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 291 - 300 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_348	34 CD630_13780 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31540 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_31560 - Type: Gene Product:phage integrase \| Pathway: \| COG: Replication, recombination and repair CD630_08890 - speH Type: Gene Product:S-adenosylmethionine decarboxylase proenzyme \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_13940 - Type: Gene Product:Putative NAD(P)-binding oxidoreductase,GFO/IDH/MOCA family \| Pathway: \| COG: Function unknown CD630_05480 - Type: Gene Product:Putative penicillin-binding peptidase BlaR1-like,M56 family \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_17220 - Type: Gene Product:Putative transcriptional regulator \| Pathway: \| COG: CD630_15060 - Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_11260 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_16210 - Type: Gene Product:Putative mechanosensitive ion channel protein,MscS family \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_03330 - ppaC Type: Gene Product:Putative inorganic pyrophosphatase \| Pathway: \| COG: Energy production and conversion CD630_15040 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_23470 - Type: Gene Product:Putative Xaa-Pro dipeptidase \| Pathway: \| COG: Amino acid transport and metabolism CD630_14620 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_24780 - Type: Gene Product:Putative DNA uptake transporter \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_05930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_20420 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_15050 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: CD630_08900 - speE Type: Gene Product:Spermidine synthase \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_31550 - Type: Gene Product:Putative Fic/Doc-related protein \| Pathway: \| COG: Function unknown CD630_20280 - Type: Gene Product:Putative aspartate racemase RacX \| Pathway: \| COG: Amino acid transport and metabolism CD630_08880 - speA Type: Gene Product:Arginine decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_05490 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: 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_16590 - Type: Gene Product:Cation-transporting ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_15030 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_15690 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_17930 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_05470 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_17660 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_08910 - speB Type: Gene Product:Agmatinase (Agmatine ureohydrolase) (AUH) \| Pathway: \| COG: Amino acid transport and metabolism CD630_07110 - argS Type: Gene Product:Arginyl-tRNA synthetase (Arginine--tRNA ligase)(ArgRS) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000039	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_06110 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_19100 - eutV Type: Gene Product:Two-component response regulator, Ethanolaminespecific \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_116	6 CD630_06740 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_13380 - Type: Gene Product:Putative 6-phospho-beta-glucosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07141 - Type: Gene Product:Fragment of sugar O-acetyltransferase (C-terminalregion) \| Pathway: \| COG: Function unknown CD630_13370 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_06050 - Type: Gene Product:Fragment of conserved hypothetical protein(N-terminal region) \| Pathway: \| COG: Function unknown	`NA`	`NA`	0.55	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_13370 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_85	23 CD630_03230 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_31540 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_08890 - speH Type: Gene Product:S-adenosylmethionine decarboxylase proenzyme \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_03220 - Type: Gene Product:Putative ATPase \| Pathway: \| COG: Function unknown CD630_03380 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03160 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_08680 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08710 - modC Type: Gene Product:ABC-type transport system, molybdenum-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_03190 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_03210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_08900 - speE Type: Gene Product:Spermidine synthase \| Pathway: Amine and polyamine biosynthesis \| COG: Amino acid transport and metabolism CD630_31550 - Type: Gene Product:Putative Fic/Doc-related protein \| Pathway: \| COG: Function unknown CD630_03350 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_08880 - speA Type: Gene Product:Arginine decarboxylase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03390 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_03170 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_08700 - modB Type: Gene Product:ABC-type transport system, molybdenum-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08690 - modA Type: Gene Product:ABC-type transport system, molybdenum-specificextracellular solute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08720 - maa Type: Gene Product:maltose O-acetyltransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_03180 - Type: Gene Product:ABC-type transport system,bacitracin/multidrug-family ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_03360 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_08910 - speB Type: Gene Product:Agmatinase (Agmatine ureohydrolase) (AUH) \| Pathway: \| COG: Amino acid transport