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 161 - 170 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_243	21 CD630_24950 - selA Type: Gene Product:L-seryl-tRNA(Sec) selenium transferase(Selenocysteine synthase) (Sec synthase)(Selenocysteinyl-tRNA(Sec) synthase ) \| Pathway: Aminoacyl-tRNA biosynthesis \| COG: Amino acid transport and metabolism CD630_24980 - dacF Type: Gene Product:D-alanyl-D-alanine carboxypeptidase (putativesporulation-specific penicillin-binding protein) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_24930 - selB Type: Gene Product:Selenocysteinyl-tRNA-specific translation factor \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_35140 - prs Type: Gene Product:Ribose-phosphate pyrophosphokinase \| Pathway: Metabolic intermediate biosynthesis \| COG: Nucleotide transport and metabolism CD630_01940 - groL Type: Gene Product:60 kDa chaperonin (Protein Cpn60) (GroELprotein) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25240 - nadD Type: Gene Product:Nicotinate-nucleotide adenylyltransferase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_24970 - comE Type: Gene Product:Competence protein ComEA \| Pathway: \| COG: Replication, recombination and repair CD630_25230 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_24960 - selD Type: Gene Product:Selenide, water dikinase (Selenophosphatesynthetase) (Selenium donor protein) \| Pathway: \| COG: Amino acid transport and metabolism CD630_27290 - Type: Gene Product:Putative regulator of the sigma(E) factor \| Pathway: \| COG: Signal transduction mechanisms CD630_01930 - groS Type: Gene Product:10 kDa chaperonin (Protein Cpn10) (GroESprotein) \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_21770 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family extracellular solute-bindingprotein \| Pathway: \| COG: Amino acid transport and metabolism CD630_25220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21760 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_35150 - glmU Type: Gene Product:Bifunctional protein GlmU [Includes:UDP-N-acetylglucosamine pyrophosphorylase ;Glucosamine-1-phosphate N-acetyltransferase] \| Pathway: Nucleotide-sugar biosynthesis \| COG: Cell wall/membrane/envelope biogenesis CD630_27310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_21720 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family ATP-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_21750 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family permease \| Pathway: \| COG: Amino acid transport and metabolism CD630_21740 - Type: Gene Product:ABC-type transport system,cystine/aminoacid-family extracellular solute-bindingprotein \| Pathway: \| COG: Amino acid transport and metabolism, Signal transduction mechanisms CD630_27300 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21730 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism	1.2	`NA`	0.39	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_27220 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_244	22 CD630_07950 - Type: Gene Product:Conserved hypothetical protein, UPF0082 family \| Pathway: \| COG: Transcription CD630_18170 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_18150 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24490 - Type: Gene Product:Putative methyltransferase \| Pathway: \| COG: Function unknown CD630_06810 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06830 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_21020 - Type: Gene Product:Putative Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24500 - prmA Type: Gene Product:Ribosomal protein L11 methyltransferase (L11Mtase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_20200 - clpB Type: Gene Product:Chaperone protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_18140 - Type: Gene Product:Putative phosphoglycerate mutase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_20220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18160 - cmk Type: Gene Product:Cytidylate kinase (CK) (Cytidine monophosphatekinase) (CMP kinase) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_24480 - Type: Gene Product:Putative MiaB-like tRNA modifying enzyme \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_23930 - Type: Gene Product:Putative glycosyl transferase, family 51 \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_07940 - nadE Type: Gene Product:NH3-dependent NAD(+) synthetase \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_18180 - ispH Type: Gene Product:4-hydroxy-3-methylbut-2-enyl diphosphatereductase \| Pathway: Isoprenoid biosynthesis \| COG: Lipid transport and metabolism CD630_06820 - Type: Gene Product:Putative sodium:solute symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_06800 - Type: Gene Product:Conserved hypothetical protein, DUF1486 family \| Pathway: \| COG: Function unknown CD630_20210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24470 - Type: Gene Product:Putative histidine triad (HIT) protein \| Pathway: \| COG: Nucleotide transport and metabolism, Carbohydrate transport and metabolism CD630_23940 - polC Type: Gene Product:DNA polymerase III, epsilon subunit \| Pathway: \| COG: Replication, recombination and repair	0.00000052	`NA`	0.47	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_01710 - rex Type: Gene Product:Transcriptional regulator, Redox-sensingrepressor Rex \| Pathway: \| COG: Transcription CD630_24630 - hrcA Type: Gene Product:Transcriptional regulator, Heat-induciblerepressor HrcA \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_245	31 CD630_05822 - Type: Gene Product:Fragment of putative signaling protein precursor(N-terminal region) \| Pathway: \| COG: Signal transduction mechanisms CD630_26050 - Type: Gene Product:Fragment of ADP-ribosyltransferase CdtAB (Part3) \| Pathway: \| COG: CD630_18090 - Type: Gene Product:Fragment of putative permease, MFS family (Part1) \| Pathway: \| COG: Carbohydrate transport and metabolism, Carbohydrate transport and metabolism CD630_07650 - srlEa Type: Gene Product:PTS system, sorbitol-specific IIB N-terminalcomponent (Glucitol) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_06421 