Organism : Rhodobacter sphaeroides 2.4.1 | Module List :
possible transporter, RarD family, DMT superfamily (NCBI)
Functional Annotations (1)
Regulation information for RSP_0364(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_0364
Module neighborhood information for RSP_0364
|Gene||Common Name||Description||Module membership|
|RSP_0117||RSP_0117||Cytochrome c oxidase, subunit I (NCBI)||38, 238|
|RSP_0151||RSP_0151||hypothetical protein (NCBI)||38, 74|
|RSP_0163||RSP_0163||putative iron(III) ABC transporter, fused inner membrane subunits (NCBI)||115, 234|
|RSP_0172||RSP_0172||Predicted transcriptional regulators (NCBI)||38, 62|
|RSP_0358||gor||probable glutathione reductase (NCBI)||234, 299|
|RSP_0362||RSP_0362||hypothetical protein (NCBI)||38, 320|
|RSP_0364||RSP_0364||possible transporter, RarD family, DMT superfamily (NCBI)||38, 234|
|RSP_0418||RSP_0418||hypothetical protein (NCBI)||58, 234|
|RSP_0519||RSP_0519||NAD-dependent epimerase/dehydratase (NCBI)||38, 217|
|RSP_0520||RSP_0520||NAD-dependent dehydratase/epimerase (NCBI)||38, 217|
|RSP_0551||RSP_0551||putative thymidylate kinase (NCBI)||234, 340|
|RSP_0724||mscL||Large-conductance mechanosensitive channel (NCBI)||59, 234|
|RSP_0729||lysA||Orn/DAP/Arg decarboxylase, family 2 (NCBI)||54, 234|
|RSP_0755||nusB||putative N utilization substance protein B (NCBI)||234, 240|
|RSP_1233||maf||putative Maf/YceF/YhdE family protein (NCBI)||87, 234|
|RSP_1306||RSP_1306||PAS sensor Signal Tranduction Histidine Kinase (NCBI)||4, 234|
|RSP_1389||aroC||Chorismate synthase (NCBI)||181, 234|
|RSP_1391||thiB||ABC thiamine transporter, periplasmic substrate-binding protein (NCBI)||121, 234|
|RSP_1392||thiP||ABC thiamine transporter, inner membrane subunit (NCBI)||233, 234|
|RSP_1462||lpxK||Putative Tetraacyldisaccharide-1-P 4'-kinase (NCBI)||84, 234|
|RSP_1472||RSP_1472||hypothetical protein (NCBI)||113, 234|
|RSP_1695||RSP_1695||hypothetical protein (NCBI)||38, 124|
|RSP_1800||RSP_1800||hypothetical protein (NCBI)||234, 293|
|RSP_1821||RSP_1821||Molybdopterin-containing oxidoreductase, probable formate dehydrogenase (NCBI)||38, 137|
|RSP_1888||RSP_1888||possible acetyltransferase (GNAT) family (NCBI)||38, 62|
|RSP_1928||dnaB||Replicative DNA helicase, DnaB (NCBI)||76, 234|
|RSP_2074||RSP_2074||hypothetical protein (NCBI)||38, 379|
|RSP_2140||RSP_2140||hypothetical protein (NCBI)||19, 38|
|RSP_2166||putA||Bifunctional putA protein; Proline dehydrogenase / Delta-1-pyrroline-5-carboxylate dehydrogenase (NCBI)||38, 251|
|RSP_2205||RSP_2205||hypothetical protein (NCBI)||67, 234|
|RSP_2206||RSP_2206||hypothetical protein (NCBI)||67, 234|
|RSP_2232||RSP_2232||putative uracil-DNA glycosylase (NCBI)||38, 193|
|RSP_2306||RSP_2306||putative HAD superfamily protein (NCBI)||234, 279|
|RSP_2407||RSP_2407||periplasmic sensor hybrid histidine kinase (NCBI)||234, 322|
|RSP_2492||RSP_2492||Possible transporter, RhaT family, DMT superfamily (NCBI)||54, 234|
|RSP_2575||RSP_2575||hypothetical protein (NCBI)||38, 124|
|RSP_2672||RSP_2672||hypothetical protein (NCBI)||38, 282|
|RSP_2720||RSP_2720||Putative LysE/RhtB family amino acid efflux pump (NCBI)||38, 325|
|RSP_2721||RSP_2721||hypothetical protein (NCBI)||38, 370|
|RSP_2800||acoR||Putative AcoR, Transcriptional activator of acetoin/glycerol metabolism (NCBI)||234, 337|
|RSP_2817||aroK||Putative shikimate kinase (NCBI)||26, 234|
|RSP_2818||aroB||Putative 3-dehydroquinate synthase (NCBI)||84, 234|
|RSP_2896||RSP_2896||Multiple antibiotic transporter (NCBI)||15, 234|
|RSP_3017||RSP_3017||nitrilotriacetate monooxygenase (NCBI)||38, 83|
|RSP_3020||RSP_3020||hypothetical protein (NCBI)||38, 62|
|RSP_3036||RSP_3036||hypothetical protein (NCBI)||38, 141|
|RSP_3061||RSP_3061||hypothetical protein (NCBI)||38, 141|
|RSP_3068||RSP_3068||hypothetical protein (NCBI)||38, 307|
|RSP_3118||RSP_3118||hypothetical protein (NCBI)||38, 313|
|RSP_3119||RSP_3119||conserved hypothetical protein / putative esterase (NCBI)||14, 38|
|RSP_3180||RSP_3180||Transglutaminase-like enzyme (NCBI)||38, 97|
|RSP_3339||RSP_3339||transcriptional regulator, GntR family (NCBI)||38, 253|
|RSP_3355||RSP_3355||putative tape measure protein (NCBI)||38, 300|
|RSP_3424||RSP_3424||hypothetical protein (NCBI)||38, 285|
|RSP_3499||RSP_3499||H+-transporting two-sector ATPase, alpha/beta subunit (NCBI)||38, 62|
|RSP_3617||RSP_3617||hypothetical protein (NCBI)||38, 62|
|RSP_3837||RSP_3837||hypothetical protein (NCBI)||38, 196|
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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