Protein family
Protein sequence
Protein function
Catalytic activity
EC number
EC number description
3.1.11.2
Hydrolases;
Acting on ester bonds;
Exodeoxyribonucleases producing 5'-phosphomonoesters;
exodeoxyribonuclease III
PDB | Resolution (Å) | PDB name |
---|---|---|
1BIX | 2.2 | THE CRYSTAL STRUCTURE OF THE HUMAN DNA REPAIR ENDONUCLEASE HAP1 SUGGESTS THE RECOGNITION OF EXTRA-HELICAL DEOXYRIBOSE AT DNA ABASIC SITES |
1CQG | HIGH RESOLUTION SOLUTION NMR STRUCTURE OF MIXED DISULFIDE INTERMEDIATE BETWEEN HUMAN THIOREDOXIN (C35A, C62A, C69A, C73A) MUTANT AND A 13 RESIDUE PEPTIDE COMPRISING ITS TARGET SITE IN HUMAN REF-1 (RESIDUES 59-71 OF THE P50 SUBUNIT OF NFKB), NMR, 31 STRUCTURES | |
1CQH | HIGH RESOLUTION SOLUTION NMR STRUCTURE OF MIXED DISULFIDE INTERMEDIATE BETWEEN HUMAN THIOREDOXIN (C35A, C62A, C69A, C73A) MUTANT AND A 13 RESIDUE PEPTIDE COMPRISING ITS TARGET SITE IN HUMAN REF-1 (RESIDUES 59-71 OF THE P50 SUBUNIT OF NFKB), NMR, MINIMIZED AVERAGE STRUCTURE | |
1DE8 | 2.95 | HUMAN APURINIC/APYRIMIDINIC ENDONUCLEASE-1 (APE1) BOUND TO ABASIC DNA |
1DE9 | 3.0 | HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION |
1DEW | 2.65 | CRYSTAL STRUCTURE OF HUMAN APE1 BOUND TO ABASIC DNA |
1E9N | 2.2 | A second divalent metal ion in the active site of a new crystal form of human apurinic/apyrimidinic endonuclease, Ape1, and its implications for the catalytic mechanism |
1HD7 | 1.95 | A Second Divalent Metal Ion in the Active Site of a New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, Ape1, and its Implications for the Catalytic Mechanism |
2ISI | 2.76 | Crystal structure of Ape1 from Homo sapiens in a new crystal form complexed with a ligand |
2O3H | 1.9 | Crystal structure of the human C65A Ape |
3U8U | 2.15 | Crystal structure of Human Apurinic/Apyridinimic Endonuclease, Ape1 in a new crystal form |
4IEM | 2.3936 | Human apurinic/apyrimidinic endonuclease (APE1) with product DNA and Mg2+ |
4LND | 1.92 | Crystal structure of human apurinic/apyrimidinic endonuclease 1 with essential Mg2+ cofactor |
4QH9 | 2.175 | Crystal structure of Mn2+ bound human APE1 |
4QHD | 1.65 | Crystal structure of apo human APE1 |
4QHE | 1.4 | Crystal structure of Mg2+ bound human APE1 |
5CFG | 1.8 | C2 crystal form of APE1 with Mg2+ |
5DFF | 1.57 | Human APE1 product complex |
5DFH | 1.949 | Human APE1 mismatch product complex |
5DFI | 1.63 | Human APE1 phosphorothioate substrate complex |
5DFJ | 1.85 | Human APE1 E96Q/D210N mismatch substrate complex |
5DG0 | 1.8 | Human APE1 phosphorothioate substrate complex with Mn2+ |
5WN0 | 2.6 | APE1 exonuclease substrate complex with a C/G match |
5WN1 | 2.3 | APE1 exonuclease product complex |
5WN2 | 2.288 | APE1 exonuclease substrate complex with phosphoglycolate |
5WN3 | 2.0 | APE1 F266A exonuclease substrate complex with a C/T mismatch |
5WN4 | 2.1 | APE1 exonuclease substrate complex with a C/T mismatch |
5WN5 | 2.2 | APE1 exonuclease substrate complex with a C/T mismatch and Mn2+ |
6BOQ | 1.96 | Human APE1 substrate complex with an A/A mismatch adjacent the THF |
6BOR | 1.84 | Human APE1 substrate complex with an G/G mismatch adjacent the THF |
6BOS | 2.304 | Human APE1 substrate complex with an A/C mismatch adjacent the THF |
6BOT | 2.3 | Human APE1 substrate complex with an C/C mismatch adjacent the THF |
6BOU | 2.538 | Human APE1 substrate complex with an T/C mismatch adjacent the THF |