and metabolism	0.18	0.03	0.55	Inferelator: 3 Hypergeometric: 0 TF Influences from Inferelator CD630_03200 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_30940 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_33600 - 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_102	26 CD630_26450 - Type: Gene Product:ABC-type transport system, sugar-familyextracellular solute-binding protein \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05560 - Type: Gene Product:Putative sugar isomerase / endonuclease \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_32950 - pilC Type: Gene Product:Type IV pilus secretion protein \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05520 - prsW Type: Gene Product:Site-1 protease \| Pathway: \| COG: Function unknown CD630_05540 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_32970 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32930 - pilMN Type: Gene Product:Type IV pilus assembly protein \| Pathway: \| COG: Function unknown CD630_32910 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33320 - Type: Gene Product:Transcriptional regulator, TetR family;Tn916-like, CTn6-Orf8 \| Pathway: \| COG: Transcription CD630_05570 - Type: Gene Product:Putative uridine kinase \| Pathway: \| COG: Nucleotide transport and metabolism CD630_32940 - pilA Type: Gene Product:Type IV pilus protein PilA \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05550 - sip2 Type: Gene Product:Signal peptidase type I \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_32960 - pilB Type: Gene Product:Type IV pilus transporter system, ATP-binding \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_05530 - Type: Gene Product:Putative RNA methyltransferase \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_32920 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33330 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf9 \| Pathway: \| COG: Transcription	`NA`	`NA`	0.55	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_23900 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_401	21 CD630_06880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_32470 - prdC Type: Gene Product:Putative electron transfer protein \| Pathway: \| COG: Energy production and conversion CD630_19340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30180 - Type: Gene Product:Putative redox-active protein \| Pathway: \| COG: Function unknown CD630_19330 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_30190 - Type: Gene Product:Putative transporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_26210 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_22070 - Type: Gene Product:Putative flavodoxin \| Pathway: \| COG: Function unknown CD630_15111 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06820 - Type: Gene Product:Putative sodium:solute symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_12890 - Type: Gene Product:Ribonuclease J family protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_00650 - Type: Gene Product:Putative NADP-dependent deshydrogenase \| Pathway: \| COG: Function unknown CD630_16671 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22090 - Type: Gene Product:Putative GTP-binding protein, HflX type \| Pathway: \| COG: Function unknown CD630_08040 - etfB Type: Gene Product:Electron transfer flavoprotein beta-subunit,core \| Pathway: \| COG: Energy production and conversion CD630_04030 - fba Type: Gene Product:Fructose-1,6-bisphosphate aldolase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_08020 - Type: Gene Product:Putative CoA-transferase, family III \| Pathway: \| COG: Energy production and conversion CD630_22080 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_27680 - Type: Gene Product:Putative cell-wall hydrolase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_06830 - Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription CD630_26620 - Type: Gene Product:Putative GTP-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis	0.00000000016	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_17820 - Type: Gene Product:Two-component response regulator \| Pathway: \| COG: Signal transduction mechanisms CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_353	24 CD630_21050 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_20410 - Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_21060 - Type: Gene Product:Putative ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_31990 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_21040 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Function unknown CD630_22240 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_27030 - Type: Gene Product:Putative pentapeptide repeat-containing protein \| Pathway: \| COG: Function unknown CD630_09200 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09220 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09150 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_08060 - Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription CD630_09110 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: CD630_09130 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_32010 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_19270 - Type: Gene Product:Fragment of ABC-type transport system,ATP-binding protein (Part 2) \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_32000 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_22230 - Type: Gene Product:Putative extrachromosomal origin protein \| Pathway: \| COG: Function unknown CD630_28181 - Type: Gene Product:Fragment of dihydrofolate reductase familyprotein \| Pathway: \| COG: CD630_05060 - Type: Gene Product:Reverse transcriptase/maturase/endonuclease,Group II intron \| Pathway: \| COG: Replication, recombination and repair CD630_09230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_25930 - Type: Gene