Note that this term is does not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. Class II AP endonuclease is a nuclease, but not Class I, III and IV.
GO:0140078
JSON
class I DNA-(apurinic or apyrimidinic site) endonuclease activity
Molecular Function
Definition (GO:0140078 GONUTS page)
Catalysis of the cleavage of an AP site 3' of the baseless site by a beta-lyase mechanism, leaving an unsaturated aldehyde, termed a 3'-(4-hydroxy-5-phospho-2-pentenal) residue, and a 5'-phosphate. PMID:1698278
Comments
Note that this term is does not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. Class II AP endonuclease is a nuclease, but not Class I, III and IV.
Synonyms
Synonyms are alternative words or phrases closely related in meaning to the term name, with indication of the relationship between the name and synonym given by the synonym scope.
Synonym | Type |
---|---|
AP endonuclease class I activity | related |
AP lyase activity | related |
class I AP endonuclease activity | related |
DNA-(apurinic or apyrimidinic site) 5'-phosphomonoester-lyase activity | exact |
AP site-DNA 5'-phosphomonoester-lyase activity | exact |
DNA-(apurinic or apyrimidinic site) lyase activity | exact |
class I DNA-(apurinic or apyrimidinic site) lyase activity | exact |
Ancestor Chart
Annotation Guidance
Usage of this term is subject to the following annotation guidelines:
Annotating to catalytic activities using the IPI evidence code | Link |
Describing enzyme functions that catalyse multi-stage reactions | Link |
Annotation Blacklist
This list aims to correct incorrect annotations to UniProtKB accessions inferred from electronic annotation (IEA) methods that are supplied by the UniProt-GOA project to the GO Consortium:
Category | Entity Type | Entity ID | Taxon ID | Entity Name | Ancestor GO ID | Reason | Rule/Method ID |
---|---|---|---|---|---|---|---|
NOT-qualified manual | protein | P02521 | 9031 | ARLY1_CHICK | GO:0003824 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000304 from this reference: PMID:11258884 | |
NOT-qualified manual | protein | Q5NVR0 | 9601 | HMCES_PONAB | GO:0003906 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000250 from this reference: GO_REF:0000024 | |
NOT-qualified manual | protein | Q5XIJ1 | 10116 | HMCES_RAT | GO:0003906 | 2 NOT-qualified manual annotations exist with these evidence codes: ECO:0000250, ECO:0000266 from these references: GO_REF:0000024, GO_REF:0000096 | |
NOT-qualified manual | protein | Q5ZJT1 | 9031 | HMCES_CHICK | GO:0003906 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000250 from this reference: GO_REF:0000024 | |
NOT-qualified manual | protein | Q6IND6 | 8355 | HMCES_XENLA | GO:0003906 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000250 from this reference: GO_REF:0000024 | |
NOT-qualified manual | protein | Q6P7N4 | 8364 | HMCES_XENTR | GO:0003906 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000250 from this reference: GO_REF:0000024 | |
NOT-qualified manual | protein | Q7KGG1 | 7227 | Q7KGG1_DROME | GO:0003824 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000320 from this reference: PMID:11904370 | |
NOT-qualified manual | protein | Q7SIE0 | 9103 | ARLY1_MELGA | GO:0003824 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000304 from this reference: PMID:11258884 | |
NOT-qualified manual | protein | Q8MZ84 | 7227 | Q8MZ84_DROME | GO:0003824 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000320 from this reference: PMID:11904370 | |
NOT-qualified manual | protein | Q8R1M0 | 10090 | HMCES_MOUSE | GO:0003906 | 1 NOT-qualified manual annotation exists with evidence code ECO:0000250 from this reference: GO_REF:0000024 |
Cross-references
Database | ID | Description |
---|---|---|
EC | 4.2.99.18 | |
InterPro | IPR023713 | Endonuclease VIII |
InterPro | IPR044090 | Nei2, N-terminal |
InterPro | IPR044091 | Nei, N-terminal |
MetaCyc | 4.2.99.18-RXN | |
RHEA | 66592 | |
Wikipedia | AP_endonuclease |
Cross-Ontology Relations
Relation | Other Ontology | ID | Term |
---|---|---|---|
has_participant | CHEBI | CHEBI:15378 | hydron |
has_participant | CHEBI | CHEBI:136412 | 5'-end 2'-deoxyribonucleotide(2-) residue |
has_participant | CHEBI | CHEBI:157695 | 3'-end deoxyribonucleotide 2,3-dehydro-2,3-deoxyribose phosphate(2-) residue |
has_participant | CHEBI | CHEBI:167181 | deoxyribonucleotide-(2'-deoxyribose)-deoxyribonucleotide residue(3-) |
Co-occurring Terms
These tables show the number of times the term listed in the table has been co-annotated.
