A0A0D1JMD6 · A0A0D1JMD6_STAAU
- ProteinRibokinase
- GenerbsK
- StatusUniProtKB unreviewed (TrEMBL)
- Organism
- Amino acids304 (go to sequence)
- Protein existenceInferred from homology
- Annotation score3/5
Function
function
Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5-phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway.
Catalytic activity
- ATP + D-ribose = ADP + D-ribose 5-phosphate + H+
Cofactor
Note: Requires a divalent cation, most likely magnesium in vivo, as an electrophilic catalyst to aid phosphoryl group transfer. It is the chelate of the metal and the nucleotide that is the actual substrate.
Activity regulation
Activated by a monovalent cation that binds near, but not in, the active site. The most likely occupant of the site in vivo is potassium. Ion binding induces a conformational change that may alter substrate affinity.
Pathway
Carbohydrate metabolism; D-ribose degradation; D-ribose 5-phosphate from beta-D-ribopyranose: step 2/2.
Features
Showing features for binding site, active site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 12-14 | substrate | ||||
Sequence: NVD | ||||||
Binding site | 41-45 | substrate | ||||
Sequence: GKGAN | ||||||
Binding site | 142 | substrate | ||||
Sequence: E | ||||||
Binding site | 186 | ATP (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Binding site | 222-227 | ATP (UniProtKB | ChEBI) | ||||
Sequence: TLGKQG | ||||||
Binding site | 248 | K+ (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Binding site | 250 | K+ (UniProtKB | ChEBI) | ||||
Sequence: T | ||||||
Binding site | 253-254 | ATP (UniProtKB | ChEBI) | ||||
Sequence: GD | ||||||
Active site | 254 | Proton acceptor | ||||
Sequence: D | ||||||
Binding site | 254 | substrate | ||||
Sequence: D | ||||||
Binding site | 279 | ATP (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Binding site | 285 | K+ (UniProtKB | ChEBI) | ||||
Sequence: T | ||||||
Binding site | 288 | K+ (UniProtKB | ChEBI) | ||||
Sequence: K | ||||||
Binding site | 290 | K+ (UniProtKB | ChEBI) | ||||
Sequence: G | ||||||
Binding site | 294 | K+ (UniProtKB | ChEBI) | ||||
Sequence: S |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | cytoplasm | |
Molecular Function | ATP binding | |
Molecular Function | metal ion binding | |
Molecular Function | ribokinase activity | |
Biological Process | D-ribose catabolic process |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameRibokinase
- EC number
- Short namesRK
Gene names
Organism names
- Organism
- Strains
- Taxonomic lineageBacteria > Bacillota > Bacilli > Bacillales > Staphylococcaceae > Staphylococcus
Accessions
- Primary accessionA0A0D1JMD6
- Secondary accessions
Proteomes
Subcellular Location
Interaction
Subunit
Homodimer.
Structure
Family & Domains
Features
Showing features for domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Domain | 3-296 | Carbohydrate kinase PfkB | ||||
Sequence: NKVVILGSTNVDQFLTVERYAQPGETLHVEEAQKAFGGGKGANQAIATARMQADTTFITKIGTDGVADFILEDFKAAHIDTSYIIKTTEAKTGQAFITVNAEGQNTIYVYGGANMTMTPEDVINAKDAIINADFVVAQLEVPIPAIISAFEIAKAHGVTTVLNPAPAKALPNELLSLIDIIVPNETEAELLSGIKVTNEQSMKDNANYFLSLGIKTVLITLGKQGTYFATKNQSQHIEAYKVNAIDTTAAGDTFIGAFVSRLNKSQDNLADAIDFGNKASSLTVQKHGAQASIP |
Sequence similarities
Belongs to the carbohydrate kinase PfkB family. Ribokinase subfamily.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length304
- Mass (Da)32,451
- Last updated2015-04-29 v1
- Checksum0DDE818D5B466F32
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
CAIIGN010000002 EMBL· GenBank· DDBJ | CAC8221480.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
BDVT01000002 EMBL· GenBank· DDBJ | GBV19527.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
JXIG01000630 EMBL· GenBank· DDBJ | KIT95116.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
JAAJIY010000046 EMBL· GenBank· DDBJ | NGK22136.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
JAALWO010000038 EMBL· GenBank· DDBJ | NGV47842.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
JAALTR010000284 EMBL· GenBank· DDBJ | NGW68065.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
JAANDN010000059 EMBL· GenBank· DDBJ | NUY68224.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
QNXM01000003 EMBL· GenBank· DDBJ | TXL49849.1 EMBL· GenBank· DDBJ | Genomic DNA |