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 201 - 210 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_332	21 CD630_06660 - cdd3 Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_31910 - Type: Gene Product:Putative oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_01230 - murA Type: Gene Product:UDP-N-acetylglucosamine1-carboxyvinyltransferase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_01420 - Type: Gene Product:Putative RNA-binding protein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_06650 - cdd2 Type: Gene Product:ABC-type transport system,lantibiotic/multidrug-family permease \| Pathway: \| COG: Function unknown CD630_06690 - Type: Gene Product:Two-component sensor histidine kinase \| Pathway: \| COG: Signal transduction mechanisms CD630_01220 - Type: Gene Product:Putative exported protein \| Pathway: \| COG: Function unknown CD630_00220 - fusA1 Type: Gene Product:Elongation factor G (EF-G) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_31890 - Type: Gene Product:Putative NADPH-dependent FMN reductase \| Pathway: \| COG: Function unknown CD630_24440 - Type: Gene Product:Putative ribosome-associated sigma 54 modulationprotein \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_01430 - secA1 Type: Gene Product:Protein translocase subunit SecA1 \| Pathway: \| COG: Intracellular trafficking, secretion, and vesicular transport CD630_24370 - era Type: Gene Product:GTP-binding protein Era \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_31900 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_21100 - Type: Gene Product:Putative transaldolaseC-like \| Pathway: Carbohydrate degradation \| COG: Carbohydrate transport and metabolism CD630_01440 - prfB Type: Gene Product:Peptide chain release factor 2 (RF-2) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_22150 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_21580 - gabT Type: Gene Product:4-aminobutyrate aminotransferase \| Pathway: \| COG: Amino acid transport and metabolism CD630_24380 - cdd Type: Gene Product:Cytidine deaminase (Cytidine aminohydrolase)(CDA) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_24350 - recO Type: Gene Product:DNA repair protein RecO (Recombination proteinO) \| Pathway: \| COG: Replication, recombination and repair CD630_24340 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.000000000052	5.8	0.55	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_46	23 CD630_04730 - Type: Gene Product:Transcriptional regulator, MarR family \| Pathway: \| COG: Transcription CD630_03470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_03430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_03450 - Type: Gene Product:Putative GTP pyrophosphokinase \| Pathway: \| COG: Function unknown CD630_11420 - rnfB Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_17290 - Type: Gene Product:Putative sodium:phosphate symporter \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_11400 - rnfE Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_10170 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_14700 - Type: Gene Product:Putative rhodanese-like domain-containingprotein \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_21830 - csdA Type: Gene Product:ATP-dependent RNA helicase \| Pathway: \| COG: Replication, recombination and repair CD630_04740 - Type: Gene Product:Putative iron-sulfur protein \| Pathway: \| COG: Energy production and conversion CD630_10180 - Type: Gene Product:ABC-type transport system, multidrug-familyATP-binding protein/permease \| Pathway: \| COG: Defense mechanisms CD630_11390 - rnfG Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_03460 - Type: Gene Product:Putative phosphoesterase \| Pathway: \| COG: Function unknown CD630_04720 - Type: Gene Product:Putative reductase \| Pathway: \| COG: Function unknown CD630_04700 - blaR Type: Gene Product:Beta-lactamase-inducing penicillin-bindingprotein \| Pathway: \| COG: Transcription, Signal transduction mechanisms CD630_14690 - cwp20 Type: Gene Product:Putative cell surface protein ; putativepenicillin-binding protein \| Pathway: \| COG: Defense