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 321 - 330 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_291	31 CD630_21270 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_25400 - Type: Gene Product:Coenzyme A disulfide reductase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_05091 - Type: Gene Product:Putative conjugative transposon protein Tn5397,CTn3-Orf10 \| Pathway: \| COG: CD630_28880 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_19640 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Transcription CD630_10520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18410 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_21640 - ldh Type: Gene Product:L-lactate dehydrogenase (L-LDH) \| Pathway: Fermentation \| COG: Energy production and conversion CD630_18400 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_04401 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10480 - Type: Gene Product:Putative phosphodiesterase \| Pathway: \| COG: Function unknown CD630_25060 - LinCd Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_09772 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09771 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_03090 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIB \| Pathway: \| COG: Amino acid transport and metabolism CD630_10500 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_25040 - Type: Gene Product:Putative D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_33300 - Type: Gene Product:Transcriptional regulator, HTH-type Tn916-like,CTn6-Orf6 \| Pathway: \| COG: Transcription CD630_18310 - Type: Gene Product:Putative cation (Mg2+ and Co2+)transport-related, membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_21340 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_28890 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10530 - Type: Gene Product:Putative aminoacyl-tRNA synthetase-associateddomain \| Pathway: \| COG: Function unknown CD630_10510 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: CD630_19630 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_18420 - Type: Gene Product:Conserved hypothetical protein, DUF218 family \| Pathway: \| COG: Function unknown CD630_10490 - ppnK Type: Gene Product:Inorganic polyphosphate/ATP-NAD kinase(Poly(P)/ATP NAD kinase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14990 - Type: Gene Product:Putative virulence factor, MviN family protein(Disrupted IStron) \| Pathway: Cell wall biogenesis \| COG: Signal transduction mechanisms, Signal transduction mechanisms CD630_31870 - tdcF Type: Gene Product:Putative regulatory endoribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25250 - recX Type: Gene Product:Regulatory protein RecX \| Pathway: \| COG: Function unknown CD630_25050 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription	2e-21	0.000016	0.57	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_18400 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms 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_364	10 CD630_25010 - Type: Gene Product:Putative hydrolase, HAD superfamily, IIBsubfamily \| Pathway: \| COG: Function unknown CD630_22951 - Type: Gene Product:Fragment of putative cell surface protein(C-terminal region) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_24990 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22190 - Type: Gene Product:Fragment of conjugative transposon protein(central region) \| Pathway: \| COG: Function unknown CD630_06071 - Type: Gene Product:Fragment of transposase-like protein B(C-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_18090 - Type: Gene Product:Fragment of putative permease, MFS family (Part1) \| Pathway: \| COG: Carbohydrate transport and metabolism, Carbohydrate transport and metabolism CD630_30310 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_19440 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: Function unknown CD630_33911 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	`NA`	`NA`	0.58	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_26650 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_233	27 CD630_28760 - fhuG Type: Gene Product:ABC-type transport system, ferrichrome-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18591 - Type: Gene Product:Transcriptional regulator, AbrB family;Tn1549-like, CTn5-Orf17 \| Pathway: \| COG: Transcription CD630_18590 - Type: Gene Product:DNA topoisomerase protein, type IA, Tn1549-like,CTn5-Orf16 \| Pathway: \| COG: Replication, recombination and repair CD630_18550 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf11 \| Pathway: \| COG: Function unknown CD630_06850 - infC Type: Gene Product:Translation initiation factor IF-3 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_18610 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf19 \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_28740 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_18630 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn5-Orf22 \| Pathway: \| COG: Function unknown CD630_18571 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf14 \| Pathway: \| COG: Function unknown CD630_18570 - Type: Gene Product:Putative cell wall hydrolase Tn1549-like,CTn5-Orf13 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_18530 - Type: Gene Product:Putative membrane protein Tn1549-like, CTn5-Orf9 \| Pathway: \| COG: Function unknown CD630_18510 - Type: Gene Product:Putative single-strand DNA-binding proteinTn1549-like, CTn5-Orf7 \| Pathway: \| COG: Function