Organism : Desulfovibrio vulgaris Hildenborough | Module List :
DVU2082
flagellin
Functional Annotations (6)
Function | System |
---|---|
Flagellin and related hook-associated proteins | cog/ cog |
ciliary or flagellar motility | go/ biological_process |
structural molecule activity | go/ molecular_function |
bacterial-type flagellum filament | go/ cellular_component |
Two-component system | kegg/ kegg pathway |
Flagellar assembly | kegg/ kegg pathway |
Regulation information for DVU2082
(Mouseover regulator name to see its description)
Regulator | Module | Operator |
---|---|---|
DVU0110 | 62 | tf |
DVU0309 DVU1340 |
62 | combiner |
DVU0309 DVU1547 |
62 | combiner |
DVU0309 DVU3023 |
62 | combiner |
DVU1517 | 62 | tf |
DVU1561 DVU1584 |
62 | combiner |
DVU2547 DVU1730 |
62 | combiner |
DVU2567 DVU2675 |
62 | combiner |
DVU2960 DVU1730 |
62 | combiner |
DVU3080 | 62 | tf |
DVU3167 | 62 | tf |
DVUA0024 | 62 | tf |
DVU0030 | 236 | tf |
DVU0110 DVU0813 |
236 | combiner |
DVU0110 DVU1083 |
236 | combiner |
DVU0110 DVU1419 |
236 | combiner |
DVU0619 | 236 | tf |
DVU0653 DVU0813 |
236 | combiner |
DVU1584 | 236 | tf |
DVU1645 DVU2644 |
236 | combiner |
DVU1744 | 236 | tf |
DVU2423 DVU0653 |
236 | combiner |
DVU2423 DVU0936 |
236 | combiner |
DVU2644 DVU3066 |
236 | combiner |
DVU2836 | 236 | tf |
DVU3167 | 236 | tf |
DVU3167 DVU0309 |
236 | combiner |
DVU3167 DVU0813 |
236 | combiner |
DVU3193 DVU0813 |
236 | combiner |
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
Click on the RegPredict links to explore the motif in RegPredict.
Motif Id | e-value | Consensus | Motif Logo | RegPredict |
---|---|---|---|---|
121 | 1.70e-05 | aattt.atGCcAGCCcTA.AGT | RegPredict | |
122 | 3.60e+00 | atAcaAaGATcAtTTTaT | RegPredict | |
451 | 2.90e+02 | AgTcaTc.CATTtTT | RegPredict | |
452 | 7.90e+03 | CatcActggaGgAA | RegPredict |
Functional Enrichment for DVU2082
Function | System |
---|---|
Flagellin and related hook-associated proteins | cog/ cog |
ciliary or flagellar motility | go/ biological_process |
structural molecule activity | go/ molecular_function |
bacterial-type flagellum filament | go/ cellular_component |
Two-component system | kegg/ kegg pathway |
Flagellar assembly | kegg/ kegg pathway |
Module neighborhood information for DVU2082
Gene | Common Name | Description | Module membership |
---|---|---|---|
DVU0090 | wcaG | GDP-fucose synthetase | 137, 236 |
DVU0247 | response regulator | 35, 62 | |
DVU0250 | hypothetical protein DVU0250 | 62, 280 | |
DVU0274 | hypothetical protein DVU0274 | 188, 236 | |
DVU0290 | lipoprotein | 115, 236 | |
DVU0319 | NAD-dependent epimerase/dehydratase | 62, 119 | |
DVU0322 | eno | phosphopyruvate hydratase | 229, 236 |
DVU0325 | hypD | hydrogenase expression/formation protein HypD | 22, 62 |
DVU0349 | NeuB family protein | 62, 250 | |
DVU0378 | thioredoxin | 137, 236 | |
DVU0394 | radical SAM domain-containing protein | 62, 99 | |
DVU0398 | HMGL-like domain-containing protein | 236, 292 | |
DVU0418 | lys1 | saccharopine dehydrogenase | 119, 236 |
DVU0499 | hypothetical protein DVU0499 | 46, 62 | |
DVU0523 | flgM | negative regulator of flagellin synthesis FlgM | 62, 122 |
DVU0524 | hypothetical protein DVU0524 | 62, 122 | |
DVU0761 | lipoprotein | 35, 236 | |
DVU0800 | hypothetical protein DVU0800 | 62, 225 | |
DVU0870 | frr | ribosome recycling factor | 27, 236 |
DVU1072 | hypothetical protein DVU1072 | 99, 236 | |
DVU1368 | rhodanese-like domain-containing protein | 35, 236 | |
DVU1412 | glycerate dehydrogenase | 236, 274 | |
DVU1613 | glutamate synthase subunit beta | 192, 236 | |
DVU1670 | hypothetical protein DVU1670 | 53, 62 | |
DVU1868 | dapA | dihydrodipicolinate synthase | 62, 236 |
DVU1886 | hypothetical protein DVU1886 | 128, 236 | |
DVU1953 | proA | gamma-glutamyl phosphate reductase | 46, 62 |
DVU1980 | hypothetical protein DVU1980 | 115, 236 | |
DVU2042 | Fic family protein | 62, 273 | |
DVU2082 | flagellin | 62, 236 | |
DVU2108 | hypothetical protein DVU2108 | 66, 236 | |
DVU2109 | hypothetical protein DVU2109 | 236, 348 | |
DVU2112 | hypothetical protein DVU2112 | 27, 236 | |
DVU2143 | fba | fructose-1,6-bisphosphate aldolase, class II | 186, 236 |
DVU2203 | L-PSP family endoribonuclease | 62, 236 | |
DVU2313 | pgl | 6-phosphogluconolactonase | 115, 236 |
DVU2420 | hypothetical protein DVU2420 | 119, 236 | |
DVU2446 | panB | 3-methyl-2-oxobutanoate hydroxymethyltransferase | 62, 115 |
DVU2460 | hypothetical protein DVU2460 | 229, 236 | |
DVU2475 | ferredoxin-NADP(+) reductase subunit alpha | 46, 62 | |
DVU2490 | histidinol phosphatase | 35, 236 | |
DVU2735 | paaK-3 | phenylacetate-coenzyme A ligase | 62, 236 |
DVU2756 | radical SAM domain-containing protein | 62, 278 | |
DVU2769 | hypothetical protein DVU2769 | 27, 236 | |
DVU2883 | selA | selenocysteine synthase | 62, 162 |
DVU2884 | aminopeptidase 1 | 62, 222 | |
DVU2897 | hypothetical protein DVU2897 | 62, 277 | |
DVU2948 | flagellin N-terminal domain-containing protein | 62, 122 | |
DVU3068 | GAF domain/sensory box/EAL domain-containing protein | 35, 62 | |
DVU3208 | membrane protein | 62, 223 | |
DVU3212 | pyridine nucleotide-disulfide oxidoreductase | 5, 236 | |
DVU3351 | queA | S-adenosylmethionine:tRNA ribosyltransferase-isomerase | 50, 236 |
DVU3352 | lipoprotein | 27, 236 | |
DVU3364 | hypothetical protein DVU3364 | 35, 62 |
Gene Page Help
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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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Our 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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