Environment and Gene Regulatory Influence Network (EGRIN) model for C. difficile 630

The Environment and Gene Regulatory Influence Network (EGRIN) model of C. difficile 630 was inferred using cMonkey2 and a compendium of 136 transcriptomes (retrieved from the Gene Expression Omnibus repository) with 4,070 sequence features including 35 rRNAs and 90 tRNAs . The C. difficile EGRIN model groups genes in subsets (406 modules in total), that are co-regulated in specific environments, and also identifies the associated, putative cis-acting gene regulatory elements (GREs), which represent potential TF binding locations. Transcriptome compendium included conditions: response to iron limitation, response to oxygen, in vivo vs in vitro growth, short term infection (0, 30, 60, 120 mins), response to commensals and host diet, transition from exponential to stationary phase, fur KO, codY KO, sporulation TF (and sigma factors) KOs.

Explore Regulatory Modules

Displaying 41 - 50 of 406

Candidate transcriptional regulators for each module were determined with a linear regression based approach (Inferelator) and by evaluating the statistical significance of the overlap (Hypergeometric) between modules and putative TF and alternative sigma factor regulons (CcpA, CodY, Fur, PrdR, SigB, SigD, SigE, SigF, SigG, SigH, SigK, Spo0A) compiled from available literature.

* Given that translation start was used to define the 3' end of putative promoters, some cis-regulatory motifs are likely to be ribosome binding sites (i.e., Shine-Dalgarno sequence). RBS is typically a six nucleotide sequence 5'-GGAGGA-3'.

Title	Gene Count	Motif 1 e-value	Motif 2 e-value	Residual	TF Influences
Module_135	23 CD630_28130 - garR Type: Gene Product:Tartronate semialdehyde reductase \| Pathway: \| COG: Lipid transport and metabolism CD630_02500 - fliH Type: Gene Product:Flagellar assembly protein FliH \| Pathway: \| COG: Cell motility CD630_33230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26170 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_06730 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_02450 - flgB Type: Gene Product:Flagellar basal-body rod protein FlgB \| Pathway: \| COG: Cell motility CD630_19480 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_16800 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Function unknown CD630_16790 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Coenzyme transport and metabolism CD630_33250 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Energy production and conversion CD630_33880 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn7-Orf27 \| Pathway: \| COG: Transcription CD630_19470 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_28120 - Type: Gene Product:Putative gluconate permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_17670 - gapB Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01880 - Type: Gene Product:Putative ketopantoate reductase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_02550 - flgE Type: Gene Product:Flagellar hook protein FlgE (Distal rod protein) \| Pathway: \| COG: Cell motility CD630_08090 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02590 - fliZ Type: Gene Product:Flagellar protein FliZ \| Pathway: \| COG: Cell motility CD630_32201 - Type: Gene Product:Small acid-soluble spore protein \| Pathway: \| COG: Function unknown CD630_32200 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_19460 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_16810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription	0.00000000085	0.64	0.57	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_02760 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_136	25 CD630_13660 - Type: Gene Product:Putative phage tail protein \| Pathway: \| COG: Function unknown CD630_12440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13620 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13640 - Type: Gene Product:Putative phage XkdM-like protein \| Pathway: \| COG: Function unknown CD630_13700 - Type: Gene Product:Putative phage XkdS-like protein \| Pathway: \| COG: Function unknown CD630_12420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13720 - Type: Gene Product:Putative phage XkdT-like protein \| Pathway: \| COG: Function unknown CD630_13680 - Type: Gene Product:Putative phage cell wall XkdQ-like hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_14150 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_13760 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_13740 - Type: Gene Product:Putative beta-lactamase-inhibitor protein II \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning, Cytoskeleton CD630_25710 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30410 - pepI Type: Gene Product:Proline iminopeptidase (Proline aminopeptidase)(PIP), peptidase S33 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_14170 - Type: Gene Product:Putative ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_13670 - Type: Gene Product:Putative phage XkdP-like protein \| Pathway: \| COG: Function unknown CD630_13651 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13650 - Type: Gene Product:Putative phage XkdN-like protein \| Pathway: \| COG: Function unknown CD630_13630 - Type: Gene Product:Putative phage XkdK-like protein \| Pathway: \| COG: Function unknown CD630_12430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13710 - Type: Gene Product:Putative baseplate assembly predicted J-like \| Pathway: \| COG: Function unknown CD630_13730 - Type: Gene Product:Putative phage tail fiber protein \| Pathway: \| COG: Function unknown CD630_13690 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25700 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_14140 - Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Function unknown CD630_14160 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	0.000016	`NA`	0.48	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_137	18 CD630_07450 - Type: Gene Product:Putative OmpA/MotB proton channel \| Pathway: \| COG: Cell motility CD630_t0270 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_t0290 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_t0060 - tRNA-Glu Type: Gene Product: \| Pathway: \| COG: CD630_t0780 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0530 - tRNA-Gly Type: Gene Product: \| Pathway: \| COG: CD630_t0140 - tRNA-Gln Type: Gene Product: \| Pathway: \| COG: CD630_t0570 - tRNA-Ser Type: Gene Product: \| Pathway: \| COG: CD630_t0360 - tRNA-Lys Type: Gene Product: \| Pathway: \| COG: CD630_t0340 - tRNA-Arg Type: Gene Product: \| Pathway: \| COG: CD630_t0430 - tRNA-Cys Type: Gene Product: \| Pathway: \| COG: CD630_t0190 - tRNA-Pro Type: Gene Product: \| Pathway: \| COG: CD630_07440 - Type: Gene Product:Putative MotA/TolQ/ExbB proton channel \| Pathway: \| COG: Cell motility CD630_t0840 - tRNA-Thr Type: Gene Product: \| Pathway: \| COG: CD630_t0760 - tRNA-Asp Type: Gene Product: \| Pathway: \| COG: CD630_t0730 - tRNA-Glu Type: Gene Product: \| Pathway: \| COG: CD630_t0180 - tRNA-Met Type: Gene Product: \| Pathway: \| COG: CD630_t0580 - tRNA-Ser Type: Gene Product: \| Pathway: \| COG:	0	0	0.52	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_22080 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription 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`
Module_138	17 CD630_05510 - sleC Type: Gene Product:Spore exo-acting lytic transglycosylase \| Pathway: \| COG: Function unknown CD630_03320 - bclA1 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport, Extracellular structures CD630_16600 - Type: Gene Product:Conserved hypothetical protein, DUF 1255 family \| Pathway: \| COG: Function unknown CD630_06610 - tcdE Type: Gene Product:Holin-like pore-forming protein \| Pathway: \| COG: Function unknown CD630_36220 - Type: Gene Product:Conserved hypothetical protein, PhnA family \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25200 - Type: Gene Product:Putative conjugative transposon antibioticresistance protein \| Pathway: \| COG: Defense mechanisms CD630_t0710 - tRNA-Leu Type: Gene Product: \| Pathway: \| COG: CD630_10120 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_12340 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_32210 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_16781 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_32230 - dapA2 Type: Gene Product:Dihydrodipicolinate synthase 2 \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_07020 - Type: Gene Product:Putative membrane protein, DUF1275 family \| Pathway: \| COG: Function unknown CD630_27991 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0	`NA`	0.61	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| 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_139	24 CD630_29340 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_18360 - pheA Type: Gene Product:Bifunctional P-protein, chorismatemutase/prephenate dehydratase \| Pathway: \| COG: Amino acid transport and metabolism CD630_18340 - aroA Type: Gene Product:3-phosphoshikimate 1-carboxyvinyltransferase \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_15490 - hisC Type: Gene Product:Histidinol-phosphate aminotransferase (Imidazoleacetol-phosphate transaminase) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15510 - hisH Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisH \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15530 - hisF Type: Gene Product:Imidazole glycerol phosphate synthase subunitHisF \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15470 - hisZ Type: Gene Product:ATP phosphoribosyltransferase regulatory subunit \| Pathway: \| COG: Amino acid transport and metabolism CD630_18390 - tyrC Type: Gene Product:Prephenate dehydrogenase \| Pathway: \| COG: Amino acid transport and metabolism CD630_29330 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: CD630_18330 - aroB Type: Gene Product:3-dehydroquinate synthase \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_29310 - Type: Gene Product:Putative phage endodeoxyribonuclease RusA-like \| Pathway: \| COG: Replication, recombination and repair CD630_18350 - aroC Type: Gene Product:Chorismate synthase(5-enolpyruvylshikimate-3-phosphate phospholyase) \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_15480 - hisG Type: Gene Product:ATP phosphoribosyltransferase (ATP-PRTase)(ATP-PRT) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_18370 - aroE1 Type: Gene Product:Shikimate dehydrogenase 1 \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_29290 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_15540 - hisI Type: Gene Product:Histidine biosynthesis bifunctional protein HisIE[Includes: Phosphoribosyl-AMP cyclohydrolase ;Phosphoribosyl-ATP pyrophosphatase] \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_15520 - hisA Type: Gene Product:1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_18380 - aroK Type: Gene Product:Shikimate kinase (SK) \| Pathway: Metabolic intermediate biosynthesis \| COG: Amino acid transport and metabolism CD630_15500 - hisB Type: Gene Product:Imidazoleglycerol-phosphate dehydratase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_29320 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_29300 - Type: Gene Product:Putative phage anti-repressor protein \| Pathway: \| COG: Transcription CD630_18320 - aroF Type: Gene Product:3-deoxy-D-arabino-heptulosonate 7-phosphatesynthase \| Pathway: \| COG: Amino acid transport and metabolism	`NA`	`NA`	0.58	Inferelator: 3 Hypergeometric: 1 TF Influences from Inferelator CD630_19960 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Signal transduction mechanisms CD630_26150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_32090 - Type: Gene Product:Transcriptional regulator, PadR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription
Module_14	28 CD630_30250 - Type: Gene Product:Putative ferredoxin, iron-sulphurdomain-containing protein \| Pathway: \| COG: Energy production and conversion CD630_10770 - Type: Gene Product:PTS system, mannose/fructose/sorbose IICcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31320 - Type: Gene Product:PTS system, fructose-like IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13600 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_34440 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31340 - Type: Gene Product:PTS system, fructose-like IIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34460 - Type: Gene Product:Aminopeptidase, M42 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_34420 - Type: Gene Product:Putative peptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_14150 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_10730 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_10780 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIDcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30260 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_10760 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13590 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_05310 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_31350 - Type: Gene Product:Putative fructose-1-6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13610 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_10740 - Type: Gene Product:PTS system, mannose/fructose/sorbose IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31310 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_34450 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_19030 - Type: Gene Product:Putative lipoprotein signal peptidase \| Pathway: \| COG: Function unknown CD630_34410 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase (PLP-dependent transferase) \| Pathway: \| COG: Amino acid 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_13601 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_14220 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_31330 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription	0.0000000015	0.05	0.45	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_05160 - Type: Gene Product:Transcription antiterminator \| Pathway: \| COG: Signal transduction mechanisms 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`
Module_140	27 CD630_03340 - adhE Type: Gene Product:Aldehyde-alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_20430 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_24180 - Type: Gene Product:PTS system, Sorbitol-like IIC component(Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04570 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_31060 - Type: Gene Product:Transaldolase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_31100 - Type: Gene Product:6-phosphofructokinase \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_23430 - cat1 Type: Gene Product:Succinyl-CoA:coenzyme A transferase \| Pathway: \| COG: Energy production and conversion CD630_15760 - Type: Gene Product:Putative esterase, SGNH hydrolase-type \| Pathway: \| COG: Amino acid transport and metabolism CD630_26270 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Signal transduction mechanisms CD630_21910 - Type: Gene Product:Putative phosphoesterase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_21870 - Type: Gene Product:Putative phage-related cell wall hydrolase \| Pathway: \| COG: Cell motility, Intracellular trafficking, secretion, and vesicular transport CD630_26260 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_34600 - tkt Type: Gene Product:Transketolase, thiamine diphosphate bindingsubunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32050 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_04580 - Type: Gene Product:Putative beta-lactamase \| Pathway: \| COG: Defense mechanisms CD630_25260 - glgB Type: Gene Product:1,4-alpha-glucan branching enzyme \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_23440 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31070 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_15770 - pgm Type: Gene Product:Alpha-phosphoglucomutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31030 - Type: Gene Product:PTS system, glucose-like IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_15750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23420 - sucD Type: Gene Product:Succinate-semialdehyde dehydrogenase (NAD(P)+) \| Pathway: \| COG: Energy production and conversion CD630_04600 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_32060 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_05450 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_34590 - tkt Type: Gene Product:Transketolase, pyridine binding subunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_04590 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms	2.4e-22	`NA`	0.52	Inferelator: 4 Hypergeometric: 1 TF Influences from Inferelator CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_17980 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription
Module_141	8 CD630_32540 - Type: Gene Product:Putative peptidase, S8 or S52 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_13420 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Replication, recombination and repair CD630_09050 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_11740 - Type: Gene Product:Conserved hypothetical protein, DUF795 family,UPF0348 family \| Pathway: \| COG: Function unknown CD630_28190 - Type: Gene Product:Putative amino acid racemase \| Pathway: \| COG: Amino acid transport and metabolism CD630_22500 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05440 - Type: Gene Product:Putative ornithine cyclodeaminase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03080 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.59	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_20230 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_25270 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_142	28 CD630_34910 - Type: Gene Product:Putative exopolyphosphatase \| Pathway: \| COG: Nucleotide transport and metabolism, Inorganic ion transport and metabolism CD630_34930 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_35090 - pilO Type: Gene Product:Type IV pilus assembly protein \| Pathway: \| COG: CD630_03530 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28310 - Type: Gene Product:Collagen binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_05670 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_14720 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_35010 - mfd Type: Gene Product:Transcription-repair coupling factor (TRCFATP-dependent helicase mfd) \| Pathway: \| COG: Replication, recombination and repair CD630_35110 - pilC Type: Gene Product:Type IV pilus secretion protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_34960 - hbs Type: Gene Product:DNA-binding protein, non-specific \| Pathway: \| COG: Replication, recombination and repair CD630_35030 - pilD Type: Gene Product:Type IV prepilin leader peptidase \| Pathway: \| COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport CD630_35070 - pilU Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_35050 - pilT Type: Gene Product:Type IV pilus twitching motility protein \| Pathway: \| COG: Cell motility, Intracellular trafficking, secretion, and vesicular transport CD630_03541 - Type: Gene Product:Fragment of putative membrane protein \| Pathway: \| COG: Function unknown CD630_03520 - Type: Gene Product:Transcriptional regulator, RmlC-type \| Pathway: \| COG: Transcription CD630_35080 - pilV Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_26140 - Type: Gene Product:Conserved hypothetical protein, DegV family \| Pathway: \| COG: Function unknown CD630_34980 - spoVB Type: Gene Product:Stage V sporulation protein B \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_14730 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding/permease \| Pathway: \| COG: Defense mechanisms CD630_35120 - pilB Type: Gene Product:Type IV pilus transporter system, ATP-binding \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_35000 - prsA Type: Gene Product:Peptidylprolyl isomerase PrsA-like \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_35040 - pilD Type: Gene Product:Type IV prepilin peptidase, A24A family \| Pathway: \| COG: Cell motility, Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport CD630_35020 - pth Type: Gene Product:Peptidyl-tRNA hydrolase (PTH) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35100 - pilMN Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Function unknown CD630_35060 - pilK Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: CD630_26150 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_05660 - Type: Gene Product:Putative tRNA/rRNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34950 - Type: Gene Product:Putative RNA-binding S4 domain-containingprotein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.000081	0.02	0.59	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_16860 - Type: Gene Product:Transcriptional regulator, repressor-like \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_143	22 CD630_36050 - Type: Gene Product:Putative phosphatase \| Pathway: \| COG: Function unknown CD630_31480 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: Function unknown CD630_14510 - folB Type: Gene Product:Dihydroneopterin aldolase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_14430 - Type: Gene Product:Putative Ca++-chelating serine protease, SCP-likeextracellular domain protein \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_14470 - pabC Type: Gene Product:Aminodeoxychorismate lyase(4-amino-4-deoxychorismate lyase) (ADC lyase) (ADCL) \| Pathway: \| COG: Amino acid transport and metabolism CD630_14530 - aroF Type: Gene Product:Phospho-2-dehydro-3-deoxyheptonate aldolase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14450 - pabA Type: Gene Product:Para-aminobenzoate/anthranilate synthaseglutamine amidotransferase component II [Includes:Para-aminobenzoate synthase glutamine amidotransferasecomponent II; Anthranilate synthase component II] \| Pathway: \| COG: Amino acid transport and metabolism CD630_34370 - cobS Type: Gene Product:Cobalamin synthase CobS (Cobalamin-5-phosphatesynthase) \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_14490 - folE Type: Gene Product:GTP cyclohydrolase 1 (GTP cyclohydrolase I)(GTP-CH-I) \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_36040 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis CD630_31490 - Type: Gene Product:DNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_34390 - cobT Type: Gene Product:Nicotinate-nucleotide--dimethylbenzimidazolephosphoribosyltransferase (NN:DBI PRT)(N(1)-alpha-phosphoribosyltransferase) \| Pathway: Nucleoside biosynthesis \| COG: Coenzyme transport and metabolism CD630_01500 - Type: Gene Product:Putative peptidase, M22 family \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_14500 - folP Type: Gene Product:Dihydropteroate synthase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_14520 - folK Type: Gene Product:2-amino-4-hydroxy-6-hydroxymethyldihydropteridinepyrophosphokinase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_14440 - Type: Gene Product:Putative exported polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14460 - pabB Type: Gene Product:Para-aminobenzoate synthase component I \| Pathway: \| COG: Amino acid transport and metabolism, Coenzyme transport and metabolism CD630_34360 - cobC Type: Gene Product:Cobalamin biosynthesis phosphoglycerate mutaseCobC \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_01980 - guaA Type: Gene Product:Glutamine amidotransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_36030 - Type: Gene Product:Putative phosphoesterase \| Pathway: \| COG: Function unknown CD630_14480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_31500 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.58	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_04020 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`