Organism : Clostridium acetobutylicum | Module List :
CAC0590 ribD
Riboflavin biosynthesis protein RIBD (pirimidine deaminase and pirimidine reductase) (NCBI ptt file)
Functional Annotations (10)
Function | System |
---|---|
Pyrimidine reductase, riboflavin biosynthesis | cog/ cog |
alcohol dehydrogenase activity, metal ion-independent | go/ molecular_function |
alcohol dehydrogenase activity, zinc-dependent | go/ molecular_function |
alcohol dehydrogenase activity, iron-dependent | go/ molecular_function |
zinc ion binding | go/ molecular_function |
5-amino-6-(5-phosphoribosylamino)uracil reductase activity | go/ molecular_function |
diaminohydroxyphosphoribosylaminopyrimidine deaminase activity | go/ molecular_function |
riboflavin biosynthetic process | go/ biological_process |
NADP binding | go/ molecular_function |
ribD_Cterm | tigr/ tigrfam |
Regulation information for CAC0590
(Mouseover regulator name to see its description)
Regulator | Module | Operator |
---|---|---|
CAC0078 | 291 | tf |
CAC0144 | 291 | tf |
CAC0240 | 291 | tf |
CAC0284 | 291 | tf |
CAC0559 | 291 | tf |
CAC0599 | 291 | tf |
CAC1046 | 291 | tf |
CAC1355 | 291 | tf |
CAC2471 | 291 | tf |
CAC2473 | 291 | tf |
CAC2818 | 291 | tf |
CAC3349 | 291 | tf |
CAC3525 | 291 | tf |
CAC3579 | 291 | tf |
CAC3646 | 291 | tf |
CAC0023 | 266 | tf |
CAC0933 | 266 | tf |
CAC1032 | 266 | tf |
CAC3143 | 266 | tf |
CAC3502 | 266 | tf |
CAC3695 | 266 | tf |
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
Motif Id | e-value | Consensus | Motif Logo |
---|---|---|---|
7184 | 4.50e-01 | TccggaGCCgaCAGT | |
7185 | 2.90e+03 | GTCTGGATGAAAGAAG | |
7234 | 8.90e+02 | ggggcCGAc.g | |
7235 | 2.70e-01 | AggaGG |
Functional Enrichment for CAC0590
Function | System |
---|---|
Pyrimidine reductase, riboflavin biosynthesis | cog/ cog |
alcohol dehydrogenase activity, metal ion-independent | go/ molecular_function |
alcohol dehydrogenase activity, zinc-dependent | go/ molecular_function |
alcohol dehydrogenase activity, iron-dependent | go/ molecular_function |
zinc ion binding | go/ molecular_function |
5-amino-6-(5-phosphoribosylamino)uracil reductase activity | go/ molecular_function |
diaminohydroxyphosphoribosylaminopyrimidine deaminase activity | go/ molecular_function |
riboflavin biosynthetic process | go/ biological_process |
NADP binding | go/ molecular_function |
ribD_Cterm | tigr/ tigrfam |
Module neighborhood information for CAC0590
Gene | Common Name | Description | Module membership |
---|---|---|---|
CAC0023 | CAC0023 | Transcriptional regulator, LysR family (NCBI ptt file) | 179, 266 |
CAC0286 | CAC0286 | Uncharacterized membrane protein (NCBI ptt file) | 218, 266 |
CAC0287 | CAC0287 | Uncharacterized membrane protein (NCBI ptt file) | 218, 266 |
CAC0288 | CAC0288 | ABC transporter, ATP-binding protein (NCBI ptt file) | 67, 266 |
CAC0511 | CAC0511 | Predicted P-loop containing kinase, similar to B.subtilis yvcJ (NCBI ptt file) | 102, 291 |
CAC0535 | CAC0535 | Metal-dependent hydrolase of the beta-lactamase superfamily II (NCBI ptt file) | 47, 291 |
CAC0567 | CAC0567 | Putative methyltransferase (NCBI ptt file) | 33, 266 |
CAC0587 | CAC0587 | Flavodoxin (NCBI ptt file) | 214, 266 |
CAC0588 | CAC0588 | Hypothetical protein (NCBI ptt file) | 227, 266 |
CAC0590 | ribD | Riboflavin biosynthesis protein RIBD (pirimidine deaminase and pirimidine reductase) (NCBI ptt file) | 266, 291 |