6BOV | 1.975 | Human APE1 substrate complex with an A/G mismatch adjacent the THF |
6BOW | 1.59 | Human APE1 substrate complex with an T/T mismatch adjacent the THF |
6MK3 | 1.478 | Crystallographic solvent mapping analysis of DMSO bound to APE1 |
6MKK | 1.442 | Crystallographic solvent mapping analysis of DMSO/Mg bound to APE1 |
6MKM | 1.673 | Crystallographic solvent mapping analysis of DMSO/Tris bound to APE1 |
6MKO | 2.09 | Crystallographic solvent mapping analysis of glycerol bound to APE1 |
6P93 | 2.1 | Human APE1 K98A AP-endonuclease product complex |
6P94 | 2.09 | Human APE1 C65A AP-endonuclease product complex |
6W0Q | 1.89 | APE1 endonuclease product complex D148E |
6W2P | 1.94 | APE1 endonuclease product complex L104R |
6W3L | 2.59 | APE1 exonuclease substrate complex wild-type |
6W3N | 2.69 | APE1 exonuclease substrate complex D148E |
6W3Q | 2.49 | APE1 exonuclease substrate complex L104R |
6W3U | 2.4 | APE1 exonuclease substrate complex R237C |
6W43 | 1.99 | APE1 AP-endonuclease product complex R237C |
6W4I | 2.2 | APE1 Y269A product complex with abasic DNA |
6W4T | 2.77 | APE1 Y269A phosphorothioate substrate complex with abasic DNA |
7LPG | 2.08 | APE1 product complex with abasic ribonucleotide DNA |
7LPH | 1.99 | APE1 Mn-bound product complex with abasic ribonucleotide DNA |
7LPI | 2.05 | APE1 phosphorothioate substrate complex with abasic ribonucleotide DNA |
7LPJ | 2.56 | APE1 Mn-bound phosphorothioate substrate complex with abasic ribonucleotide DNA |
7MCR | 1.9 | Human Apex/Ref1 homodimer formed under oxidative condition |
7MEV | 1.6 | Human Apex/Ref1 monomer with C138A mutation |
7SUV | 1.99 | APE1 exonuclease substrate complex with 8oxoG opposite A |
7SVB | 2.24 | APE1 exonuclease substrate complex with 8oxoG opposite C |
7TC2 | 1.43 | Human APE1 in complex with 5-nitroindole-2-carboxylic acid |
7TC3 | 1.252 | Human APE1 in the apo form |
7U50 | 3.4 | APE1 bound to a nucleosome core particle with AP-site at SHL-6 |
GO ontology | GO term | GO description |
---|---|---|
Biological Process | GO:0006308 | DNA catabolic process |
Biological Process | GO:0080111 | DNA demethylation |
Biological Process | GO:0006310 | DNA recombination |
Biological Process | GO:0006281 | DNA repair |
Biological Process | GO:0007568 | aging |
Biological Process | GO:0006284 | base-excision repair |
Biological Process | GO:0006287 | base-excision repair, gap-filling |
Biological Process | GO:0045454 | cell redox homeostasis |
Biological Process | GO:0071320 | cellular response to cAMP |
Biological Process | GO:0070301 | cellular response to hydrogen peroxide |
Biological Process | GO:0071375 | cellular response to peptide hormone stimulus |
Biological Process | GO:0014912 | negative regulation of smooth muscle cell migration |
Biological Process | GO:1900087 | positive regulation of G1/S transition of mitotic cell cycle |
Biological Process | GO:0045944 | positive regulation of transcription by RNA polymerase II |
Biological Process | GO:0042981 | regulation of apoptotic process |
Biological Process | GO:0043488 | regulation of mRNA stability |
Biological Process | GO:0009410 | response to xenobiotic stimulus |
Biological Process | GO:0000723 | telomere maintenance |
Biological Process | GO:0097698 | telomere maintenance via base-excision repair |
Molecular Function | GO:0008408 | 3'-5' exonuclease activity |
Molecular Function | GO:0008296 | 3'-5'-DNA exonuclease activity |
