Aspartate carbamoyltransferase (Aspartatetranscarbamylase) (ATCase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_02730 - htpG Type: Gene Product:Heat shock protein 90 (Heat shock proteinHtpG)(High temperature protein G) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32440 - prdA Type: Gene Product:D-proline reductase proprotein prdA \| Pathway: \| COG: Function unknown CD630_30290 - malY Type: Gene Product:Bifunctional protein: cystathionine beta-lyase /repressor \| Pathway: \| COG: Amino acid transport and metabolism CD630_02680 - flgG1 Type: Gene Product:Flagellar hook-basal body complex protein FlgG1 \| Pathway: \| COG: Cell motility CD630_30280 - Type: Gene Product:Putative phosphosugar isomerase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02690 - flgG Type: Gene Product:Flagellar basal body rod protein FlgG \| Pathway: \| COG: Cell motility CD630_02700 - fliM Type: Gene Product:Flagellar motor switch protein FliM \| Pathway: \| COG: Cell motility CD630_30300 - Type: Gene Product:PTS system, glucose-like IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01850 - pyrK Type: Gene Product:Dihydroorotate dehydrogenase electron transfersubunit \| Pathway: \| COG: Energy production and conversion CD630_32430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.2	0.61	0.46	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_05590 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_26650 - Type: Gene Product:Transcriptional regulator, AraC 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_316	21 CD630_31730 - pgk Type: Gene Product:Phosphoglycerate kinase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_33950 - pfkA Type: Gene Product:6-phosphofructokinase (Phosphofructokinase)(Phosphohexokinase) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_26410 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_27500 - agrB Type: Gene Product:Accessory gene regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_31720 - tpi Type: Gene Product:Triosephosphate isomerase (TIM) (Triose-phosphateisomerase) \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_33940 - pyk Type: Gene Product:Pyruvate kinase (PK) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_31710 - gpmI Type: Gene Product:2,3-bisphosphoglycerate-independentphosphoglycerate mutase (Phosphoglyceromutase)(BPG-independent PGAM) (iPGM) \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_27491 - agrD Type: Gene Product:Autoinducer prepeptide \| Pathway: \| COG: CD630_10670 - CdeC Type: Gene Product:Clostridium difficile exosporium cycteine-richprotein \| Pathway: \| COG: CD630_26380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_26350 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26390 - Type: Gene Product:Putative laccase protein \| Pathway: \| COG: Function unknown CD630_26370 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_31740 - gapA Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_26440 - spoIIGA Type: Gene Product:Sporulation sigma-E factor processing peptidase \| Pathway: \| COG: Function unknown CD630_26360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_26340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription	0.19	`NA`	0.60	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms
Module_85	23 CD630_03230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31540 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_08890 - speH Type: Gene Product:S-adenosylmethionine decarboxylase proenzyme \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_03220 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_03380 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03160 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_08680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08710 - modC Type: Gene Product:ABC-type transport system, molybdenum-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_03190 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown 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_03350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_08880 - speA Type: Gene Product:Arginine decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03390 - 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_08700 - modB Type: Gene Product:ABC-type transport system, molybdenum-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08690 - modA Type: Gene Product:ABC-type transport system, molybdenum-specificextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08720 - maa Type: Gene Product:maltose O-acetyltransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03180 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_03360 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_08910 - speB Type: Gene Product:Agmatinase (Agmatine ureohydrolase) (AUH) \| Pathway: \| COG: Amino acid transport and metabolism	0.18	0.03	0.55	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_33600 - 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_301	16 CD630_15880 - Type: Gene Product:ABC-type transport system, sugar-family permease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13590 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_15890 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13601 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_15870 - Type: Gene Product:ABC-type transport system, sugar-familyATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15860 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13600 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_35920 - pyrF Type: Gene Product:Orotidine 5'-phosphate