Product:ABC-type transport system,pristinamycin/multidrug-family ATP-binding protein \| Pathway: \| COG: Function unknown CD630_09160 - Type: Gene Product:Putative phage protein involved in bacteriophageresistance \| Pathway: \| COG: Function unknown CD630_09210 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09140 - Type: Gene Product:Putative phage protein \| Pathway: \| COG:	0.00000000012	`NA`	0.55	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_14550 - sigA1 Type: Gene Product:RNA polymerase sigma factor SigA1 (sigma-43) \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_370	24 CD630_19780 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_24050 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_20040 - effR Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_01530 - hpdB Type: Gene Product:4-hydroxyphenylacetate decarboxylase, catalyticsubunit \| Pathway: \| COG: Energy production and conversion CD630_07810 - Type: Gene Product:Putative penicillin-binding protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_01550 - hpdA Type: Gene Product:4-hydroxyphenylacetate decarboxylase, activatingsubunit \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_25190 - Type: Gene Product:Integrase \| Pathway: \| COG: Replication, recombination and repair CD630_24080 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Function unknown 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_20030 - effD Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_03270 - cbiO Type: Gene Product:ABC-type transport system, cobalt-specificATP-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_24060 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_19790 - Type: Gene Product:ABC-type transport system, extracellularsolute-binding protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_10220 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_18270 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_25180 - cwp29 Type: Gene Product:Cell surface protein \| Pathway: \| COG: Function unknown CD630_01540 - hpdC Type: Gene Product:4-hydroxyphenylacetate decarboxylase, regulatorysubunit \| Pathway: \| COG: Function unknown CD630_19800 - Type: Gene Product:ABC-type transport system, permease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_19801 - Type: Gene Product:Conserved hypothetical protein, DUF77 family \| Pathway: \| COG: Function unknown CD630_31691 - secG Type: Gene Product:Protein-export membrane protein SecG \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_03240 - cbiM Type: Gene Product:Cobalamin biosynthesis protein \| Pathway: Cofactor biosynthesis \| COG: Inorganic ion transport and metabolism CD630_18280 - ftsH1 Type: Gene Product:Cell division protease FtsH1 \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_24070 - Type: Gene Product:Putative multidrug efflux pump \| Pathway: \| COG: Defense mechanisms CD630_03260 - cbiQ Type: Gene Product:ABC-type transport system, cobalt-specificpermease \| Pathway: \| COG: Inorganic ion transport and metabolism	0.00000009	1.9	0.55	Inferelator: 2 Hypergeometric: 1 TF Influences from Inferelator CD630_16920 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_22200 - Type: Gene Product:Putative cyclic nucleotides-binding protein \| Pathway: \| COG: Signal transduction mechanisms TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_182	24 CD630_29550 - ntpB Type: Gene Product:V-type sodium ATPase subunit B \| Pathway: \| COG: Energy production and conversion CD630_10350 - cwp16 Type: Gene Product:Putative N-acetylmuramoyl-L-alanine amidase,autolysin \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_29610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_07950 - Type: Gene Product:Conserved hypothetical protein, UPF0082 family \| Pathway: \| COG: Transcription CD630_28600 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_29570 - ntpC Type: Gene Product:V-type sodium ATPase subunit C \| Pathway: \| COG: Energy production and conversion CD630_28620 - Type: Gene Product:Putative peptidase, M19 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_15820 - hisD Type: Gene Product:Histidinol dehydrogenase (HDH) \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_07930 - Type: Gene Product:Putative membrane protein, DUF81 family \| Pathway: \| COG: Function unknown CD630_06630 - tcdA Type: Gene Product:Toxin A \| Pathway: \| 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_29590 - ntpK Type: Gene Product:V-type sodium ATPase subunit K \| Pathway: \| COG: Energy production and conversion CD630_29600 - ntpI Type: Gene Product:V-type sodium ATPase subunit I \| Pathway: \| COG: Energy production and conversion CD630_27620 - uppS Type: Gene Product:Putative undecaprenyl pyrophosphate synthetase \| Pathway: \| COG: Lipid transport and metabolism CD630_29540 - ntpD Type: Gene Product:V-type sodium ATPase subunit D \| Pathway: \| COG: Energy production and conversion CD630_10450 - Type: Gene Product:Putative sporulation integral membrane protein \| Pathway: \| COG: Function unknown CD630_29560 - ntpA Type: Gene Product:V-type sodium ATPase subunit A \| Pathway: \| COG: Energy production and conversion CD630_29561 - ntpF Type: Gene Product:V-type sodium ATPase subunit F \| Pathway: \| COG: Energy production and conversion CD630_07920 - Type: Gene Product:Putative membrane protein, DUF81 family \| Pathway: \| COG: Function unknown CD630_28610 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_28590 - Type: Gene Product:Putative D-aminoacylase \| Pathway: \| COG: Secondary metabolites biosynthesis, transport and catabolism CD630_29580 - ntpE Type: Gene Product:V-type sodium ATPase subunit E \| Pathway: \| COG: Energy production and conversion CD630_10610 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27630 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG:	0.000000000023	0.06	