Molecular Function | GO:0003677 | DNA binding |
Molecular Function | GO:0004520 | DNA endonuclease activity |
Molecular Function | GO:0140431 | DNA-(abasic site) binding |
Molecular Function | GO:0003906 | DNA-(apurinic or apyrimidinic site) endonuclease activity |
Molecular Function | GO:0051059 | NF-kappaB binding |
Molecular Function | GO:0003723 | RNA binding |
Molecular Function | GO:0004523 | RNA-DNA hybrid ribonuclease activity |
Molecular Function | GO:0031490 | chromatin DNA binding |
Molecular Function | GO:0052720 | class II DNA-(apurinic or apyrimidinic site) endonuclease activity |
Molecular Function | GO:0003684 | damaged DNA binding |
Molecular Function | GO:0008311 | double-stranded DNA 3'-5' DNA exonuclease activity |
Molecular Function | GO:0008309 | double-stranded DNA exodeoxyribonuclease activity |
Molecular Function | GO:0003691 | double-stranded telomeric DNA binding |
Molecular Function | GO:0004519 | endonuclease activity |
Molecular Function | GO:0046872 | metal ion binding |
Molecular Function | GO:0016491 | oxidoreductase activity |
Molecular Function | GO:0004528 | phosphodiesterase I activity |
Molecular Function | GO:0090580 | phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands |
Molecular Function | GO:0008081 | phosphoric diester hydrolase activity |
Molecular Function | GO:0044877 | protein-containing complex binding |
Molecular Function | GO:0016890 | site-specific endodeoxyribonuclease activity, specific for altered base |
Molecular Function | GO:0003713 | transcription coactivator activity |
Molecular Function | GO:0003714 | transcription corepressor activity |
Molecular Function | GO:0004844 | uracil DNA N-glycosylase activity |
Cellular Component | GO:0005813 | centrosome |
Cellular Component | GO:0000781 | chromosome, telomeric region |
Cellular Component | GO:0005737 | cytoplasm |
Cellular Component | GO:0005783 | endoplasmic reticulum |
Cellular Component | GO:0005739 | mitochondrion |
Cellular Component | GO:0016607 | nuclear speck |
Cellular Component | GO:0005730 | nucleolus |
Cellular Component | GO:0005654 | nucleoplasm |
Cellular Component | GO:0005634 | nucleus |
Cellular Component | GO:0048471 | perinuclear region of cytoplasm |
Cellular Component | GO:0005840 | ribosome |
Cellular Component | GO:0005667 | transcription regulator complex |
InterPro | InterPro name |
---|---|
IPR004808 | AP endonuclease 1 |
IPR005135 | Endonuclease/exonuclease/phosphatase |
IPR020847 | AP endonuclease 1, binding site |
IPR020848 | AP endonuclease 1, conserved site |
IPR036691 | Endonuclease/exonuclease/phosphatase superfamily |
Pfam | Pfam name |
---|---|
PF03372 | Endonuclease/Exonuclease/phosphatase family |
Reactome | Reactome Name | Node type | Reactome Root | Reactome Root Name |
---|---|---|---|---|
R-HSA-110357 | Displacement of DNA glycosylase by APEX1 | Leaf | R-HSA-73894 | DNA Repair |
R-HSA-110362 | POLB-Dependent Long Patch Base Excision Repair | Leaf | R-HSA-73894 | DNA Repair |
R-HSA-110373 | Resolution of AP sites via the multiple-nucleotide patch replacement pathway | Internal node | R-HSA-73894 | DNA Repair |
R-HSA-5651801 | PCNA-Dependent Long Patch Base Excision Repair | Leaf | R-HSA-73894 | DNA Repair |
R-HSA-73930 | Abasic sugar-phosphate removal via the single-nucleotide replacement pathway | Leaf | R-HSA-73894 | DNA Repair |
R-HSA-73933 | Resolution of Abasic Sites (AP sites) | Internal node | R-HSA-73894 | DNA Repair |