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_11031 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf20 \| Pathway: \| COG: CD630_08570 - oppF Type: Gene Product:Fragment of ABC-type transport system,oligopeptide-family ATP-binding protein (Part 1) \| Pathway: \| COG: Amino acid transport and metabolism, Amino acid transport and metabolism CD630_01981 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_25201 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal part) \| Pathway: \| COG: CD630_21930 - cwp24 Type: Gene Product:Putative cell wall-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_t0790 - tRNA-Ser Type: Gene Product: \| 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_08160 - bglF Type: Gene Product:PTS system, beta-glucoside-specific IIABCcomponent (Disrupted IStron) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_19020 - Type: Gene Product:Fragment of putative conjugative transposonprotein (Central region) \| Pathway: \| COG: Replication, recombination and repair CD630_19270 - Type: Gene Product:Fragment of ABC-type transport system,ATP-binding protein (Part 2) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18311 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_12382 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: CD630_20051 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Transcription CD630_20050 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: Function unknown CD630_13110 - Type: Gene Product:Putative phosphoesterase (Disrupted IStron) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis, Translation, ribosomal structure and biogenesis CD630_30080 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Function unknown CD630_22980 - srl Type: Gene Product:Actin aggregate factor \| Pathway: \| COG: CD630_05040 - Type: Gene Product:Fragment of putative cell wall hydrolase NLPC/P60family Tn5397, CTn3-Orf14 (Part 1) \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_21510 - Type: Gene Product:Putative membrane protein, DUF819 family \| Pathway: \| COG: Function unknown CD630_13880 - Type: Gene Product:Fragment of trancriptional regulator (Part 2) \| Pathway: \| COG: Transcription CD630_23590 - Type: Gene Product:Putative hydrolase, HAD superfamily, subfamilyIIB \| Pathway: \| COG: Function unknown 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_36110 - Type: Gene Product:Fragment of putative drug/sodium antiporter, MATEfamily (Part 2) \| Pathway: \| COG: Defense mechanisms, Defense mechanisms CD630_33721 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf5 \| Pathway: \| COG: CD630_14260 - Type: Gene Product:Fragment of isochorismatase (Part 2) \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism, Secondary metabolites biosynthesis, transport and catabolism CD630_19440 - Type: Gene Product:Fragment of conserved hypothetical protein(C-terminal region) \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.53	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_07630 - srlM Type: Gene Product:Sorbitol operon activator protein (Glucitol) \| Pathway: \| COG: Function unknown TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_246	30 CD630_18711 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf31 \| Pathway: \| COG: CD630_20000 - isp Type: Gene Product:Intracellular serine protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_18730 - vexP1 Type: Gene Product:ABC-type transport system, permease Tn1549-like,CTn5-Orf33 \| Pathway: \| COG: Defense mechanisms CD630_10110 - nagB Type: Gene Product:Glucosamine-6-phosphate deaminase \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_17260 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17240 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_02430 - Type: Gene Product:Methyltransferase \| Pathway: \| COG: Function unknown CD630_26850 - Type: Gene Product:Putative sporulation stage II, protein E \| Pathway: \| COG: Signal transduction mechanisms CD630_23360 - Type: Gene Product:Putative toxic anion resistance protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_21110 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_05720 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_35610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10100 - nagA Type: Gene Product:N-acetylglucosamine-6-phosphate deacetylase(GlcNAc 6-P deacetylase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17511 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17250 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_00460 - Type: Gene Product:Putative lipoate-protein ligase \| Pathway: Protein modification \| COG: Coenzyme transport and metabolism CD630_26840 - Type: Gene Product:Putative flavodoxin-related protein \| Pathway: \| COG: Function unknown CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_26860 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_23370 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18770 - vncS Type: Gene Product:Two-component sensor histidine kinase;Tn1549-like, CTn5-Orf37 \| Pathway: \| COG: Signal transduction mechanisms CD630_35620 - murI Type: Gene Product:Glutamate racemase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_33500 - sgtA Type: Gene Product:Glycosyl transferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_08290 - Type: Gene Product:Putative metallo-beta-lactamase superfamilyprotein \| Pathway: \| COG: Function unknown CD630_05730 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12580 - Type: Gene Product:Putative GTPase, MG442 type \| Pathway: \| COG: Transcription CD630_05710 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_18750 - vexP3 Type: Gene Product:ABC-type transport system, permease Tn1549-like,CTn5-Orf35 \| Pathway: \| COG: Defense mechanisms	0.000000000025	`NA`	0.54	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR 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_247	14 CD630_15390 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_19920 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_13910 - Type: Gene Product:Putative hydrolase, CocE/NonD family \| Pathway: \| COG: Function unknown CD630_05800 - gapN Type: Gene Product:Glyceraldehyde-3-phosphate