unknown CD630_28780 - fhuD Type: Gene Product:ABC-type transport system, ferrichrome-specificextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06870 - rplT Type: Gene Product:50S ribosomal protein L20 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_18580 - Type: Gene Product:Putative cell surface protein Tn1549-like,CTn5-Orf15 \| Pathway: \| COG: Function unknown CD630_25000 - argH Type: Gene Product:Argininosuccinate lyase (Arginosuccinase) (ASAL) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_28770 - fhuB Type: Gene Product:ABC-type transport system, ferrichrome-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18600 - Type: Gene Product:Putative conjugative transposon protein DUF1016family, Tn1549-like, CTn5-Orf18 \| Pathway: \| COG: Function unknown CD630_28750 - fhuC Type: Gene Product:ABC-type transport system, ferrichrome-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18540 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf10 \| Pathway: \| COG: Function unknown CD630_34530 - Type: Gene Product:N-acetylglucosamine-6-phosphate deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_18560 - Type: Gene Product:Putative hydrolase Tn1549-like, CTn5-Orf12 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_06860 - rpmI Type: Gene Product:50S ribosomal protein L35 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_18620 - Type: Gene Product:Putative DNA/RNA helicase Tn1549-like,CTn5-Orf21 \| Pathway: \| COG: Replication, recombination and repair CD630_18520 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf8 \| Pathway: \| COG: Function unknown CD630_34520 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_34490 - Type: Gene Product:Putative phosphosugar isomerase; putativetagatose-6-phosphate ketose/aldose isomerase AgaS \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	`NA`	`NA`	0.58	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_07960 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_38	22 CD630_11320 - Type: Gene Product:Putative heavy-metal transport/detoxificationprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_t0510 - tRNA-Thr Type: Gene Product: \| Pathway: \| COG: CD630_13140 - truB Type: Gene Product:tRNA pseudouridine synthase B \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_13160 - rpsO Type: Gene Product:30S ribosomal protein S15 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_11300 - Type: Gene Product:Putative lytic transglycosylase-like protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_04550 - Type: Gene Product:Putative helicase, UvrD family \| Pathway: \| COG: Replication, recombination and repair CD630_t0490 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0720 - tRNA-Met Type: Gene Product: \| Pathway: \| COG: CD630_t0130 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0030 - tRNA-Asn Type: Gene Product: \| Pathway: \| COG: CD630_11290 - coaE Type: Gene Product:Dephospho-CoA kinase (Dephosphocoenzyme Akinase) \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_t0400 - tRNA-Met Type: Gene Product: \| Pathway: \| COG: CD630_13150 - ribC Type: Gene Product:Riboflavin biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_13151 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_t0540 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0770 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_t0670 - tRNA-Leu Type: Gene Product: \| Pathway: \| COG: CD630_t0480 - tRNA-Glu Type: Gene Product: \| Pathway: \| COG: CD630_t0280 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_35511 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_11280 - polA Type: Gene Product:DNA polymerase I (POLI) \| Pathway: \| COG: Replication, recombination and repair CD630_t0090 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG:	0	2.29995e-41	0.58	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms
Module_384	17 CD630_04730 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_30130 - Type: Gene Product:PTS system, mannose-specfic IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04720 - Type: Gene Product:Putative reductase \| Pathway: \| COG: Function unknown CD630_04700 - blaR Type: Gene Product:Beta-lactamase-inducing penicillin-bindingprotein \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_30120 - Type: Gene Product:Putative alpha-mannosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30160 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_17000 - ribD Type: Gene Product:Riboflavin biosynthesis protein ribD [Includes:Diaminohydroxyphosphoribosylaminopyrimidine deaminase ;5-amino-6-(5-phosphoribosylamino)uracil reductase] \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_22540 - Type: Gene Product:Asp/Glu racemase \| Pathway: \| COG: Amino acid transport and metabolism CD630_30140 - Type: Gene Product:PTS system, mannose-specfic IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04740 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_30150 - Type: Gene Product:PTS system, mannose-specfic IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16980 - ribBA Type: Gene Product:Riboflavin biosynthesis protein ribBA [Includes:3,4-dihydroxy-2-butanone 4-phosphate synthase; GTPcyclohydrolase-2] \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_30170 - Type: Gene Product:Putative glucose uptake protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16990 - ribE Type: Gene Product:Riboflavin synthase alpha subunit \| Pathway: \| COG: Coenzyme transport and metabolism CD630_04710 - blaI Type: Gene Product:Transcriptional regulator, Penicillinaserepressor \| Pathway: \| COG: Transcription CD630_22530 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_16970 - ribH Type: Gene Product:6,7-dimethyl-8-ribityllumazine synthase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism	0.000000047	0.09	0.58	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`
