B6VAP9 · B6VAP9_PIG
- ProteinDNA repair nuclease/redox regulator APEX1
- GeneAPEX1
- StatusUniProtKB unreviewed (TrEMBL)
- Organism
- Amino acids318 (go to sequence)
- Protein existenceEvidence at transcript level
- Annotation score4/5
Function
function
Initiates repair of AP sites in DNA by catalyzing hydrolytic incision of the phosphodiester backbone immediately adjacent to the damage, generating a single-strand break with 5'-deoxyribose phosphate and 3'-hydroxyl ends.
Catalytic activity
Cofactor
Protein has several cofactor binding sites:
Mn2+ (UniProtKB | Rhea| CHEBI:29035 )
Note: Probably binds two magnesium or manganese ions per subunit.
Features
Showing features for binding site, active site, site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 68 | Mg2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Binding site | 96 | Mg2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: E | ||||||
Active site | 171 | |||||
Sequence: Y | ||||||
Active site | 210 | Proton donor/acceptor | ||||
Sequence: D | ||||||
Binding site | 210 | Mg2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Binding site | 212 | Mg2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Site | 212 | Transition state stabilizer | ||||
Sequence: N | ||||||
Site | 283 | Important for catalytic activity | ||||
Sequence: D | ||||||
Binding site | 308 | Mg2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Active site | 309 | Proton acceptor | ||||
Sequence: H | ||||||
Binding site | 309 | Mg2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Site | 309 | Interaction with DNA substrate | ||||
Sequence: H |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | mitochondrion | |
Cellular Component | nucleus | |
Molecular Function | DNA binding | |
Molecular Function | endonuclease activity | |
Molecular Function | exonuclease activity | |
Molecular Function | metal ion binding | |
Biological Process | DNA recombination | |
Biological Process | DNA repair |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameDNA repair nuclease/redox regulator APEX1
- EC number
- Short namesAPEN ; REF-1
- Alternative names
- Cleaved into 1 chains
Gene names
Organism names
- Organism
- Taxonomic lineageEukaryota > Metazoa > Chordata > Craniata > Vertebrata > Euteleostomi > Mammalia > Eutheria > Laurasiatheria > Artiodactyla > Suina > Suidae > Sus
Accessions
- Primary accessionB6VAP9
Subcellular Location
Structure
Family & Domains
Features
Showing features for compositional bias, region, domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 1-41 | Basic and acidic residues | ||||
Sequence: MPKRGKKAAVAEDGDEPKSEPEAKKSKAGAKKTEKEAAGEG | ||||||
Region | 1-59 | Disordered | ||||
Sequence: MPKRGKKAAVAEDGDEPKSEPEAKKSKAGAKKTEKEAAGEGAVLYEDPPDQKTSPSGKS | ||||||
Domain | 65-309 | Endonuclease/exonuclease/phosphatase | ||||
Sequence: CSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELSGLPHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGEEEHDQEGRVIVAEFDAFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASHKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTAYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDH |
Sequence similarities
Belongs to the DNA repair enzymes AP/ExoA family.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length318
- Mass (Da)35,412
- Last updated2008-12-16 v1
- Checksum71B2AE0E95DFCA32
Features
Showing features for compositional bias.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 1-41 | Basic and acidic residues | ||||
Sequence: MPKRGKKAAVAEDGDEPKSEPEAKKSKAGAKKTEKEAAGEG |
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
FJ358603 EMBL· GenBank· DDBJ | ACJ06403.1 EMBL· GenBank· DDBJ | mRNA |