dehydrogenase(NADP(+)) (GADPH) \| Pathway: \| COG: Energy production and conversion CD630_15410 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_t0030 - tRNA-Asn Type: Gene Product: \| Pathway: \| COG: CD630_33570 - Type: Gene Product:Putative protease/amidase \| Pathway: \| COG: Function unknown CD630_04020 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_03140 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_t0470 - tRNA-Asn Type: Gene Product: \| Pathway: \| COG: CD630_05640 - Type: Gene Product:putative ATP-dependent protease \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_15400 - Type: Gene Product:ABC-type transport system, permease protein \| Pathway: \| COG: Defense mechanisms CD630_15420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05860 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000023	0.01	0.54	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_30540 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms 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_248	30 CD630_32120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_34810 - Type: Gene Product:Protein-tyrosine phosphatase reductase \| Pathway: \| COG: Signal transduction mechanisms CD630_34870 - rho Type: Gene Product:Transcription termination factor Rho \| Pathway: \| COG: Transcription CD630_34850 - hemK Type: Gene Product:Modification methylase HemK \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34830 - Type: Gene Product:Putative zinc/iron permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10830 - Type: Gene Product:PTS system, lactose/cellobiose specific IIBcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_21780 - Type: Gene Product:Putative oxidoreductase, Fe-S subunit \| Pathway: \| COG: Energy production and conversion CD630_09860 - rpsA Type: Gene Product:30S ribosomal protein S1 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_10810 - moeA Type: Gene Product:Molybdenum cofactor biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_34860 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_14590 - Type: Gene Product:Putative FMN-binding protein \| Pathway: \| COG: Nucleotide transport and metabolism CD630_34030 - Type: Gene Product:Putative formate/nitrite transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33090 - ligA Type: Gene Product:DNA ligase (Polydeoxyribonucleotide synthase[NAD+]) \| Pathway: \| COG: Replication, recombination and repair CD630_27480 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Replication, recombination and repair CD630_21850 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22840 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18000 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_32130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17671 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_34800 - rpiB2 Type: Gene Product:Ribose-5-phosphate isomerase 2 \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10820 - mobB Type: Gene Product:Molybdopterin-guanine dinucleotide biosynthesisprotein B \| Pathway: \| COG: Coenzyme transport and metabolism CD630_27490 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Function unknown CD630_34820 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_34861 - rpmE Type: Gene Product:50S ribosomal protein L31 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_21790 - Type: Gene Product:Putative anaerobic dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_34840 - prfA Type: Gene Product:Peptide chain release factor 1 (RF-1) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17990 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_34790 - upp Type: Gene Product:Uracil phosphoribosyltransferase (UMPpyrophosphorylase) (UPRTase) \| Pathway: Pyrimidine metabolism \| COG: Nucleotide transport and metabolism CD630_17680 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_21860 - Type: Gene Product:Putative phage-like protein \| Pathway: \| COG:	0.06	`NA`	0.54	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms 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_249	6 CD630_04371 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_07690 - Type: Gene Product:Putative oxidoreductase subunit \| Pathway: \| COG: Energy production and conversion CD630_13430 - glnA Type: Gene Product:Glutamine synthetase \| Pathway: \| COG: Amino acid transport and metabolism CD630_23030 - Type: Gene Product:Fragment of putative phage transcriptionalrepressor (N-terminal region) \| Pathway: \| COG: Transcription CD630_20470 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription	`NA`	`NA`	0.52	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_06580 - cdu1 Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_25	29 CD630_12480 - rnc Type: Gene Product:ribonuclease III \| Pathway: \| COG: Transcription CD630_31140 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_12520 - ffh Type: Gene Product:Signal recognition particle protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_12560 - trmD Type: Gene Product:tRNA (guanine-N(1)-)-methyltransferase(M1G-methyltransferase) (tRNA [GM37] methyltransferase ) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_12500 - smc Type: Gene Product:Structural maintenance chromosome protein SMC \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_12460 - efp Type: Gene Product:Elongation factor P (EF-P) \| Pathway: Protein biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_12540 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Function unknown CD630_31120 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_31960 - Type: Gene Product:Putative penicillin-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20190 - Type: Gene Product:Transporter drug resistance, Major FacilitatorSuperfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31940 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_08620 - Type: Gene Product:PTS system, lactose/cellobiose-family IICmembrane component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32620 - pstA Type: Gene Product:ABC-type transport system, phosphate-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_32600 - phoU Type: Gene Product:Phosphate uptake