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 131 - 140 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_389	11 CD630_25640 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_35450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31090 - Type: Gene Product:Putative pentose-5-phosphate 3-epimerase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_02810 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_21610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_25630 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14181 - Type: Gene Product:Fragment of putative phage protein (Part 3) \| Pathway: \| COG: Replication, recombination and repair, Replication, recombination and repair CD630_30420 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12401 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_20451 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25040 - Type: Gene Product:Putative D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0	`NA`	0.55	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_303	21 CD630_16360 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_08250 - rbr Type: Gene Product:Rubrerythrin \| Pathway: \| COG: Energy production and conversion CD630_21540 - Type: Gene Product:Putative ATP/GTP-binding protein \| Pathway: \| COG: Function unknown CD630_24320 - glyS Type: Gene Product:Glycyl-tRNA synthetase beta subunit(Glycine--tRNA ligase beta subunit) (GlyRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_15250 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_21570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15240 - Type: Gene Product:Putative rubrerythrin \| Pathway: \| COG: Energy production and conversion CD630_11250 - Type: Gene Product:Nitroreductase-family protein \| Pathway: \| COG: Function unknown CD630_16340 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21550 - bioB Type: Gene Product:Biotin synthase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_25130 - Type: Gene Product:Putative translation inhibitor endoribonuclease \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_15260 - pyrC Type: Gene Product:Dihydroorotase (DHOase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_15370 - aspB Type: Gene Product:Putative glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_25140 - tdcB Type: Gene Product:Threonine dehydratase II \| Pathway: \| COG: Amino acid transport and metabolism CD630_15360 - Type: Gene Product:Ferredoxin--NADP(+) reductase subunit alpha \| Pathway: \| COG: Energy production and conversion CD630_21560 - thiH Type: Gene Product:Thiamine biosynthesis protein ThiH \| Pathway: \| COG: Coenzyme transport and metabolism CD630_08260 - Type: Gene Product:Putative ferric-uptake regulator \| Pathway: \| COG: Transcription CD630_21530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms CD630_24330 - glyQ Type: Gene Product:Glycyl-tRNA synthetase alpha subunit(Glycine--tRNA ligase alpha subunit) (GlyRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_08270 - rbo Type: Gene Product:Rubredoxin oxidoreductase (desulfoferrodoxin) \| Pathway: \| COG: Energy production and conversion	0	`NA`	0.31	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_08260 - Type: Gene Product:Putative ferric-uptake regulator \| Pathway: \| COG: Transcription CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription 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_255	18 CD630_t0380 - tRNA-Phe Type: Gene Product: \| Pathway: \| COG: CD630_t0260 - tRNA-Glu Type: Gene Product: \| Pathway: \| COG: CD630_t0140 - tRNA-Gln Type: Gene Product: \| Pathway: \| COG: CD630_t0280 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0080 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0750 - tRNA-Val Type: Gene Product: \| Pathway: \| COG: CD630_t0500 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_31381 - Type: Gene Product:Fragment of putative phage transcriptionalregulator (C-terminal region) \| Pathway: \| COG: CD630_02420 - Type: Gene Product:Phosphothreonine N-acetylglucosamine catalysis \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_t0540 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0770 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_t0620 - tRNA-Ile Type: Gene Product: \| Pathway: \| COG: CD630_t0760 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_t0160 - tRNA-Phe Type: Gene Product: \| Pathway: \| COG: CD630_t0800 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_02410 - Type: Gene Product:Phosphate-threonine kinase \| Pathway: \| COG: Amino acid transport and metabolism CD630_t0210 - tRNA-Lys Type: Gene Product: \| Pathway: \| COG: CD630_t0090 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG:	0	0	0.35	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_20	27 CD630_30250 - Type: Gene Product:Putative ferredoxin, iron-sulphurdomain-containing protein \| Pathway: \| COG: Energy production and conversion CD630_00170 - Type: Gene Product:DNA binding protein \| Pathway: \| COG: Function unknown CD630_01720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_35330 - phnL Type: Gene Product:ABC-type transport system, phosphonate-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08450 - Type: Gene Product:Putative nuclease \| Pathway: \| COG: Transcription CD630_14570 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14550 - sigA1 Type: Gene Product:RNA polymerase sigma factor SigA1 (sigma-43) \| Pathway: \| COG: Transcription CD630_02960 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25920 - fbpA Type: Gene Product:Fibronectin-binding protein A \| Pathway: \| COG: Transcription CD630_08430 - Type: Gene Product:Putative glycosyl transferase, group 1 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_35290 - Type: Gene Product:ABC-type transport system, iron-family permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_13280 - recA Type: Gene Product:Protein RecA (Recombinase A) \| Pathway: \| COG: Replication, recombination and repair CD630_28100 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Replication, recombination and repair CD630_28550 - Type: Gene Product:Putative NAD(P)-binding oxidoreductase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23590 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIIB \| Pathway: \| COG: Function unknown CD630_30260 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_00160 - dnaX Type: Gene Product:DNA polymerase III subunits gamma and tau \| Pathway: \| COG: Replication, recombination and repair CD630_09870 - Type: Gene Product:Putative