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 151 - 160 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_31	23 CD630_28640 - Type: Gene Product:Putative hydrolase \| Pathway: \| COG: Function unknown CD630_29650 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_09790 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_22220 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_27970 - Type: Gene Product:Putative calcium-binding adhesion protein \| Pathway: \| COG: Function unknown CD630_06560 - Type: Gene Product:Chloride ion channel protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18920 - Type: Gene Product:Putative methyltransferase, type 11 family \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_28730 - Type: Gene Product:Putative signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_27640 - Type: Gene Product:Putative hydrolase, HAD superfamily, IIBsubfamily \| Pathway: \| COG: Function unknown CD630_28650 - Type: Gene Product:Putative bacterioferritin \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_25690 - Type: Gene Product:Putative glycoside hydrolase, family 38; Putativealpha-mannosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_17290 - Type: Gene Product:Putative sodium:phosphate symporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_06590 - tcdR Type: Gene Product:Alternative RNA polymerase sigma factors \| Pathway: \| COG: CD630_03420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_15730 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_12510 - ftsY Type: Gene Product:signal recognition particle receptor \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_34550 - Type: Gene Product:Putative carboxy-terminal protease \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06570 - cdu2 Type: Gene Product:Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_22440 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_06610 - tcdE Type: Gene Product:Holin-like pore-forming protein \| Pathway: \| COG: Function unknown CD630_28690 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_15110 - cotB Type: Gene Product:Spore outer coat layer protein CotB \| Pathway: \| COG: Function unknown CD630_23760 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown	5.2e-21	`NA`	0.46	Inferelator: 2 Hypergeometric: 0 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 `No TF Influences from the hypergeometric test`
Module_122	25 CD630_18300 - kdpE Type: Gene Product:Two-component response regulator KdpE \| Pathway: \| COG: Signal transduction mechanisms CD630_t0010 - tRNA-Ala Type: Gene Product: \| Pathway: \| COG: CD630_17220 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: CD630_07470 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Function unknown CD630_06420 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_t0650 - tRNA-Ala Type: Gene Product: \| Pathway: \| COG: CD630_06400 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_07460 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_18290 - kdpD Type: Gene Product:Two-component sensor histidine kinase KdpD \| Pathway: \| COG: Signal transduction mechanisms CD630_08390 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_05880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06271 - Type: Gene Product:Putative ferredoxin \| Pathway: \| COG: Energy production and conversion CD630_07480 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_32050 - Type: Gene Product:Putative nitroreductase \| Pathway: \| COG: Energy production and conversion CD630_08380 - Type: Gene Product:Putative DNA-binding protein \| Pathway: \| COG: CD630_t0690 - tRNA-Ala Type: Gene Product: \| Pathway: \| COG: CD630_06280 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_17210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17230 - Type: Gene Product:Putative acyltransferase \| Pathway: \| COG: Lipid transport and metabolism CD630_06410 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_05870 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32060 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_25621 - rpmB Type: Gene Product:50S ribosomal protein L28 \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_33722 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn7-Orf6 \| Pathway: \| COG: Function unknown CD630_12331 - Type: Gene Product:Fragment of phage protein \| Pathway: \| COG:	4.1e-20	0.0000000000035	0.62	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_22150 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_388	29 CD630_28130 - garR Type: Gene Product:Tartronate semialdehyde reductase \| Pathway: \| COG: Lipid transport and metabolism CD630_32120 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20410 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_33581 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_19710 - Type: Gene Product:Putative protein, Sir2 family; putativesilencing, chromosome stability or ageing; putative ADPribosyltransferase \| Pathway: \| COG: Function unknown CD630_10070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_32130 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19660 - Type: Gene Product:Putative