P86938 · JBP1_TRYB2
- ProteinThymine dioxygenase JBP1
- GeneJBP1
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids839 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
Dioxygenase that catalyzes the first step of DNA base J (beta-d-glucosyl-HOMedU) biosynthesis by converting thymine to 5-hydroxymethyluracil (HOMedU). DNA base J is a hypermodified thymidine residue found in the genome of kinetoplastid parasites, which is localized primarily to repetitive DNA, namely the telomeres, and is implicated in the regulation of antigenic variation. Also specifically binds to base J-containing DNA (J-DNA). Involved in propagation and maintenance of DNA base J synthesis initiated by JBP2 by specifically binding already synthesized DNA base J and propagating J synthesis. Thymine dioxygenase activity and J-DNA-binding are independent functions.
Catalytic activity
- 2-oxoglutarate + O2 + thymine = 5-hydroxymethyluracil + CO2 + succinate
Cofactor
Note: Binds 1 Fe2+ ion per subunit.
Features
Showing features for binding site, site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 213 | Fe cation (UniProtKB | ChEBI); catalytic | ||||
Sequence: H | ||||||
Binding site | 215 | Fe cation (UniProtKB | ChEBI); catalytic | ||||
Sequence: D | ||||||
Binding site | 263 | Fe cation (UniProtKB | ChEBI); catalytic | ||||
Sequence: H | ||||||
Binding site | 279 | 2-oxoglutarate (UniProtKB | ChEBI) | ||||
Sequence: R | ||||||
Site | 548 | Involved in J base recognition, conferring specificity towards J-DNA | ||||
Sequence: D |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | nucleus | |
Molecular Function | DNA binding | |
Molecular Function | DNA translocase activity | |
Molecular Function | ferrous iron binding | |
Molecular Function | thymine dioxygenase activity | |
Biological Process | base J metabolic process | |
Biological Process | double-strand break repair via homologous recombination | |
Biological Process | reciprocal meiotic recombination |
Keywords
- Molecular function
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameThymine dioxygenase JBP1
- EC number
- Alternative names
Gene names
Organism names
- Strain
- Taxonomic lineageEukaryota > Discoba > Euglenozoa > Kinetoplastea > Metakinetoplastina > Trypanosomatida > Trypanosomatidae > Trypanosoma
Accessions
- Primary accessionP86938
- Secondary accessions
Proteomes
Organism-specific databases
Subcellular Location
Phenotypes & Variants
Disruption phenotype
Does not affect growth, gene expression or the stability of some repetitive DNA sequences. The genome contains only about 5% of the wild-type level of J in their DNA. Cells lacking both JBP1 and JBP2 show a complete absence of base J.
Features
Showing features for mutagenesis.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Mutagenesis | 213 | Impairs DNA base J biosynthesis. | ||||
Sequence: H → S | ||||||
Mutagenesis | 215 | Impairs DNA base J biosynthesis. | ||||
Sequence: D → S |
PTM/Processing
Features
Showing features for chain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000377555 | 1-839 | Thymine dioxygenase JBP1 | |||
Sequence: MRRQVKKVLREKADDSMKPGWDVYQPSNDVVYAFNHYMQGSQIDAEAREKAEKAFQEAVKKHPFHNNADHTVDFHGTTVFRNAKGKVCGVLIPKALPSFATSMAADVLECAVARTSLRSALFGGVSPNSGIAGYFDYRGTPVELKCRKTSFTYEHTKEWRSVFPMIDYTSAIYKAALPDHWKAQDAAVPDVVRIHGSPFSTLTVNERFRTASHTDNGDFDNGYGVLAVLKGEYSGLSLALDDYGVCFNMQPTDVLLFDTHLFHSNTELEAKEANATWNRLSCVFYYRAALGEQPCVEEYRRRLKKAKEEKSTSLSFNHIEQKDNGENTNKPAPVYPVSLTPFSCAASAWALRGCAAAMLTRLHGLVRENASLMTELFGEPVEVADGLPRRAPEEIIPVHKHTNVQMHYLGGFSEKGDILNEAMNKRHYLDKENLQKMFGEEFVNIWTQSRTHWLQLVKKEWEHQKETNPTRTRFSWNNTSAMNFAFFDLCDVAKQLMCGAFGDREVNKKEEQSFWGMFAAHLDNACINEIGMLQGSMGMHKLNVKLKDYNFGGTRYLKDMPPEEQERRRRRRLEIEQARRRAPICDSESGDWLRNEAFDYQTEDVAVNYEREQWITPENNAKRFGFPERGVYGAEGAATGTISVLIVLPKPTNHRQKTCELPTSREADRIMKNPAAQRLLCAKPCNIGLSTSSNKSRTVLCGNIRIDKVFDGGSVGGKMYDFVIMRHLLAATTGEREPLECLVRWTSLARYCTFVVEVDLLDRHHYILKSEIGEEYSAVSEICFSALYSATYARDKVNLRTTPCLLSFIDKSGNMLESRFKFNGSPLNTVAFVVRRREK |
Proteomic databases
Expression
Developmental stage
Expressed in bloodstream form and significantly less in procyclic form.
Interaction
Subunit
Monomer. Binds to DNA as a monomer (By similarity).
Protein-protein interaction databases
Structure
Family & Domains
Features
Showing features for region.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Region | 86-288 | Thymine dioxygenase | ||||
Sequence: KVCGVLIPKALPSFATSMAADVLECAVARTSLRSALFGGVSPNSGIAGYFDYRGTPVELKCRKTSFTYEHTKEWRSVFPMIDYTSAIYKAALPDHWKAQDAAVPDVVRIHGSPFSTLTVNERFRTASHTDNGDFDNGYGVLAVLKGEYSGLSLALDDYGVCFNMQPTDVLLFDTHLFHSNTELEAKEANATWNRLSCVFYYRA | ||||||
Region | 415-583 | DNA-binding JBP1 domain | ||||
Sequence: KGDILNEAMNKRHYLDKENLQKMFGEEFVNIWTQSRTHWLQLVKKEWEHQKETNPTRTRFSWNNTSAMNFAFFDLCDVAKQLMCGAFGDREVNKKEEQSFWGMFAAHLDNACINEIGMLQGSMGMHKLNVKLKDYNFGGTRYLKDMPPEEQERRRRRRLEIEQARRRAP |
Domain
The DNA-binding JBP1 domain (DB-JBP1) is necessary and sufficient for binding to J-DNA.
Sequence similarities
Belongs to the TET family. JBP1 subfamily.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length839
- Mass (Da)95,251
- Last updated2011-07-27 v1
- ChecksumB3BEECD851CC0FE7
Keywords
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
CH464491 EMBL· GenBank· DDBJ | EAN80308.1 EMBL· GenBank· DDBJ | Genomic DNA |