decarboxylase (OMPdecarboxylase) (OMPDCase) (OMPdecase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_13610 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_15840 - Type: Gene Product:Transcriptional regulator, repressor ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_35880 - carB1 Type: Gene Product:Carbamoyl-phosphate synthase large chain 1 \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism CD630_15850 - Type: Gene Product:Putative N-acetylglucosamine kinase NAGK-like \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35910 - carA Type: Gene Product:Carbamoyl-phosphate synthase small chain \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism CD630_35900 - carB2 Type: Gene Product:Carbamoyl-phosphate synthase large chain 2 \| Pathway: Amino-acid biosynthesis \| COG: Nucleotide transport and metabolism	0.17	`NA`	0.52	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_15840 - Type: Gene Product:Transcriptional regulator, repressor ROK family \| Pathway: \| COG: Carbohydrate transport and metabolism, Transcription CD630_22890 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30870 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_224	26 CD630_20790 - xdhA Type: Gene Product:Xanthine dehydrogenase, molybdenum bindingsubunit \| Pathway: \| COG: Energy production and conversion CD630_27340 - Type: Gene Product:Putative Na+/H+ antiporter, NhaC family \| Pathway: \| COG: Energy production and conversion CD630_31610 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_20770 - pyrD Type: Gene Product:Dihydroorotate dehydrogenase, catalytic subunit \| Pathway: \| COG: Nucleotide transport and metabolism CD630_20820 - Type: Gene Product:Amidohydrolase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_19560 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_20800 - Type: Gene Product:Putative FAD-binding subunit of xanthinedehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_19540 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_16690 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_23170 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_16730 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16710 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_31620 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20780 - Type: Gene Product:Putative S-adenosylhomocysteine deaminase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_31600 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_27330 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_36230 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20830 - Type: Gene Product:D-hydantoinase (Dihydropyrimidinase) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_19550 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_19570 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_20810 - xdhC1 Type: Gene Product:Xanthine dehydrogenase iron-sulfur bindingsubunit XdhC1 \| Pathway: \| COG: Energy production and conversion CD630_16680 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_23160 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_16700 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: CD630_16720 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_36240 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown	0.17	`NA`	0.49	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_32140 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_346	20 CD630_17050 - thiH Type: Gene Product:Thiamine biosynthesis protein ThiH \| Pathway: \| COG: Coenzyme transport and metabolism CD630_04650 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_19000 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_04670 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIIB \| Pathway: \| COG: Function unknown CD630_17040 - thiG Type: Gene Product:Thiazole biosynthesis protein ThiG \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_31160 - bglF Type: Gene Product:PTS system, beta-glucoside-specific IIABCcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17060 - thiE2 Type: Gene Product:Thiamine-phosphate pyrophosphorylase ThiE2 \| Pathway: \| COG: Coenzyme transport and metabolism CD630_34600 - tkt Type: Gene Product:Transketolase, thiamine diphosphate bindingsubunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34590 - tkt Type: Gene Product:Transketolase, pyridine binding subunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31170 - bglG Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_17020 - thiC Type: Gene Product:Thiamine biosynthesis protein ThiC \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_17021 - thiS Type: Gene Product:Thiamine biosynthesis protein ThiS \| Pathway: \| COG: Coenzyme transport and metabolism CD630_17030 - thiF Type: Gene Product:Thiamine biosynthesis protein ThiF \| Pathway: \| COG: Coenzyme transport and metabolism CD630_04680 - malL Type: Gene Product:oligo-1,6-glucosidase (Sucrase-isomaltase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04690 - Type: Gene Product:PTS system, sucrose-specific IIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17910 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17900 - Type: Gene Product:Putative exonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_04660 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_17890 - Type: Gene Product:Putative membrane protein, DUF421 family \| Pathway: \| COG: Function unknown	0.16	1.9	0.54	Inferelator: 0 Hypergeometric: 0 TF Influences from Inferelator `No TF influences from Inferelator` 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`