phosphatase/hydrolase \| Pathway: \| COG: Replication, recombination and repair CD630_14540 - dnaG Type: Gene Product:DNA primase \| Pathway: \| COG: Replication, recombination and repair CD630_02950 - Type: Gene Product:Putative iron-sulfur-binding protein \| Pathway: \| COG: Energy production and conversion CD630_05250 - Type: Gene Product:Fragment of aminobenzoyl-glutamate transporter(Part 2) \| Pathway: \| COG: Coenzyme transport and metabolism, Coenzyme transport and metabolism CD630_08440 - cwp25 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Function unknown CD630_00180 - recR Type: Gene Product:DNA repair and recombination protein \| Pathway: \| COG: Replication, recombination and repair CD630_25910 - ltaE Type: Gene Product:Low specificity L-threonine aldolase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14580 - wrbA Type: Gene Product:Putative flavodoxin protein \| Pathway: \| COG: Function unknown CD630_08420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13290 - Type: Gene Product:RNase Y \| Pathway: \| COG: Function unknown	0	`NA`	0.45	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_405	26 CD630_29220 - Type: Gene Product:Putative phage terminase large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29200 - Type: Gene Product:Putative phage head protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27360 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_14182 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17440 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_22991 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09450 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_09410 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_09430 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: Function unknown CD630_12331 - Type: Gene Product:Fragment of phage protein \| Pathway: \| COG: CD630_29190 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29210 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_29230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_12450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_09440 - Type: Gene Product:Putative phage terminase, large subunit \| Pathway: \| COG: Replication, recombination and repair CD630_29071 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17430 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_09562 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_17450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_09461 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09460 - Type: Gene Product:Putative phage minor head protein \| Pathway: \| COG: Signal transduction mechanisms CD630_09420 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29240 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28630 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_25171 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	1.68156e-44	8.90007e-41	0.61	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription 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_15	20 CD630_09900 - leuC Type: Gene Product:3-isopropylmalate dehydratase large subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_17160 - Type: Gene Product:Putative permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_25000 - argH Type: Gene Product:Argininosuccinate lyase (Arginosuccinase) (ASAL) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_25210 - leuS Type: Gene Product:Leucyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09910 - leuD Type: Gene Product:3-isopropylmalate dehydratase small subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_22450 - asnC Type: Gene Product:Asparaginyl-tRNA synthetase (Asparagine--tRNAligase) (AsnRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_32560 - valS Type: Gene Product:valyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17170 - Type: Gene Product:Conserved hypothetical protein, DUF917 family \| Pathway: \| COG: Function unknown CD630_00500 - proS Type: Gene Product:Prolyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_26950 - asnA Type: Gene Product:Aspartate--ammonia ligase (Asparagine synthetaseA) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_05740 - thrS Type: Gene Product:Threonyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_26940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_00140 - serS1 Type: Gene Product:Seryl-tRNA synthetase 1 \| Pathway: Aminoacyl-tRNA biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_17180 - Type: Gene Product:Putative hydantoinase (Disrupted IStron) \| Pathway: \| COG: Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism, Amino acid transport and metabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_00490 - proS Type: Gene Product:Prolyl-tRNA synthetase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09890 - leuA Type: Gene Product:2-isopropylmalate synthase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15800 - hom2 Type: Gene Product:Homoserine dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_09920 - leuB Type: Gene Product:3-isopropylmalate dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15810 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15210 - tyrS Type: Gene Product:Tyrosyl-tRNA synthetase (Tyrosine--tRNA ligase)(TyrRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	3.89995e-41	2e-16	0.51	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_06700 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR 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_110	20 CD630_33682 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_19900 - Type: Gene Product:Putative protein with SH3 domain \| Pathway: \| COG: Function unknown CD630_19903 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_10521 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26930 - Type: Gene Product:Sodium:dicarboxylate symporter family protein \| Pathway: \| COG: Energy production and conversion CD630_30550 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_05770 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11730 - Type: Gene Product:Putative FAD-linked oxidase \| Pathway: \| COG: Energy production and conversion CD630_30560 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_25150 - Type: Gene Product:Putative L-aspartate-beta-decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_11700 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11720 - etfA Type: Gene Product:Electron transfer flavoprotein subunit alpha \| Pathway: \| COG: Energy production and conversion CD630_28300 - zmp1 Type: Gene