CAC0591 | ribB | Riboflavin synthase alpha chain (NCBI ptt file) | 221, 291 |
CAC0592 | ribA | Riboflavin biosynthes protein RIBA (GTPcyclohydrolase/3,4-dihydroxy-2-butanone 4-phosphate synthase) (NCBI ptt file) | 221, 291 |
CAC0593 | ribH | Riboflavin synthase beta-chain (NCBI ptt file) | 221, 291 |
CAC0594 | CAC0594 | Predicted phosphate-utilizing enzyme involved in pyridoxine/purine/histidine biosynthesis (NCBI ptt file) | 83, 266 |
CAC0595 | CAC0595 | Glutamine amidotranspherase (possibly involved in histidine and purine biosinthesis) (NCBI ptt file) | 83, 291 |
CAC0599 | CAC0599 | Transcriptional regulator, GntR family (NCBI ptt file) | 223, 291 |
CAC0625 | CAC0625 | Possible periplasmic aspartyl protease (NCBI ptt file) | 24, 266 |
CAC0669 | CAC0669 | Hypothetical protein (NCBI ptt file) | 83, 266 |
CAC0749 | CAC0749 | HD hydrolase superfamily protein (NCBI ptt file) | 154, 291 |
CAC0982 | CAC0982 | Hypothetical protein (NCBI ptt file) | 209, 266 |
CAC1030 | CAC1030 | FeoA-like protein, involved in iron transport (NCBI ptt file) | 83, 266 |
CAC1039 | CAC1039 | Membrane protein, TerC homolog (NCBI ptt file) | 11, 266 |
CAC1549 | bsaA | Glutathione peroxidase (NCBI ptt file) | 83, 266 |
CAC1636 | CAC1636 | Uncharacterized protein, homolog of B. firmus (2654481) (NCBI ptt file) | 291, 349 |
CAC1638 | CAC1638 | Hypothetical protein, CF-37 family(almost identical) (NCBI ptt file) | 291, 349 |
CAC1639 | CAC1639 | Hypothetical protein, CF-7 family (NCBI ptt file) | 291, 349 |
CAC1640 | CAC1640 | Uncharacterized protein, YQCG B.subtilis homolog; CF-7 family (NCBI ptt file) | 291, 349 |
CAC1671 | CAC1671 | Predicted ATPase related to the helicase subunit of the Holliday junction resolvase (NCBI ptt file) | 291, 326 |
CAC1672 | CAC1672 | Rad3-related DNA helicase (NCBI ptt file) | 291, 326 |
CAC1966 | CAC1966 | Surface-layer related glycoprotein (NCBI ptt file) | 70, 291 |
CAC1969 | CAC1969 | Possible plasmid transfer factor, TraK (NCBI ptt file) | 287, 291 |
CAC2541 | CAC2541 | Reductase/isomerase/elongation factor common domain (NCBI ptt file) | 70, 291 |
CAC2544 | etfB | Electron-transferring flavoprotein small subunit (NCBI ptt file) | 41, 291 |
CAC2692 | CAC2692 | O-Acetyltransferase, from isoleucine patch superfamily (NCBI ptt file) | 70, 266 |
CAC2841 | CAC2841 | Conserved membrane protein, probable transporter, YPAA B.subtilis ortholog (NCBI ptt file) | 262, 266 |
CAC3020 | CAC3020 | Ornithine acetyltransferase/N-acetylglutamate synthase (NCBI ptt file) | 266, 321 |
CAC3181 | CAC3181 | Oligopeptide ABC transporter, permease component (NCBI ptt file) | 266, 321 |
CAC3350 | CAC3350 | Putative intracellular protease/amidase (ThiJ family) (NCBI ptt file) | 230, 291 |
CAC3354 | CAC3354 | Probable cation efflux pump (multidrug resistance protein) (NCBI ptt file) | 206, 266 |
CAC3359 | CAC3359 | Nitroreductase family protein fused to ferredoxin domain (NCBI ptt file) | 86, 266 |
CAC3505 | CAC3505 | Multimeric flavodoxin WrbA family protein (NCBI ptt file) | 212, 291 |
CAC3576 | CAC3576 | Dioxygenase related to 2-nitropropane dioxygenase (NCBI ptt file) | 6, 291 |
CAC3656 | CAC3656 | Uncharacterized conserved protein, yaiN/yohL family (NCBI ptt file) | 185, 291 |
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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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