Organism : Rhodobacter sphaeroides 2.4.1 | Module List :
Regulation information for RSP_1076(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 RSP_1076
Module neighborhood information for RSP_1076
|Gene||Common Name||Description||Module membership|
|RSP_0011||RSP_0011||Predicted hydrolases or acyltransferases (alpha/beta hydrolase) (NCBI)||91, 366|
|RSP_0351||RSP_0351||D-threo-aldose 1-dehydrogenase (NCBI)||158, 216|
|RSP_0408||RSP_0408||hypothetical protein (NCBI)||134, 216|
|RSP_0424||RSP_0424||hypothetical protein (NCBI)||216, 285|
|RSP_0554||htpx||heat shock protein--probable protease (NCBI)||132, 366|
|RSP_0559||msrA||Peptide methionine sulfoxide reductase (NCBI)||134, 216|
|RSP_0569||RSP_0569||hypothetical protein (NCBI)||237, 366|
|RSP_0570||RSP_0570||hypothetical protein (NCBI)||237, 366|
|RSP_0608||RSP_0608||hypothetical protein (NCBI)||146, 216|
|RSP_0716||RSP_0716||NADPH/quinone reductase and related Zn-dependent oxidoreductases (NCBI)||132, 216|
|RSP_1058||RSP_1058||hypothetical transmemebrane protein (NCBI)||134, 216|
|RSP_1076||sohB||Peptidase family S49 (NCBI)||216, 366|
|RSP_1077||RSP_1077||transcriptional regulator, LysR family (NCBI)||216, 249|
|RSP_1078||fdsG||NAD-dependent formate dehydrogenase, gamma subunit (24 kDa) (NCBI)||216, 239|
|RSP_1079||fdsB||NAD dependent formate dehydrogenase, beta subunit (51 kDa) (NCBI)||216, 239|
|RSP_1080||fdsA||NAD-dependent formate dehydrogenase, alpha subunit (NCBI)||216, 239|
|RSP_1081||fdsC||formate dehydrogenase chain C (NCBI)||216, 239|
|RSP_1082||fdsD||NAD-dependent formate dehydrogenase, delta subunit (NCBI)||216, 239|
|RSP_1194||grxC||Glutaredoxin (NCBI)||3, 366|
|RSP_1204||RSP_1204||ABC multidrug efflux pump, fused ATPase and inner membrane subunits (NCBI)||216, 237|
|RSP_1207||hslO||putative Hsp33 protein (NCBI)||132, 366|
|RSP_1220||hrcA||heat-inducible transcription repressor HrcA (NCBI)||10, 216|
|RSP_1237||secB||Preprotein translocase subunit SecB (NCBI)||202, 366|
|RSP_1238||fxsA||putative FxsA cytoplasmic membrane protein (NCBI)||202, 366|
|RSP_1239||RSP_1239||hypothetical protein (NCBI)||202, 366|
|RSP_1240||RSP_1240||putative membrane-bound lytic murein transglycosylase A transmembrane protein (NCBI)||202, 366|
|RSP_1241||RSP_1241||putative Smr protein/MutS2 (NCBI)||47, 366|
|RSP_1408||clpB||Chaperone ClpB (NCBI)||132, 216|
|RSP_1421||RSP_1421||hypothetical protein (NCBI)||286, 366|
|RSP_1532||RSP_1532||Heat shock protein HslVU, ATPase subunit (NCBI)||132, 366|
|RSP_1549||RSP_1549||hypothetical protein (NCBI)||3, 366|
|RSP_1563||RSP_1563||putative oxidoreductase (NCBI)||132, 366|
|RSP_1564||RSP_1564||Putative transmembrane transport protein (NCBI)||149, 366|
|RSP_1576||trxB||Thioredoxin reductase (NCBI)||149, 366|
|RSP_1671||RSP_1671||hypothetical protein (NCBI)||184, 366|
|RSP_1743||RSP_1743||ATPase, AAA family (NCBI)||216, 237|
|RSP_1840||RSP_1840||hypothetical protein (NCBI)||3, 366|
|RSP_1873||RSP_1873||hypothetical protein (NCBI)||35, 216|
|RSP_1889||RSP_1889||conserved hypothetical membrane protein (NCBI)||112, 366|
|RSP_2121||RSP_2121||hypothetical protein (NCBI)||216, 366|
|RSP_2125||RSP_2125||hypothetical protein (NCBI)||202, 366|
|RSP_2130||RSP_2130||two component, sigma54 specific transcriptional regulator, fis family (NCBI)||132, 366|
|RSP_2172||metF||5,10-methylenetetrahydrofolate reductase (NCBI)||365, 366|
|RSP_2196||RSP_2196||enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase / 3-hydroxybutyryl-CoA epimerase (NCBI)||174, 216|
|RSP_2197||RSP_2197||Acetoacetyl-CoA thiolase (NCBI)||174, 216|
|RSP_2264||telA||Tellurite resistance protein (NCBI)||46, 366|
|RSP_2265||RSP_2265||hypothetical protein (NCBI)||3, 366|
|RSP_2375||RSP_2375||hypothetical protein (NCBI)||215, 366|
|RSP_2636||ilvH||Acetolactate synthase, small (regulatory) subunit (NCBI)||3, 366|
|RSP_2637||RSP_2637||Acetolactate synthase, large subunit, biosynthetic type (NCBI)||3, 366|
|RSP_2638||RSP_2638||putative sodium/calcium exchanger (NCBI)||134, 216|
|RSP_2640||RSP_2640||hypothetical protein (NCBI)||134, 216|
|RSP_2897||RSP_2897||hypothetical protein (NCBI)||134, 366|
|RSP_2966||uvrA||ABC excinuclease subunit A (NCBI)||134, 216|
|RSP_3377||RSP_3377||Glutathione S-transferase family protein (NCBI)||176, 216|
|RSP_3552||RSP_3552||hypothetical protein (NCBI)||202, 366|
|RSP_3602||RSP_3602||ABC efflux transporter, ATPase subunit (NCBI)||134, 216|
|RSP_3603||RSP_3603||Possible ABC efflux tranporter, fused inner membrane domains (NCBI)||134, 216|
|RSP_3686||RSP_3686||transcriptional regulator, LacI family (NCBI)||171, 216|
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.
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