acyl-CoA thioesterase \| Pathway: \| COG: Function unknown CD630_15431 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15430 - Type: Gene Product:putative FMN-dependent NADH-azoreductase \| Pathway: \| COG: Lipid transport and metabolism CD630_09240 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_19850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30060 - Type: Gene Product:Alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_10890 - rgbR Type: Gene Product:Two-component response regulator VirR-like \| Pathway: \| COG: Signal transduction mechanisms CD630_12810 - mnmA Type: Gene Product:tRNA-specific 2-thiouridylase MnmA \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_17730 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_33590 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Function unknown CD630_28120 - Type: Gene Product:Putative gluconate permease \| Pathway: \| COG: Amino acid transport and metabolism, Carbohydrate transport and metabolism CD630_32340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19650 - Type: Gene Product:Putative permease \| Pathway: \| COG: Function unknown CD630_32440 - prdA Type: Gene Product:D-proline reductase proprotein prdA \| Pathway: \| COG: Function unknown CD630_29400 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_10900 - rgbS Type: Gene Product:Fragment of two-component sensor histidine kinase(N-terminal region) \| Pathway: \| COG: Signal transduction mechanisms CD630_29390 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_18780 - Type: Gene Product:Putative sigma factor Tn1549-like, CTn5-Orf38 \| Pathway: \| COG: Function unknown CD630_22760 - Type: Gene Product:Sodium:alanine symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_29380 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28110 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	8.8e-19	0	0.56	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_297	22 CD630_05940 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_13040 - acd Type: Gene Product:Mannosyl-glycoproteinendo-beta-N-acetylglucosamidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_36430 - Type: Gene Product:Dihydroorotase \| Pathway: \| COG: Function unknown CD630_36410 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_03920 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Function unknown CD630_31450 - cbpA Type: Gene Product:Surface-exposed adhesin \| Pathway: \| COG: Function unknown CD630_09020 - Type: Gene Product:Putative cation efflux protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_05930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06130 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_18100 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_05950 - Type: Gene Product:Putative nuclease, ParB-like \| Pathway: \| COG: Transcription CD630_23890 - Type: Gene Product:Putative beta-lactams signal-transducer \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_26160 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32460 - Type: Gene Product:Putative surface protein \| Pathway: \| COG: Function unknown CD630_36440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_36400 - Type: Gene Product:Putative ribokinase family sugar kinase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_36420 - Type: Gene Product:Putative selenocysteine synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03930 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_23880 - Type: Gene Product:Putative peptidoglycan-binding/hydrolysingprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06120 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_08970 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	9.6e-19	`NA`	0.36	Inferelator: 3 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_02660 - sigD Type: Gene Product:RNA polymerase sigma-28 factor for flagellaroperon \| Pathway: \| COG: Transcription
Module_97	29 CD630_33020 - chrA Type: Gene Product:Chromate transport protein ChrA \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_35960 - Type: Gene Product:putative homocysteine S-methyltransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_35980 - luxS Type: Gene Product:S-ribosylhomocysteine lyase (Autoinducer-2production protein luxS) (AI-2 synthesis protein) \| Pathway: \| COG: Signal transduction mechanisms CD630_13410 - exoA Type: Gene Product:Exodeoxyribonuclease \| Pathway: \| COG: Replication, recombination and repair CD630_00150 - tadA Type: Gene Product:tRNA specific adenosine deaminase \| Pathway: \| COG: Nucleotide transport and metabolism, Translation, ribosomal structure and biogenesis CD630_05220 - Type: Gene Product:Putative c-di-GMP regulatory protein \| Pathway: \| COG: Signal transduction mechanisms CD630_06940 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_21080 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_11850 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_15680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_32300 - bclA2 Type: Gene Product:Exosporium glycoprotein \| Pathway: \| COG: Function unknown CD630_08280 - Type: Gene Product:Putative oxidative stress glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_15340 - ggt Type: Gene Product:Gamma-glutamyltranspeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_35970 - Type: Gene Product:Putative S-adenosyl-L-methionine dependentmethionine synthase \| Pathway: \| COG: Function unknown CD630_32320 - CdsB Type: Gene Product:Cysteine desulfidase \| Pathway: \| COG: Function unknown CD630_12910 - dacF Type: Gene Product:D-alanyl-D-alanine carboxypeptidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12900 - Type: Gene Product:Putative small acid-soluble spore protein SASP \| Pathway: \| COG: CD630_06950 - Type: Gene Product:Putative exported metalloendopeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_32310 - hpt Type: Gene Product:Hypoxanthine phosphoribosyltransferase \| Pathway: Purine metabolism \| COG: Nucleotide transport and metabolism CD630_21090 - Type: Gene Product:Putative anion:Na+ symporter \| Pathway: \| COG: Function unknown CD630_05230 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: Function unknown CD630_08250 - rbr Type: Gene Product:Rubrerythrin \| Pathway: \| COG: Energy production and conversion CD630_28870 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_07070 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_25150 - Type: Gene Product:Putative L-aspartate-beta-decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_22610 - Type: Gene Product:Putative peptidase, M24 family \| Pathway: \| COG: Amino acid transport and metabolism	1.5e-18	`NA`	0.51	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_16930 - Type: Gene Product:Putative dinitrogenase iron-molybdenum cofactor \| Pathway: \| COG: Function unknown CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| 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_260	22 CD630_03340 - adhE Type: Gene Product:Aldehyde-alcohol dehydrogenase \| Pathway: \| COG: Energy production and conversion CD630_24870 - Type: Gene Product:PTS system, fructose-like IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07750 - spoVAE Type: Gene Product:Stage V sporulation protein AE \| Pathway: \| COG: Function unknown CD630_13820 - glpK2 Type: Gene Product:Glycerol kinase 1 (ATP:glycerol3-phosphotransferase 1) (Glycerokinase 1) (GK 1) \| Pathway: Polyol metabolism \| COG: Energy production and conversion CD630_07730 - spoVAC Type: Gene Product:Stage V sporulation protein AC \| Pathway: \| COG: Function unknown CD630_16160 - Type: Gene Product:Putative diguanylate kinase signaling protein \| Pathway: \| COG: Signal transduction mechanisms CD630_24890 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_13990 - Type: Gene Product:putative muramoyltetrapeptide carboxypeptidase,S66 family \| Pathway: \| COG: Defense mechanisms CD630_33090 - ligA Type: Gene Product:DNA ligase (Polydeoxyribonucleotide synthase[NAD+]) \| Pathway: \| COG: Replication, recombination and repair CD630_26810 - Type: Gene Product:Putative sporulation protein \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_13810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_20220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13970 - Type: Gene Product:Conserved hypothetical protein, UPF0066 family \| Pathway: \| COG: Function unknown CD630_24860 - Type: Gene Product:PTS system, fructose-like IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_22700 - fruK Type: Gene Product:Fructose 1-phosphate kinase \| Pathway: Carbohydrate metabolism \| COG: Carbohydrate transport and metabolism CD630_22690 - fruABC Type: Gene Product:PTS system, fructose-specific IIABC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07740 - spoVAD Type: Gene Product:Stage V sporulation protein AD \| Pathway: \| COG: Function unknown CD630_13980 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_24880 - Type: Gene Product:PTS system, fructose-like IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14000 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13800 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism	3.4e-18	0	0.52	Inferelator: 3 Hypergeometric: 1 TF Influences from Inferelator CD630_06290 - Type: Gene Product:Transcriptional regulator, Crp family \| Pathway: \| COG: Transcription CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_25990 - Type: Gene Product:Putative transcriptional regulator \| 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_76	28 CD630_19510 - Type: Gene Product:putative Acyl-CoA N-acyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_10110 - nagB Type: Gene Product:Glucosamine-6-phosphate deaminase \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_07830 - spoIVB Type: Gene Product:Stage IV sporulation protein SpoIVB, S55peptidase family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_15640 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_03920 - Type: Gene Product:Putative radical SAM-family protein \| Pathway: \| COG: Function unknown CD630_06010 - ogt1 Type: Gene Product:Methylated-DNA-[protein]-cysteineS-methyltransferase 1 \| Pathway: \| COG: Replication, recombination and repair 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_06330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Replication, recombination