Module_22	25 CD630_36051 - Type: Gene Product:Ferredoxin \| Pathway: \| COG: Energy production and conversion CD630_18300 - kdpE Type: Gene Product:Two-component response regulator KdpE \| Pathway: \| COG: Signal transduction mechanisms CD630_19760 - mutL Type: Gene Product:DNA mismatch repair protein MutL \| Pathway: \| COG: Replication, recombination and repair CD630_17430 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_17440 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_25950 - pyrR Type: Gene Product:Bifunctional protein PyrR [Includes: Pyrimidineoperon regulatory protein; Uracil phosphoribosyltransferase(UPRTase)] \| Pathway: \| COG: Nucleotide transport and metabolism CD630_25940 - uraA Type: Gene Product:Putative uracil permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_16140 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18290 - kdpD Type: Gene Product:Two-component sensor histidine kinase KdpD \| Pathway: \| COG: Signal transduction mechanisms CD630_27660 - LcpB Type: Gene Product:Surface-anchoring factors, LytR-CpsA-Psr-likeprotein \| Pathway: \| COG: Transcription CD630_24110 - Type: Gene Product:Putative positive regulator of gluconeogenesis;putative phosphotransferase \| Pathway: \| COG: Function unknown CD630_24350 - recO Type: Gene Product:DNA repair protein RecO (Recombination proteinO) \| Pathway: \| COG: Replication, recombination and repair CD630_36060 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_19770 - mutS Type: Gene Product:DNA mismatch repair protein MutS \| Pathway: \| COG: Replication, recombination and repair CD630_19730 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase; putative aluminium resistance \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_19750 - miaA Type: Gene Product:tRNA delta(2)-isopentenylpyrophosphatetransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36080 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_16130 - cotA Type: Gene Product:Spore outer coat layer protein CotA \| Pathway: \| COG: CD630_17450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_16150 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_24100 - ppdK Type: Gene Product:Pyruvate phosphate dikinase (ATP:pyruvate,phosphate phosphotransferase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_24450 - Type: Gene Product:Putative transmembrane signaling protein,TspO/MBR family \| Pathway: \| COG: Signal transduction mechanisms CD630_36070 - Type: Gene Product:Putative iron-sulfur assembly protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| Pathway: \| COG: Transcription CD630_24340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000000000004	`NA`	0.58	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_26380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| 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_119	25 CD630_33170 - fdhF Type: Gene Product:Formate dehydrogenase-H (selenocysteine) \| Pathway: \| COG: Energy production and conversion CD630_21230 - Type: Gene Product:Putative multiprotein-complex assembly TPRrepeat-containing protein \| Pathway: \| COG: Function unknown CD630_18220 - bcp Type: Gene Product:Putative thiol peroxidase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_36670 - Type: Gene Product:Conserved hypothetical protein, TusA family \| Pathway: \| COG: Function unknown CD630_12350 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_11910 - fbp Type: Gene Product:Fructose-1,6-bisphosphatase \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_15760 - Type: Gene Product:Putative esterase, SGNH hydrolase-type \| Pathway: \| COG: Amino acid transport and metabolism CD630_28140 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_36680 - rstA Type: Gene Product:Regulator of sporulation and toxins \| Pathway: \| COG: Transcription CD630_21240 - Type: Gene Product:Putative malate transporter \| Pathway: \| COG: Function unknown CD630_14130 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_14110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33160 - fdhD Type: Gene Product:Formate dehydrogenase formation protein \| Pathway: \| COG: Energy production and conversion CD630_33140 - hydA Type: Gene Product:Iron hydrogenase \| Pathway: \| COG: Energy production and conversion CD630_18230 - Type: Gene Product:Conserved hypothetical protein, UPF0246 family \| Pathway: \| COG: Replication, recombination and repair CD630_19942 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15770 - pgm Type: Gene Product:Alpha-phosphoglucomutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02950 - Type: Gene Product:Putative iron-sulfur-binding protein \| Pathway: \| COG: Energy production and conversion CD630_02960 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_11900 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Transcription CD630_14120 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_18240 - Type: Gene Product:P-type calcium transport ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33150 - hydN2 Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Energy production and conversion CD630_33151 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33130 - hydN1 Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Energy production and conversion	0.00000044	0.000016	0.58	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription 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_235	26 CD630_24180 - Type: Gene Product:PTS system, Sorbitol-like IIC component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_16180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_16170 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_34440 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34460 - Type: Gene Product:Aminopeptidase, M42 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_32830 - pflE Type: Gene Product:Pyruvate formate-lyase (activating enzyme) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_34420 - Type: Gene Product:Putative peptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_07670 - srlB Type: Gene Product:PTS system, sorbitol-specific IIA component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown CD630_08530 - oppB Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08550 - oppA Type: Gene Product:ABC-type transport system, oligopeptide-familyextracellular solute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_24170 - Type: Gene Product:PTS system, Sorbitol-like IIB component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04532 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07960 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_16190 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_07680 - srlD Type: Gene Product:Sorbitol 6-phosphate 2-dehydrogenase (Glucitol) \| Pathway: \| COG: Function unknown CD630_34450 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07640 - srlA Type: Gene Product:PTS system, sorbitol-specific IIC component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34410 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase (PLP-dependent transferase) \| Pathway: \| COG: Amino acid transport and metabolism CD630_07970 - Type: Gene Product:Putative pyruvate carboxyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_34470 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_34430 - Type: Gene Product:PTS system, lactose/cellobiose-family IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08560 - oppD Type: Gene Product:ABC-type transport system, ATP-binding component \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_07620 - srlR Type: Gene Product:PTS operon regulator \| Pathway: \| COG: Transcription CD630_32820 - pflD Type: Gene Product:Pyruvate formate-lyase \| Pathway: \| COG: Energy production and conversion CD630_08540 - oppC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism	0.00000014	`NA`	0.58	Inferelator: 2 Hypergeometric: 2 TF Influences from Inferelator CD630_07620 - srlR Type: Gene Product:PTS operon regulator \| Pathway: \| COG: Transcription CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_203	26 CD630_33980 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_12880 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01721 - fdxA Type: Gene Product:Ferredoxin (4Fe-4S cluster-containing protein)(fdx-like) \| Pathway: \| COG: Energy production and conversion CD630_03120 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_14290 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_34560 - Type: Gene Product:5-formyltetrahydrofolate cyclo-ligase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_15660 - ilvB Type: Gene Product:Acetolactate synthase large subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism 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_08280 - Type: Gene Product:Putative oxidative stress glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_r0140 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_r0200 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_33990 - Type: Gene Product:Conserved hypothetical protein, UPF0052 family \| Pathway: \| COG: Function unknown CD630_36180 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14281 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_12890 - Type: Gene Product:Ribonuclease J family protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_03130 - Type: Gene Product:Putative K/Mg/Cd/Cu/Zn/Na/Ca/Na/H-transportingP-type ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28400 - serS1 Type: Gene Product:Seryl-tRNA synthetase 1 (Seryl-tRNA(Ser/Sec)synthetase 1) (Serine--tRNA ligase 1) (SerRS 1) \| Pathway: Aminoacyl-tRNA biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_17470 - add Type: Gene Product:Adenosine deaminase (Adenosine aminohydrolase) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_34000 - Type: Gene Product:Conserved hypothetical protein, UPF0042 family \| Pathway: \| COG: Function unknown CD630_34550 - Type: Gene Product:Putative carboxy-terminal protease \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_15650 - ilvC Type: Gene Product:Ketol-acid reductoisomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_24550 - Type: Gene Product:Putative CRISPR-associated protein \| Pathway: \| COG: Replication, recombination and repair CD630_33970 - whiA Type: Gene Product:Putative sporulation transcription regulatorwhiA \| Pathway: \| COG: Transcription CD630_34020 - murB Type: Gene Product:UDP-N-acetylenolpyruvoylglucosamine reductase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_17480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.00000000033	0.000097	0.58	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_27220 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`