mechanisms CD630_03440 - Type: Gene Product:Putative beta-lactamase-like protein \| Pathway: \| COG: Function unknown CD630_10160 - Type: Gene Product:Transcriptional regulator, MerR family \| Pathway: \| COG: Transcription CD630_11410 - rnfA Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion CD630_15830 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_04710 - blaI Type: Gene Product:Transcriptional regulator, Penicillinaserepressor \| Pathway: \| COG: Transcription CD630_11380 - rnfD Type: Gene Product:Electron transport complex protein \| Pathway: \| COG: Energy production and conversion	0.000000000057	0.0000054	0.58	Inferelator: 4 Hypergeometric: 1 TF Influences from Inferelator CD630_11770 - fapR Type: Gene Product:Transcriptional regulator, DeoR family (Fattyacid and phospholipid biosynthesis regulator) \| 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_26650 - Type: Gene Product:Transcriptional regulator, AraC family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_32450 - prdR Type: Gene Product:Transcriptional regulator, sigma-54-dependent \| Pathway: \| COG: Transcription
Module_206	23 CD630_02130 - Type: Gene Product:Putative spore coat protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_11990 - spoIIIAH Type: Gene Product:Stage III sporulation protein AH \| Pathway: \| COG: Function unknown CD630_32570 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_19280 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_11670 - recV Type: Gene Product:Tyrosine DNA recombinase, XerC/XerD family \| Pathway: \| COG: Replication, recombination and repair CD630_26290 - spoIVA Type: Gene Product:Stage IV sporulation protein A \| Pathway: \| COG: Function unknown CD630_11950 - spoIIIAD Type: Gene Product:Stage III sporulation protein AD \| Pathway: \| COG: Function unknown CD630_11970 - spoiIIIAF Type: Gene Product:Stage III sporulation protein AF \| Pathway: \| COG: Function unknown CD630_24420 - spoIV Type: Gene Product:Stage IV sporulation protein \| Pathway: \| COG: Function unknown CD630_11930 - spoIIIAB Type: Gene Product:Stage III sporulation protein AB \| Pathway: \| COG: Function unknown CD630_02140 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_24430 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_19290 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_32980 - Type: Gene Product:Putative ATP/GTP-binding protein \| Pathway: \| COG: Function unknown CD630_01290 - Type: Gene Product:Conserved hypothetical protein, DUF1256 family \| Pathway: \| COG: Function unknown CD630_11980 - spoIIIAG Type: Gene Product:Stage III sporulation protein AG \| Pathway: \| COG: Function unknown CD630_11940 - spoIIIAC Type: Gene Product:Stage III sporulation protein AC \| Pathway: \| COG: Function unknown CD630_32590 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_32580 - Type: Gene Product:Iron hydrogenase \| Pathway: \| COG: Energy production and conversion CD630_11920 - spoIIIAA Type: Gene Product:Stage III sporulation protein AA \| Pathway: \| COG: Function unknown CD630_32490 - sspB Type: Gene Product:Small, acid-soluble spore protein beta \| Pathway: \| COG: Function unknown CD630_01310 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_19300 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis	0.000000000084	`NA`	0.35	Inferelator: 1 Hypergeometric: 2 TF Influences from Inferelator 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
Module_335	13 CD630_33430 - Type: Gene Product:Putative replication initiation factorTn916-like, CTn6-Orf21 \| Pathway: \| COG: Replication, recombination and repair CD630_33480 - Type: Gene Product:Hypothetical protein \| Pathway: \| COG: Function unknown CD630_33421 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf20 \| Pathway: \| COG: Function unknown CD630_33460 - Type: Gene Product:Putative conjugative transposon protein DUF961family Tn916-like, CTn6-Orf24 \| Pathway: \| COG: Function unknown CD630_18260 - metA Type: Gene Product:Homoserine O-succinyltransferase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_33440 - Type: Gene Product:Putative cell-division FtsK/SpoIIIE-familyprotein