0.56	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| Pathway: \| COG: Transcription CD630_20480 - Type: Gene Product:Transcriptional regulator, RpiR family \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_92	27 CD630_05820 - Type: Gene Product:Putative pyruvate phosphate dikinase,PEP/pyruvate-binding \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_20040 - effR Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_28210 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_04550 - Type: Gene Product:Putative helicase, UvrD family \| Pathway: \| COG: Replication, recombination and repair CD630_08220 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein \| Pathway: \| COG: Defense mechanisms CD630_17460 - gltC Type: Gene Product:Sodium/glutamate symporter \| Pathway: \| COG: Amino acid transport and metabolism CD630_10870 - zupT Type: Gene Product:Putative zinc/iron transporter, ZupT subfamiliy \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08240 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_30120 - Type: Gene Product:Putative alpha-mannosidase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30160 - Type: Gene Product:Transcription antiterminator, PTS operonregulator \| Pathway: \| COG: Transcription CD630_30140 - Type: Gene Product:PTS system, mannose-specfic IIB component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_34580 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_20030 - effD Type: Gene Product:Putative drug/sodium antiporter, MATE family \| Pathway: \| COG: Defense mechanisms CD630_05810 - Type: Gene Product:Transcriptional regulator, TetR family \| Pathway: \| COG: Transcription CD630_31430 - Type: Gene Product:Putative ThiJ/pfpI family protein \| Pathway: \| COG: Function unknown CD630_03540 - Type: Gene Product:Fragment of putative membrane protein (Part 1) \| Pathway: \| COG: CD630_28200 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_08230 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_28220 - Type: Gene Product:Putative glutamate carboxypeptidase, M20 family \| Pathway: \| COG: Amino acid transport and metabolism CD630_04540 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription CD630_17451 - feoA Type: Gene Product:Ferrous iron transport protein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_30130 - Type: Gene Product:PTS system, mannose-specfic IIC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_30150 - Type: Gene Product:PTS system, mannose-specfic IIA component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_05920 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_10880 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_31440 - Type: Gene Product:Transcriptional regulator, DeoR family \| Pathway: \| COG: Transcription CD630_05910 - Type: Gene Product:Putative ATPase, P-type, heavy metaltranslocating \| Pathway: \| COG: Inorganic ion transport and metabolism	0	`NA`	0.56	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_125	26 CD630_31461 - Type: Gene Product:Fragment of putative transposase, IS4 family(C-terminal region) \| Pathway: \| COG: Replication, recombination and repair CD630_31563 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_27810 - mviN Type: Gene Product:Cell well glycopolymers exporter, flipase-type \| Pathway: Cell wall biogenesis \| COG: Signal transduction mechanisms CD630_27830 - Type: Gene Product:Putative glycosyl transferase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_15700 - Type: Gene Product:Putative lysophospholipase (Disrupted by IStron) \| Pathway: \| COG: Lipid transport and metabolism, Lipid transport and metabolism CD630_05071 - Type: Gene Product:Fragment of Tet(M) leader peptide Tn5397,CTn3-orf12 (C-terminal region) \| Pathway: \| COG: CD630_12980 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19990 - fldX Type: Gene Product:Flavodoxin \| Pathway: \| COG: Energy production and conversion CD630_31531 - Type: Gene Product:Fragment of putative phage protein (N-terminalregion) \| Pathway: \| COG: Function unknown CD630_22600 - Type: Gene Product:Transporter, Major Facilitator Superfamily (MFS) \| Pathway: \| COG: Amino acid transport and metabolism CD630_27700 - Type: Gene Product:Putative glycosyl transferase, group 1 \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_19020 - Type: Gene Product:Fragment of putative conjugative transposonprotein (Central region) \| Pathway: \| COG: Replication, recombination and repair CD630_32170 - Type: Gene Product:ABC-type transport system, ATP-binding protein \| Pathway: \| COG: Replication, recombination and repair CD630_20052 - Type: Gene Product:Fragment of conserved hypothetical protein(Central region) \| Pathway: \| COG: Function unknown CD630_11660 - hom1 Type: Gene Product:Homoserine dehydrogenase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_34532 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_17511 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_22980 - srl Type: Gene Product:Actin aggregate factor \| Pathway: \| COG: CD630_18782 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn5-Orf39 \| Pathway: \| COG: Function unknown CD630_06511 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_33781 - Type: Gene Product:Fragment of putative transcriptional regulatorTn916-like, CTn7-Orf14 (Central region) \| Pathway: \| COG: Transcription CD630_31381 - Type: Gene Product:Fragment of putative phage transcriptionalregulator (C-terminal region) \| Pathway: \| COG: CD630_01981 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_15350 - sseA Type: Gene Product:3-mercaptopyruvate sulfurtransferase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_12970 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_t0870 - tRNA-Lys Type: Gene Product: \| Pathway: \| COG:	0.00000027	`NA`	0.56	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`