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 1 - 10 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_1	18 CD630_12170 - Type: Gene Product:Putative glycosyl transferase, family 2 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12230 - drm Type: Gene Product:Phosphopentomutase (Phosphodeoxyribomutase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Carbohydrate transport and metabolism CD630_12200 - nudF Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Nucleotide transport and metabolism CD630_12250 - pdp Type: Gene Product:Pyrimidine-nucleoside phosphorylase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_36590 - Type: Gene Product:Putative signal transduction phosphoesterase \| Pathway: \| COG: Signal transduction mechanisms CD630_12160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12240 - pupG Type: Gene Product:Purine nucleoside phosphorylase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_12180 - Type: Gene Product:Putative glycosyl transferase \| Pathway: \| COG: Function unknown CD630_12190 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36570 - dnaB Type: Gene Product:Replicative DNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_12220 - Type: Gene Product:Putative phage integrase site-specificrecombinase XerD-like \| Pathway: \| COG: Replication, recombination and repair CD630_36610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12150 - Type: Gene Product:Putative pyrophosphokinase, DUF115 family \| Pathway: \| COG: Function unknown CD630_12210 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_36630 - rpsF Type: Gene Product:30S ribosomal protein S6 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36620 - ssb Type: Gene Product:Single-stranded DNA-binding protein(Helix-destabilizing protein) \| Pathway: \| COG: Replication, recombination and repair CD630_36580 - rplI Type: Gene Product:50S ribosomal protein L9 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_36611 - rpsR Type: Gene Product:30S ribosomal protein S18 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	`NA`	`NA`	0.46	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_05590 - Type: Gene Product:Transcriptional regulator, ArsR 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_10	29 CD630_11570 - norV Type: Gene Product:Anaerobic nitric oxide reductase flavorubredoxin(FlRd) (FlavoRb) \| Pathway: \| COG: Energy production and conversion CD630_00260 - clpC Type: Gene Product:class III stress response-related ATPase, AAA+superfamily \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_15240 - Type: Gene Product:Putative rubrerythrin \| Pathway: \| COG: Energy production and conversion CD630_16230 - Type: Gene Product:NADH-oxygen oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_00240 - mcsA Type: Gene Product:Activator of protein kinase McsB \| Pathway: \| COG: Function unknown CD630_03940 - ldhA Type: Gene Product:D-lactate dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_21660 - msrAB Type: Gene Product:Peptide methionine sulfoxide reductase MsrA/MsrB \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_23550 - trxA2 Type: Gene Product:Thioredoxin 2 (Trx2) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_23570 - grdX Type: Gene Product:Putative glycine reductase complex component \| Pathway: \| COG: Function unknown CD630_14740 - Type: Gene Product:Putative rubrerythrin (Rr) \| Pathway: \| COG: Energy production and conversion CD630_15680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32740 - feoB Type: Gene Product:Ferrous iron transport protein B \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33100 - Type: Gene Product:Putative D-isomer specific 2-hydroxyaciddehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism, Coenzyme transport and metabolism CD630_15260 - pyrC Type: Gene Product:Dihydroorotase (DHOase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_05600 - nfo Type: Gene Product:Endonuclease IV \| Pathway: \| COG: Replication, recombination and repair CD630_16900 - trxA Type: Gene Product:Thioredoxin \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00230 - ctsR Type: Gene Product:Transcriptional regulator, CtsR family \| Pathway: \| COG: Transcription CD630_23520 - grdA Type: Gene Product:Glycine reductase complex selenoprotein A(selenocysteine) \| Pathway: \| COG: Energy production and conversion CD630_23560 - trxB3 Type: Gene Product:Thioredoxin reductase 3 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00250 - mcsB Type: Gene Product:Tyrosine kinase protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_11250 - Type: Gene Product:Nitroreductase-family protein \| Pathway: \| COG: Function unknown CD630_23540 - grdE Type: Gene Product:Glycine reductase complex component B subunitsalpha and beta (Selenoprotein PB alpha/beta) [Contains:Betaine reductase component B subunit beta; Betainereductase component B subunit alpha] \| Pathway: \| COG: Function unknown CD630_32730 - feoA Type: Gene Product:Ferrous iron transport protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15250 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown CD630_15350 - sseA Type: Gene Product:3-mercaptopyruvate sulfurtransferase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_16910 - trxB Type: Gene Product:Putative thioredoxin-disulfide reductase \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones	0.0000036	`NA`	0.37	Inferelator: 1 Hypergeometric: 2 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_100	21 CD630_20400 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_16632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_05160 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Signal transduction mechanisms CD630_02731 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_20051 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Transcription CD630_22290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06240 - Type: Gene Product:Putative transcriptional regulator, activatorMor \| Pathway: \| COG: Transcription CD630_17870 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_11031 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf20 \| Pathway: \| COG: CD630_05150 - Type: Gene Product:D-alanyl-D-alanine carboxypeptidase, S11peptidase family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_09060 - Type: Gene Product:Putative phage DNA-binding protein \| Pathway: \| COG: CD630_02440 - Type: Gene Product:Putative CDP-glycerol:Poly(glycerophosphate)glycerophosphotransferase \| Pathway: \| COG: Function unknown CD630_18800 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26280 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_16731 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14181 - Type: Gene Product:Fragment of putative phage protein (Part 3) \| Pathway: \| COG: Replication, recombination and repair, Replication, recombination and repair CD630_17590 - Type: Gene Product:Putative SAM-dependent methyltransferase \| Pathway: \| COG: Function unknown CD630_05621 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_01340 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_02010 - Type: Gene Product:Putative chromate transporter \| Pathway: \| COG: Inorganic ion transport and metabolism	7.7	`NA`	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_05160 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Signal transduction mechanisms CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_101	12 CD630_03480 - Type: Gene Product:Fragment of conserved hypothetical protein (Part1) \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_05071 - Type: Gene Product:Fragment of Tet(M) leader peptide Tn5397,CTn3-orf12 (C-terminal region) \| Pathway: \| COG: CD630_13880 - Type: Gene Product:Fragment of trancriptional regulator (Part 2) \| Pathway: \| COG: Transcription CD630_20052 - Type: Gene Product:Fragment of conserved hypothetical protein(Central region) \| Pathway: \| COG: Function unknown CD630_08580 - Type: Gene Product:Fragment of transcriptional regulator,sigma-54-dependent (Part 1), PRD domain \| Pathway: \| COG: Signal transduction mechanisms, Signal transduction mechanisms CD630_33580 - Type: Gene Product:Fragment of C-terminal transcriptional regulator,AsnC/Lrp family \| Pathway: \| COG: Transcription CD630_24591 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06780 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: CD630_36740 - rsmG Type: Gene Product:Fragment of 7-methylguanosine methyltransferasespecific for the 16S rRNA (Part 2) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis, Cell wall/membrane/envelope biogenesis CD630_22210 - Type: Gene Product:Fragment of putative extrachromosomal protein(C-terminal region) \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.47	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_102	26 CD630_26450 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05560 - Type: Gene Product:Putative sugar isomerase / endonuclease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32950 - pilC Type: Gene Product:Type IV pilus secretion protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05520 - prsW Type: Gene Product:Site-1 protease \| Pathway: \| COG: Function unknown CD630_05540 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_32970 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32930 - pilMN Type: Gene Product:Type IV pilus assembly protein \| Pathway: \| COG: Function unknown CD630_32910 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33320 - Type: Gene Product:Transcriptional regulator, TetR family;Tn916-like, CTn6-Orf8 \| Pathway: \| COG: Transcription CD630_05570 - Type: Gene Product:Putative uridine kinase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_32940 - pilA Type: Gene Product:Type IV pilus protein PilA \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05550 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_32960 - pilB Type: Gene Product:Type IV pilus transporter system, ATP-binding \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05530 - Type: Gene Product:Putative RNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_32920 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33330 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf9 \| Pathway: \| COG: Transcription	`NA`	`NA`	0.55	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_103	7 CD630_27520 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10350 - cwp16 Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase,autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_04890 - Type: Gene Product:Putativephosphoribosylaminoimidazole-succinocarboxamide synthetase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_06071 - Type: Gene Product:Fragment of transposase-like protein B(C-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_21940 - Type: Gene Product:Putative ROK protein \| Pathway: \| COG: Transcription CD630_21120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33911 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG:	`NA`	`NA`	0.53	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_104	16 CD630_17292 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25171 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_01480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20103 - Type: Gene Product:Fragment of conserved hypothetical protein(Central region, Part 2) \| Pathway: \| COG: Function unknown, Function unknown CD630_04401 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_31382 - Type: Gene Product:Fragment of conserved hypothetical protein(Central region) \| Pathway: \| COG: CD630_22991 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_29250 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_22221 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: CD630_14182 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_04830 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_19981 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: CD630_04840 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_02820 - Type: Gene Product:Putative PHP hydrolase \| Pathway: \| COG: Amino acid transport and metabolism CD630_t0690 - tRNA-Ala Type: Gene Product: \| Pathway: \| COG:	1.2e-16	0.00000008	0.70	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_36390 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_105	25 CD630_06730 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_19010 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Function unknown CD630_05220 - Type: Gene Product:Putative c-di-GMP regulatory protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21500 - Type: Gene Product:Putative endonuclease/exonuclease/phosphatase \| Pathway: \| COG: Function unknown CD630_26150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_23450 