Tn916-like, CTn6-Orf22 \| Pathway: \| COG: Cell cycle control, cell division, chromosome partitioning CD630_10910 - int Type: Gene Product:Integrase Tn1549-like, CTn4-Orf34 \| Pathway: \| COG: Replication, recombination and repair CD630_33450 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf23 \| Pathway: \| COG: Function unknown CD630_33470 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: CD630_10940 - Type: Gene Product:Putative RNA polymerase sigma factor Tn1549-like,CTn4-Orf31 \| Pathway: \| COG: Function unknown CD630_10920 - xis Type: Gene Product:Excisionase Tn1549-like, CTn4-Orf33 \| Pathway: \| COG: Function unknown CD630_10921 - Type: Gene Product:Putative conjugative transposon proteinTn1549-like, CTn4-Orf32 \| Pathway: \| COG: Function unknown CD630_18250 - metY Type: Gene Product:O-acetylhomoserine sulfhydrylase \| Pathway: \| COG: Amino acid transport and metabolism	0.000000000091	0.00023	0.60	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_13790 - Type: Gene Product:Transcriptional regulator, Phage-type \| Pathway: \| COG: Transcription CD630_22850 - Type: Gene Product:Transcriptional regulator, GntR family \| 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_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_267	24 CD630_10790 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription CD630_21230 - Type: Gene Product:Putative multiprotein-complex assembly TPRrepeat-containing protein \| Pathway: \| COG: Function unknown CD630_01530 - hpdB Type: Gene Product:4-hydroxyphenylacetate decarboxylase, catalyticsubunit \| Pathway: \| COG: Energy production and conversion CD630_11200 - pflD Type: Gene Product:Formate acetyltransferase (Pyruvateformate-lyase) \| Pathway: \| COG: Energy production and conversion CD630_11220 - Type: Gene Product:Transcriptional regulator, RmlC-type \| Pathway: \| COG: Transcription CD630_01550 - hpdA Type: Gene Product:4-hydroxyphenylacetate decarboxylase, activatingsubunit \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_09570 - Type: Gene Product:Putative phage lipoprotein \| Pathway: \| COG: Function unknown CD630_07710 - spoIIAB Type: Gene Product:Anti-sigma F factor (Stage II sporulation proteinAB) \| Pathway: \| COG: Signal transduction mechanisms CD630_08530 - oppB Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_08550 - oppA Type: Gene Product:ABC-type transport system, oligopeptide-familyextracellular solute-binding protein \| Pathway: \| COG: Amino acid transport and metabolism CD630_28140 - Type: Gene Product:Transcriptional regulator, GntR family \| Pathway: \| COG: Transcription CD630_09610 - Type: Gene Product:Putative phage cell wall hydrolase \| Pathway: \| COG: Function unknown CD630_09650 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_21240 - Type: Gene Product:Putative malate transporter \| Pathway: \| COG: Function unknown CD630_11210 - pflC Type: Gene Product:Pyruvate formate-lyase 2-activating enzyme \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_07720 - sigF Type: Gene Product:RNA polymerase sigma-F factor \| Pathway: \| COG: Transcription CD630_10800 - Type: Gene Product:Putative lipoprotein \| Pathway: \| COG: CD630_08560 - oppD Type: Gene Product:ABC-type transport system, ATP-binding component \| Pathway: \| COG: Amino acid transport and metabolism, Inorganic ion transport and metabolism CD630_07700 - spoIIAA Type: Gene Product:Anti-sigma F factor antagonist \| Pathway: \| COG: Signal transduction mechanisms CD630_09620 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_08540 - oppC Type: Gene Product:ABC-type transport system, oligopeptide-familypermease \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_09580 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_28150 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_06080 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.00000000028	0.000099	0.52	Inferelator: 3 Hypergeometric: 2 TF Influences from Inferelator CD630_07720 - sigF Type: Gene Product:RNA polymerase sigma-F factor \| Pathway: \| COG: Transcription CD630_26420 - sigG Type: Gene Product:RNA polymerase sigma-G factor \| Pathway: \| COG: Transcription CD630_26750 - Type: Gene Product:Transcriptional regulator, LysR family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test CD630_12750 - codY Type: Gene Product:Transcriptional regulator, GTP-sensingpleiotropic repressor \| Pathway: \| COG: Transcription CD630_10640 - ccpA Type: Gene Product:Transcriptional regulator, LacI family \| Pathway: \| COG: Transcription
Module_203	26 CD630_33980 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_12880 - Type: Gene Product:Putative membrane protein \| Pathway: \| COG: Function unknown CD630_01721 - fdxA Type: Gene Product:Ferredoxin (4Fe-4S cluster-containing protein)(fdx-like) \| Pathway: \| COG: Energy production and conversion CD630_03120 - Type: Gene Product:Transcriptional regulator, ArsR family \| Pathway: \| COG: Transcription CD630_14290 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_34560 - Type: Gene Product:5-formyltetrahydrofolate cyclo-ligase \| Pathway: \| COG: Coenzyme transport and metabolism CD630_15660 - ilvB Type: Gene Product:Acetolactate synthase large subunit \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_34010 - Type: Gene Product:putative phosphoesterase \| Pathway: \| COG: Replication, recombination and repair CD630_33960 - dnaE Type: Gene Product:DNA polymerase III DnaE subunit alpha \| Pathway: \| COG: Replication, recombination and repair CD630_08280 - Type: Gene Product:Putative oxidative stress glutamate synthase \| Pathway: \| COG: Amino acid transport and metabolism CD630_r0140 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_r0200 - 23s_rRNA Type: Gene Product: \| Pathway: \| COG: CD630_33990 - Type: Gene Product:Conserved hypothetical protein, UPF0052 family \| Pathway: \| COG: Function unknown CD630_36180 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_14281 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_12890 - Type: Gene Product:Ribonuclease J family protein \| Pathway: \| COG: Posttranslational modification, protein turnover, chaperones CD630_03130 - Type: Gene Product:Putative K/Mg/Cd/Cu/Zn/Na/Ca/Na/H-transportingP-type ATPase \| Pathway: \| COG: Inorganic ion transport and metabolism CD630_28400 - serS1 Type: Gene Product:Seryl-tRNA synthetase 1 (Seryl-tRNA(Ser/Sec)synthetase 1) (Serine--tRNA ligase 1) (SerRS 1) \| Pathway: Aminoacyl-tRNA biosynthesis \| COG: Translation, ribosomal structure and biogenesis CD630_17470 - add Type: Gene Product:Adenosine deaminase (Adenosine aminohydrolase) \| Pathway: \| COG: Nucleotide transport and metabolism CD630_34000 - Type: Gene Product:Conserved hypothetical protein, UPF0042 family \| Pathway: \| COG: Function unknown CD630_34550 - Type: Gene Product:Putative carboxy-terminal protease \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_15650 - ilvC Type: Gene Product:Ketol-acid reductoisomerase \| Pathway: Amino-acid biosynthesis \| COG: Amino acid transport and metabolism CD630_24550 - Type: Gene Product:Putative CRISPR-associated protein \| Pathway: \| COG: Replication, recombination and repair CD630_33970 - whiA Type: Gene Product:Putative sporulation transcription regulatorwhiA \| Pathway: \| COG: Transcription CD630_34020 - murB Type: Gene Product:UDP-N-acetylenolpyruvoylglucosamine reductase \| Pathway: Cell wall biogenesis \| COG: Cell wall/membrane/envelope biogenesis CD630_17480 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown	0.00000000033	0.000097	0.58	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator 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_183	17 CD630_30470 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30460 - murQ Type: Gene Product:N-acetylmuramic acid 6-phosphate etherase \| Pathway: Amino-sugar metabolism \| COG: Carbohydrate transport and metabolism CD630_07870 - Type: Gene Product:Putative metal-binding protein \| Pathway: \| COG: Function unknown CD630_07890 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30480 - Type: Gene Product:PTS system, lactose/cellobiose-family IICmembrane component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_07900 - Type: Gene Product:Putative hydrolase, NUDIX family \| Pathway: \| COG: Replication, recombination and repair CD630_07880 - Type: Gene Product:Putative GTP-binding protein, HflX type \| Pathway: \| COG: Function unknown CD630_13020 - Type: Gene Product:Putative MazG-like pyrophosphohydrolase \| Pathway: \| COG: Function unknown CD630_30490 - Type: Gene Product:PTS system, lactose/cellobiose-family IIBsubunit \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_13030 - npdA Type: Gene Product:NAD-dependent deacetylase, Sir2 family \| Pathway: \| COG: Transcription CD630_14380 - Type: Gene Product:Putative TPR repeat-containing protein \| Pathway: \| COG: Function unknown CD630_23050 - pilW Type: Gene Product:Type IV pilus protein \| Pathway: \| COG: Function unknown CD630_16230 - Type: Gene Product:NADH-oxygen oxidoreductase \| Pathway: \| COG: Energy production and conversion CD630_22150 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_15220 - Type: Gene Product:Putative polysaccharide deacetylase \| Pathway: \| COG: Cell wall/membrane/envelope biogenesis CD630_22140 - SinR Type: Gene Product:Transcriptional regulator, HTH-type \| Pathway: \| COG: Transcription CD630_13040 - acd Type: Gene Product:Mannosyl-glycoproteinendo-beta-N-acetylglucosamidase \| Pathway: \| COG: Carbohydrate transport and metabolism	0.0000000004	0.0000012	0.37	Inferelator: 2 Hypergeometric: 0 TF Influences from Inferelator CD630_19310 - lexA Type: Gene Product:Transcriptional regulator, LexA repressor \| Pathway: \| COG: Transcription CD630_35440 - Type: Gene Product:Transcriptional regulator, AsnC/Lrp family \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`
Module_406	21 CD630_33310 - Type: Gene Product:Putative conjugative transposon proteinTn916-like, CTn6-Orf7 \| Pathway: \| COG: Function unknown CD630_14860 - Type: Gene Product:Putative ribosome recycling factor \| Pathway: \| COG: CD630_09420 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_33930 - rumA Type: Gene Product:23S rRNA (uracil-5-)-methyltransferase RumA (23SrRNA(M-5-U1939)-methyltransferase) \| Pathway: \| COG: Translation, ribosomal structure and biogenesis CD630_09410 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_29190 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_31990 - Type: Gene Product:ABC-type transport system, multidrug-familypermease \| Pathway: \| COG: Function unknown CD630_34540 - Type: Gene Product:Putative nucleotide-binding protein \| Pathway: \| COG: Function unknown CD630_14850 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: Function unknown CD630_30800 - Type: Gene Product:PTS system, lactose/cellobiose-family IIAcomponent \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_14281 - Type: Gene Product:Conserved hypothetical protein \| Pathway: \| COG: CD630_14280 - Type: Gene Product:Transcriptional regulator, hxlR family \| Pathway: \| COG: Transcription CD630_29230 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: Function unknown CD630_23040 - Type: Gene Product:Transcriptional regulator, beta-lactams repressorPhage-type \| Pathway: \| COG: Transcription CD630_14290 - Type: Gene Product:Putative acyl-CoA N-acyltransferase \| Pathway: \| COG: Function unknown CD630_31020 - Type: Gene Product:Putative peptidase, M20 family, peptidase Vrelated \| Pathway: \| COG: Amino acid transport and metabolism CD630_29210 - Type: Gene Product:Putative phage portal protein \| Pathway: \| COG: Function unknown CD630_25170 - Type: Gene Product:Transcriptional regulator, beta-lactamsrepressor \| Pathway: \| COG: Transcription CD630_31010 - Type: Gene Product:PTS system, glucose-like IIBC component \| Pathway: \| COG: Carbohydrate transport and metabolism CD630_09461 - Type: Gene Product:Putative phage protein \| Pathway: \| COG: CD630_09460 - Type: Gene Product:Putative phage minor head protein \| Pathway: \| COG: Signal transduction mechanisms	0.00000000042	0.000000035	0.60	Inferelator: 1 Hypergeometric: 0 TF Influences from Inferelator CD630_34990 - spoVT Type: Gene Product:Stage V sporulation protein T \| Pathway: \| COG: Transcription TF Influences from Hypergeometric Test `No TF Influences from the hypergeometric test`