Product:Extracellular Zinc metalloprotease \| Pathway: \| COG: Function unknown CD630_11350 - Type: Gene Product:Putative SH3-domain protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_27970 - Type: Gene Product:Putative calcium-binding adhesion protein \| Pathway: \| COG: Function unknown CD630_31570 - smpB Type: Gene Product:SsrA-binding protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_11340 - gloA Type: Gene Product:Lactoylglutathione lyase \| Pathway: \| COG: Amino acid transport and metabolism CD630_25160 - ansB Type: Gene Product:L-asparaginase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_23090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	6.70003e-41	1.6e-25	0.39	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_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_186	29 CD630_16830 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_19400 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_11570 - norV Type: Gene Product:Anaerobic nitric oxide reductase flavorubredoxin(FlRd) (FlavoRb) \| Pathway: \| COG: Energy production and conversion CD630_30730 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_19520 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_30680 - xynB Type: Gene Product:PTS system, xyloside-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14740 - Type: Gene Product:Putative rubrerythrin (Rr) \| Pathway: \| COG: Energy production and conversion CD630_33570 - Type: Gene Product:Putative protease/amidase \| Pathway: \| COG: Function unknown CD630_08510 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_16840 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Function unknown CD630_14230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_30670 - xynA Type: Gene Product:PTS system, xyloside-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription CD630_16820 - iunH Type: Gene Product:Putative nucleoside hydrolase, IUNH family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_30710 - Type: Gene Product:Glycosyl hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10220 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_27550 - ptsI Type: Gene Product:PTS system, EI component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07900 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_21200 - Type: Gene Product:Putative 2-nitropropane dioxygenase \| Pathway: \| COG: Function unknown CD630_09850 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_19530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05080 - tetM Type: Gene Product:Tetracycline resistance protein Tn5397 \| Pathway: \| COG: Signal transduction mechanisms CD630_30690 - xynD Type: Gene Product:PTS system, xyloside-specific IID component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07890 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14710 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_19320 - Type: Gene Product:Putative phage integrase \| Pathway: \| COG: Replication, recombination and repair CD630_30700 - xynC Type: Gene Product:PTS system, xyloside-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01830 - Type: Gene Product:Putative cell wall hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	1.5e-32	`NA`	0.40	Inferelator: 4 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_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription 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_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_176	27 CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_31890 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_07970 - Type: Gene Product:Putative pyruvate carboxyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_07420 - Type: Gene Product:Putative ethanolamine transporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_23690 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33290 - Type: Gene Product:Putative RNA polymerase sigma factor Tn916-like,CTn6-Orf5 \| Pathway: \| COG: Function unknown CD630_16120 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_32850 - pgi Type: Gene Product:Glucose-6-phosphate isomerase (GPI)(Phosphoglucose isomerase) (PGI) (Phosphohexose isomerase)(PHI) \| Pathway: Carbohydrate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_34050 - Type: Gene Product:Putative iron-onlyhydrogenase,electron-transferring subunit HymA-like \| Pathway: \| COG: Energy production and conversion CD630_34030 - Type: Gene Product:Putative formate/nitrite transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_34070 - Type: Gene Product:Putative iron-only hydrogenase, catalytic subunitHymC-like \| Pathway: \| COG: Energy production and conversion CD630_26830 - Type: Gene Product:Putative propanediol utilization protein \| Pathway: Polyol metabolism \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_21810 - Type: Gene Product:Putative alpha/beta hydrolase \| Pathway: \| COG: Function unknown CD630_20460 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13790 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_27550 - ptsI Type: Gene Product:PTS system, EI component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_03560 - xis Type: Gene Product:Excisionase Tn916-like, CTn1-Orf2 \| Pathway: \| COG: Function unknown CD630_32460 - Type: Gene Product:Putative surface protein \| Pathway: \| COG: Function unknown CD630_33280 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf4 \| Pathway: \| COG: Function unknown CD630_25960 - Type: Gene Product:Putative pseudouridylate synthase, RluC/RluDfamily \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_25970 - lspA Type: Gene Product:Lipoprotein signal peptidase (Prolipoproteinsignal peptidase) (Signal peptidase II) (SPase II) \| Pathway: Protein modification \| COG: Cell wall/membrane/envelope biogenesis, Intracellular trafficking, secretion, and vesicular transport CD630_15111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31910 - Type: Gene Product:Putative oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_34060 - Type: Gene Product:Putative iron-onlyhydrogenase,electron-transferring subunit HymB-like \| Pathway: \| COG: Energy production and conversion CD630_34040 - cls Type: Gene Product:Cardiolipin synthetase (Cardiolipin synthase) (CLsynthase) \| Pathway: \| COG: Lipid transport and metabolism CD630_21100 - Type: Gene Product:Putative transaldolaseC-like \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism	4e-31	`NA`	0.47	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| 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`