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_05130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: 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_17860 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02040 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_01632 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_01631 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_05230 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Function unknown CD630_26140 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_22310 - asrC Type: Gene Product:Anaerobic sulfite reductase subunit C \| Pathway: \| COG: Energy production and conversion CD630_04560 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_22330 - asrA Type: Gene Product:Anaerobic sulfite reductase subunit A (Anaerobicsulfite reductase iron-sulfur subunit) \| Pathway: \| COG: Energy production and conversion CD630_07070 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_02030 - Type: Gene Product:Putative UvrABC system protein A 1 (UvrA protein1) (Excinuclease ABC subunit A 1) \| Pathway: \| COG: Replication, recombination and repair CD630_30170 - Type: Gene Product:Putative glucose uptake protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21800 - Type: Gene Product:Putative DEAD-like helicase \| Pathway: \| COG: Replication, recombination and repair	0	0.67	0.58	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_106	24 CD630_14640 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30680 - xynB Type: Gene Product:PTS system, xyloside-specific IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35701 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_35700 - Type: Gene Product:Putative peptidase, M19 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_14660 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_11690 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_35720 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_35760 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30670 - xynA Type: Gene Product:PTS system, xyloside-specific IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35650 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_13810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_30710 - Type: Gene Product:Glycosyl hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30690 - xynD Type: Gene Product:PTS system, xyloside-specific IID component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_35680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_11680 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_14670 - Type: Gene Product:ABC-type transport system, permease protein \| Pathway: \| COG: Defense mechanisms CD630_35710 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_35750 - Type: Gene Product:Putative sodium:solute symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_35730 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_35660 - ispE Type: Gene Product:4-diphosphocytidyl-2-C-methyl-D-erythritol kinase(4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinase) \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_35770 - mdeA Type: Gene Product:methionine gamma-lyase \| Pathway: \| COG: Amino acid transport and metabolism CD630_30700 - xynC Type: Gene Product:PTS system, xyloside-specific IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13800 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism	0.12	7	0.50	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| 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_107	26 CD630_27540 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_33660 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_26600 - Type: Gene Product:Putative peptidase, M16 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_10010 - Type: Gene Product:ABC-type transport system,nitrate/sulfonate/taurine ATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_27530 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_34520 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_09980 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_06540 - Type: Gene Product:ABC-type transport system, permease protein \| Pathway: \| COG: Function unknown CD630_28430 - Type: Gene Product:Putative zinc-binding dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_06520 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_13300 - Type: Gene Product:Putative DNA helicase, UvrD/REP type \| Pathway: \| COG: Function unknown CD630_14250 - Type: Gene Product:Putative magnesium transporter \| Pathway: \| COG: Function unknown CD630_07380 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: Function unknown CD630_16960 - Type: Gene Product:Sodium:alanine symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_34480 - Type: Gene Product:Putative ketose-bisphophate aldolase class II;putative tagatose-bisphosphate aldolase GatY \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_26610 - Type: Gene Product:Putative peptidase, M16 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32680 - pstS Type: Gene Product:ABC-type transport system, phosphateextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33650 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_34530 - Type: Gene Product:N-acetylglucosamine-6-phosphate deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10000 - Type: Gene Product:ABC-type transport system,nitrate/sulfonate/taurine permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_20910 - Type: Gene Product:Putative xanthine/uracil permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_09990 - Type: Gene Product:ABC-type transport system,nitrate/sulfonate/taurine extracellular solute-bindingprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10060 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_34510 - Type: Gene Product:Putative carbohydrate/purine kinase; putativetagatose-6-phosphate kinase LacC \| Pathway: Carbohydrate metabolism \| COG: Carbohydrate transport and metabolism CD630_06530 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms	0.000000043	`NA`	0.70	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_31440 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_35580 - birA Type: Gene Product:BirA bifunctional protein [Includes: biotinoperon repressor and biotin--[acetyl-CoA-carboxylase]synthetase \| Pathway: \| COG: Coenzyme transport and metabolism TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`