and repair CD630_12580 - Type: Gene Product:Putative GTPase, MG442 type \| Pathway: \| COG: Transcription CD630_04830 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_10080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_28650 - Type: Gene Product:Putative bacterioferritin \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30320 - Type: Gene Product:Putative pyridoxal phosphate-dependenttransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03370 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Defense mechanisms CD630_10100 - nagA Type: Gene Product:N-acetylglucosamine-6-phosphate deacetylase(GlcNAc 6-P deacetylase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07840 - Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_11330 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06990 - pheS Type: Gene Product:Phenylalanyl-tRNA synthetase alpha chain(Phenylalanine--tRNA ligase alpha chain) (PheRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_03930 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_19921 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15670 - cotG Type: Gene Product:Putative spore-associated manganese catalase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_27050 - Type: Gene Product:Putative amidohydrolase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_02791 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04840 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_14041 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14040 - Type: Gene Product:Putative oligopeptide transporter \| Pathway: \| COG: Function unknown CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription	2.5e-17	0.19	0.59	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_12	20 CD630_33220 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15640 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_19870 - cwp28 Type: Gene Product:Putative cell wall binding protein \| Pathway: \| COG: Function unknown CD630_30050 - Type: Gene Product:Transcriptional regulator, IclR family \| Pathway: \| COG: Transcription CD630_05110 - tndX Type: Gene Product:Recombinase site-specific resolvase familyTn5397, CTn3-Orf3 \| Pathway: \| COG: Replication, recombination and repair CD630_33660 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: CD630_15670 - cotG Type: Gene Product:Putative spore-associated manganese catalase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_32680 - pstS Type: Gene Product:ABC-type transport system, phosphateextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_17400 - Type: Gene Product:Glycine/sarcosine/betaine reductase complex,protein B, alpha and beta subunits \| Pathway: \| COG: Function unknown CD630_32480 - Type: Gene Product:Polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_10290 - Type: Gene Product:Putative cell wall anchored protein \| Pathway: \| COG: Function unknown CD630_01640 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_19890 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_33210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05270 - Type: Gene Product:Putative beta-lactamase-like hydrolase \| Pathway: \| COG: Function unknown CD630_07410 - glpK1 Type: Gene Product:Glycerol kinase (GK) \| Pathway: Polyol metabolism \| COG: Energy production and conversion CD630_12400 - vanZ Type: Gene Product:Teicoplanin resistance protein \| Pathway: \| COG: Defense mechanisms CD630_32500 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_12590 - brnQ-1 Type: Gene Product:Branched chain amino acid transport systemcarrier protein \| Pathway: \| COG: Amino acid transport and metabolism	5.7e-17	`NA`	0.48	Inferelator: 4 Hypergeometric: 0 TF Influences from Inferelator CD630_10090 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_12390 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms CD630_31750 - cggR Type: Gene Product:Transcriptional regulator, SorC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_5	31 CD630_27320 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_27290 - Type: Gene Product:Putative regulator of the sigma(E) factor \| Pathway: \| COG: Signal transduction mechanisms CD630_13020 - Type: Gene Product:Putative MazG-like pyrophosphohydrolase \| Pathway: \| COG: Function unknown CD630_10070 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Transcription CD630_08190 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_17500 - Type: Gene Product:Putative CoA enzyme activase \| Pathway: \| COG: Lipid transport and metabolism CD630_31280 - pgmB Type: Gene Product:Beta-phosphoglucomutase (beta-D-Glucose1,6-phosphomutase) \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08180 - Type: Gene Product:6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14310 - Type: Gene Product:Putative helicase, DinG family \| Pathway: \| COG: Replication, recombination and repair CD630_11290 - coaE Type: Gene Product:Dephospho-CoA kinase (Dephosphocoenzyme Akinase) \| Pathway: Cofactor biosynthesis \| COG: Coenzyme transport and metabolism CD630_15100 - Type: Gene Product:Conserved hypothetical protein, DUF1121 family \| Pathway: \| COG: Function unknown CD630_22530 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_13990 - Type: Gene Product:putative muramoyltetrapeptide carboxypeptidase,S66 family \| Pathway: \| COG: Defense mechanisms CD630_17490 - Type: Gene Product:Putative 2-hydroxyacyl-CoA dehydratase \| Pathway: \| COG: Amino acid transport and metabolism CD630_04870 - Type: Gene Product:Putative carbon-nitrogen hydrolase \| Pathway: \| COG: Function unknown CD630_27310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_23770 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_19450 - Type: Gene Product:Putative enzyme \| Pathway: \| COG: Amino acid transport and metabolism CD630_19430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_13030 - npdA Type: Gene Product:NAD-dependent deacetylase, Sir2 family \| Pathway: \| COG: Transcription CD630_23870 - Type: Gene Product:Alpha-hydroxy acid dehydrogenase, FMN-dependent \| Pathway: \| COG: Energy production and conversion CD630_31270 - Type: Gene Product:PTS system, beta-glucoside-like IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14320 - Type: Gene Product:Putative ribonuclease \| Pathway: \| COG: Function unknown CD630_06040 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_17990 - terD Type: Gene Product:Tellurium resistance protein \| Pathway: \| COG: Signal transduction mechanisms CD630_23350 - guaB Type: Gene Product:Inositol-5'-monophosphate dehydrogenase (IMPdehydrogenase) (IMPDH) (IMPD) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_22540 - Type: Gene Product:Asp/Glu racemase \| Pathway: \| COG: Amino acid transport and metabolism CD630_23580 - Type: Gene Product:Oligoendopeptidase-related, clade2, M3B family \| Pathway: \| COG: Amino acid transport and metabolism CD630_20140 - ilvD Type: Gene Product:Dihydroxy-acid dehydratase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_14000 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27300 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	6.2e-17	`NA`	0.45	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_05090 - Type: Gene Product:Transcriptional regulator, HTH-type Tn5397,CTn3-Orf9 \| Pathway: \| COG: Transcription CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_20920 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_356	31 CD630_36150 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_32350 - ssb Type: Gene Product:Single-stranded DNA-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_12440 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_06920 - Type: Gene Product:Putative metallo-hydrolase/oxidoreductase \| Pathway: \| COG: Function unknown CD630_18880 - rsiU Type: Gene Product:Anti Sigma Factor, ECF family \| Pathway: \| COG: Function unknown CD630_01640 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_29510 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_10870 - zupT Type: Gene Product:Putative zinc/iron transporter, ZupT subfamiliy \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12420 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06710 - Type: Gene Product:Putative enzyme, glyoxalase family \| Pathway: \| COG: Amino acid transport and metabolism CD630_20250 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_10850 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20190 - Type: Gene Product:Transporter drug resistance, Major FacilitatorSuperfamily (MFS) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_18900 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_10890 - rgbR Type: Gene Product:Two-component response regulator VirR-like \| Pathway: \| COG: Signal transduction mechanisms CD630_20240 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_18840 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_36160 - Type: Gene Product:Na(+)/H(+) antiporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_33300 - Type: Gene Product:Transcriptional regulator, HTH-type Tn916-like,CTn6-Orf6 \| Pathway: \| COG: Transcription CD630_12380 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_12450 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_19941 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_19940 - Type: Gene Product:Putative membrane protein, DUF1648 family \| Pathway: \| COG: Function unknown CD630_12430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_18890 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_10860 - Type: Gene Product:Putative peptidase, M20D family \| Pathway: \| COG: Amino acid transport and metabolism CD630_18830 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_18870 - csfU Type: Gene Product:Extra-Cytoplasmic Function sigma factors, ECFfamily \| Pathway: \| COG: Transcription CD630_07490 - Type: Gene Product:Putative DNA helicase, UvrD/REP type \| Pathway: \| COG: Replication, recombination and repair CD630_10880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20230 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription	6.4e-17	`NA`	0.48	Inferelator: 1 Hypergeometric: 1 TF Influences from Inferelator CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_26430 - sigE Type: Gene Product:RNA polymerase sigma-E factor \| Pathway: \| COG: Transcription