regulator, PhoU \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12530 - rpsP Type: Gene Product:30S ribosomal protein S16 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31980 - cme Type: Gene Product:Multidrug resistance protein Cme; Transporter,Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_31130 - Type: Gene Product:Putative aminobenzoyl-glutamate utilizationprotein B \| Pathway: \| COG: Amino acid transport and metabolism CD630_12470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12660 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_12511 - Type: Gene Product:Putative DNA-binding regulator \| Pathway: \| COG: Function unknown CD630_12510 - ftsY Type: Gene Product:signal recognition particle receptor \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_12550 - rimM Type: Gene Product:16S rRNA processing protein RimM \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_12570 - rplS Type: Gene Product:50S ribosomal protein L19 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31970 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_12680 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_32610 - pstB Type: Gene Product:ABC-type transport system, phosphate-specificATP-binding \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31950 - Type: Gene Product:Putative UvrABC system protein A 2 (UvrA protein2) (Excinuclease ABC subunit A 2) \| Pathway: \| COG: Replication, recombination and repair CD630_32630 - pstC Type: Gene Product:ABC-type transport system, phosphate-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_20180 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription	0.000001	`NA`	0.56	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_24120 - Type: Gene Product:Putative negative regulator of gluconeogenesis \| 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_250	24 CD630_30900 - treR Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_07360 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07320 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Coenzyme transport and metabolism CD630_07340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07300 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_17840 - truA2 Type: Gene Product:Pseudouridylate synthase (tRNA pseudouridinesynthase A) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17800 - Type: Gene Product:Putative methylase \| Pathway: \| COG: Replication, recombination and repair CD630_03250 - cbiN Type: Gene Product:ABC-type transport system, cobalt-specificextracellular solute-binding protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03270 - cbiO Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_27370 - Type: Gene Product:Putative nitrilase/cyanide hydratase andapolipoprotein N-acyltransferase \| Pathway: \| COG: Function unknown CD630_17790 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_30910 - treA Type: Gene Product:Trehalose-6-phosphate hydrolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07310 - Type: Gene Product:Putative radical SAM superfamily protein \| Pathway: \| COG: Function unknown CD630_07330 - Type: Gene Product:Putative biotin/lipoate-protein ligase \| Pathway: Protein modification \| COG: Coenzyme transport and metabolism CD630_27380 - Type: Gene Product:Putative cytosine permease \| Pathway: \| COG: Nucleotide transport and metabolism CD630_11370 - rnfC Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_03240 - cbiM Type: Gene Product:Cobalamin biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_17830 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_17810 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_03260 - cbiQ Type: Gene Product:ABC-type transport system, cobalt-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism	0.00015	`NA`	0.52	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_251	24 CD630_26350 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_10660 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26370 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_01260 - spoIIID Type: Gene Product:Stage III sporulation protein D \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription CD630_35690 - Type: Gene Product:Sporulation-specific protease \| Pathway: \| COG: Function unknown CD630_01240 - spoIID Type: Gene Product:Stage II sporulation protein D \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_35670 - SipL Type: Gene Product:SpoIVA-Interacting protein, coat localization \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_26380 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_26400 - nrdR Type: Gene Product:Transcriptional regulator, repressor NrdR family \| Pathway: \| COG: Transcription CD630_26440 - spoIIGA Type: Gene Product:Sporulation sigma-E factor processing peptidase \| Pathway: \| COG: Function unknown CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_35630 - sleB Type: Gene Product:Spore-cortex-lytic protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_34900 - spoIIE Type: Gene Product:Phosphoprotein phosphatase \| Pathway: \| COG: Signal transduction mechanisms CD630_10650 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_26360 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_26340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_01250 - spoIIQ Type: Gene Product:Stage II sporulation protein Q \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_23750 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_26410 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Function unknown CD630_23740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_35640 - spoIIR Type: Gene Product:Pro-sigma(E) endopeptidase (stage IIsporulation) \| Pathway: \| COG: Function unknown CD630_26390 - Type: Gene Product:Putative laccase protein \| Pathway: \| COG: Function unknown CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription	0.00053	`NA`	0.35	Inferelator: 2 Hypergeometric: 3 TF Influences from Inferelator CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12140 - spo0A Type: Gene Product:Stage 0 sporulation protein A \| Pathway: \| COG: Signal transduction mechanisms CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription