Organism : Clostridium acetobutylicum | Module List :
DTDP-D-glucose 4,6-dehydratase (NCBI ptt file)
Functional Annotations (5)
|dTDP-D-glucose 4,6-dehydratase||cog/ cog|
|dTDP-glucose 4,6-dehydratase activity||go/ molecular_function|
|nucleotide-sugar metabolic process||go/ biological_process|
|coenzyme binding||go/ molecular_function|
Regulation information for CAC2332(Mouseover regulator name to see its description)
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
|Motif Id||e-value||Consensus||Motif Logo|
Functional Enrichment for CAC2332
Module neighborhood information for CAC2332
|Gene||Common Name||Description||Module membership|
|CAC0033||CAC0033||ABC1 family protein kinase (NCBI ptt file)||87, 239|
|CAC0113||CAC0113||Transcriptional regulator of sugar metabolism (NCBI ptt file)||20, 346|
|CAC0114||CAC0114||Predicted membrane protein (NCBI ptt file)||20, 286|
|CAC0116||CAC0116||Carbone-monoxide dehydrogenase, beta chain (NCBI ptt file)||20, 182|
|CAC0327||CAC0327||Bacterioferritin comigratory protein (AHPC/TSA family) (NCBI ptt file)||239, 325|
|CAC0433||CAC0433||Methyl-accepting chemotaxis protein (NCBI ptt file)||20, 225|
|CAC0482||CAC0482||Zn-dependent hydrolases of the metallo-beta-lactamase superfamily (NCBI ptt file)||225, 239|
|CAC0636||CAC0636||Signal transduction protein containing diguanilate cyclase/phosphodiesterase domain (GGDEF) (NCBI ptt file)||87, 239|
|CAC0650||CAC0650||Adenilate cyclase, class2 (thermophilic) (NCBI ptt file)||20, 348|
|CAC0701||CAC0701||Uncharacterised protein, DegV family (NCBI ptt file)||20, 58|
|CAC0708||CAC0708||Putative transcriptional regulator (NCBI ptt file)||20, 359|
|CAC0709||gapC||Glyceraldehyde 3-phosphate dehydrogenase, gene gapC (NCBI ptt file)||10, 20|
|CAC0712||pgm||2,3-bisphosphoglycerate-independent phosphoglycerate mutase gene (NCBI ptt file)||20, 292|
|CAC0990||gltX||Glutamyl-tRNA synthetase (NCBI ptt file)||20, 306|
|CAC1449||CAC1449||Hypothetical protein (NCBI ptt file)||239, 356|
|CAC1577||CAC1577||Ncharacterized conserved protein (NCBI ptt file)||71, 239|
|CAC1681||CAC1681||Hypothetical protein (NCBI ptt file)||239, 289|
|CAC1683||CAC1683||Predicted metal-dependent hydrolase of metallo-beta-lactamase superfamily (NCBI ptt file)||239, 276|
|CAC1693||ftsZ||Cell division GTPase FtsZ (NCBI ptt file)||20, 233|
|CAC1795||CAC1795||1-deoxy-D-xylulose 5-phosphate reductoisomerase (NCBI ptt file)||87, 239|
|CAC2095||CAC2095||Aminopeptidase P AMPP/PEPQ family enzyme, YQHT B.subtilis ortholog (NCBI ptt file)||20, 286|
|CAC2116||CAC2116||General stress protein, DnaK suppressor DskA, YTEA B.subtilis ortholog (NCBI ptt file)||239, 283|
|CAC2117||pfs||Nucleoside phosphorylase (NCBI ptt file)||239, 286|
|CAC2131||CAC2131||Hypothetical protein (NCBI ptt file)||239, 289|
|CAC2132||CAC2132||Predicted S-adenosylmethionine-dependent methyltransferase, involved in cell envelope biogenesis YLXA B.subtilis ortholog (NCBI ptt file)||201, 239|
|CAC2227||CAC2227||Phosphoserine phosphatase family enzyme (NCBI ptt file)||20, 286|
|CAC2264||glyA||Glycine hydroxymethyltransferase (NCBI ptt file)||20, 286|
|CAC2301||mrcB||Membrane carboxypeptidase mrcB (NCBI ptt file)||239, 345|
|CAC2332||spsJ||DTDP-D-glucose 4,6-dehydratase (NCBI ptt file)||20, 239|
|CAC2633||CAC2633||Uncharaterized conserved protein, YOME B.subtilis ortholog (NCBI ptt file)||20, 58|
|CAC2771||CAC2771||Amino acid transporter (NCBI ptt file)||20, 286|
|CAC2779||CAC2779||Hypothetical protein (NCBI ptt file)||20, 259|
|CAC2780||CAC2780||Spore coat protein, cotF related (NCBI ptt file)||20, 259|
|CAC2889||rho||Transcription termination factor rho (NCBI ptt file)||20, 239|
|CAC3097||rpsI||Ribosomal protein S9 (NCBI ptt file)||20, 237|
|CAC3103||rplQ||Ribosomal protein L17 (NCBI ptt file)||20, 59|
|CAC3231||CAC3231||Predicted phosphatase, HAD superfamily (NCBI ptt file)||239, 295|
|CAC3418||CAC3418||Transcriptional regulator, MarR/EmrR family (NCBI ptt file)||239, 289|
|CAC3569||accD||Acetyl-CoA carboxylase beta subunit (NCBI ptt file)||182, 239|
|CAC3578||fabH||3-oxoacyl-[acyl-carrier-protein] synthase III (NCBI ptt file)||20, 356|
|CAC3579||CAC3579||Transcriptional regulator, MarR/EmrR family (NCBI ptt file)||20, 356|
|CAC3632||oppA||Oligopeptide ABC transporter, periplasmic substrate-binding component (NCBI ptt file)||87, 239|
|CAC3657||CAC3657||NADP-dependent glyceraldehyde-3-phosphate dehydrogenase (NCBI ptt file)||239, 283|
Gene Page Help
If the gene is associated with a module(s), its connection to given modules along with other members of that module are shown as network by using CytoscapeWeb. In this view, each green colored circular nodes represent module member genes, purple colored diamonds represent module motifs and red triangles represent regulators. Each node is connected to module (Bicluster) via edges. This representation provides quick overview of all genes, regulators and motifs for modules. It also allows one to see shared genes/motifs/regulators among diferent modules.
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Identity of gene members in a module may help to identify potential interactions between different functional modules. Therefore, neighbor genes that share the same module(s) with gene under consideration are shown here. For each memebr, gene name, description and modules that contain it are listed.
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CircVisOur circular module explorer is adapted from visquick originally developed by Dick Kreisberg of Ilya Shmulevich lab at ISB for The Cancer Genome Atlas. We use simplified version of visquick to display distribution of module members and their interactions across the genome. This view provides summary of regulation information for a gene. The main components are;
- 1. All genomic elements for the organism are represented as a circle and each element is separated by black tick marks. In this example chromosome and pDV represent main chromosome and plasmid for D. vulgaris Hildenborough, respectively.
- 2. Source gene
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