No co-occurrence statistics for GO:0140078 based on ALL annotations
The top 100 of 529 co-occurring terms
Co-occurring Term | PR | S% | #Together | #Compared |
---|---|---|---|---|
class I DNA-(apurinic or apyrimidinic site) endonuclease activity
|
2,517.97 | 100.00 | 77,419 | 77,419 |
DNA-(apurinic or apyrimidinic site) endonuclease activity
|
1,118.22 | 43.18 | 72,758 | 163,834 |
DNA N-glycosylase activity
|
1,014.05 | 32.54 | 48,702 | 120,931 |
oxidized purine nucleobase lesion DNA N-glycosylase activity
|
1,568.29 | 26.35 | 24,272 | 38,970 |
8-oxo-7,8-dihydroguanine DNA N-glycosylase activity
|
888.47 | 22.46 | 29,573 | 83,811 |
base-excision repair, AP site formation
|
805.01 | 22.25 | 32,703 | 102,291 |
base-excision repair
|
513.97 | 20.35 | 76,314 | 373,869 |
oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity
|
1,526.27 | 15.89 | 13,716 | 22,628 |
damaged DNA binding
|
299.14 | 10.90 | 44,058 | 370,855 |
response to stress
|
162.05 | 5.71 | 25,978 | 403,645 |
Totals | 989191 | 87744808 |
No co-occurrence statistics for GO:0140078 based on MANUAL annotations
The top 87 of 87 co-occurring terms
Co-occurring Term | PR | S% | #Together | #Compared |
---|---|---|---|---|
class I DNA-(apurinic or apyrimidinic site) endonuclease activity
|
86,119.94 | 100.00 | 15 | 15 |
regulation of translational initiation by tRNA modification
|
68,895.95 | 25.00 | 4 | 5 |
tRNA wobble cytosine modification
|
34,447.98 | 19.05 | 4 | 10 |
tRNA demethylase activity
|
34,447.98 | 19.05 | 4 | 10 |
positive regulation of gene expression, epigenetic
|
34,447.98 | 19.05 | 4 | 10 |
oxidized purine nucleobase lesion DNA N-glycosylase activity
|
21,529.98 | 14.81 | 4 | 16 |
regulation of translational elongation
|
17,223.99 | 11.11 | 3 | 15 |
5-formyluracil DNA N-glycosylase activity
|
43,059.97 | 6.25 | 1 | 2 |
5-hydroxymethyluracil DNA N-glycosylase activity
|
43,059.97 | 6.25 | 1 | 2 |
regulation of mitochondrial translation
|
4,593.06 | 4.65 | 4 | 75 |
Totals | 258 | 640856 |
Change Log
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- Definition / Synonyms
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Timestamp | Action | Category | Detail |
---|---|---|---|
2024-05-11 | Added | SYNONYM | class I AP endonuclease activity |
2024-05-11 | Added | SYNONYM | AP lyase activity |
2021-10-30 | Added | XREF | RHEA:66592 |
2021-10-30 | Added | XREF | Wikipedia:AP_endonuclease |
2018-03-10 | Updated | TERM | class I DNA-(apurinic or apyrimidinic site) endonuclease activity |
2018-03-10 | Added | SYNONYM | class I DNA-(apurinic or apyrimidinic site) lyase activity |
2018-03-10 | Added | SYNONYM | AP site-DNA 5'-phosphomonoester-lyase activity |
2018-03-10 | Added | SYNONYM | DNA-(apurinic or apyrimidinic site) lyase activity |
2018-03-10 | Added | RELATION | is a GO:0016835 (carbon-oxygen lyase activity) |
2018-03-10 | Added | SYNONYM | DNA-(apurinic or apyrimidinic site) 5'-phosphomonoester-lyase activity |
Timestamp | Action | Category | Detail |
---|---|---|---|
2018-03-10 | Updated | TERM | class I DNA-(apurinic or apyrimidinic site) endonuclease activity |
2017-07-28 | Added | TERM | class I DNA-(apurinic or apyrimidinic site) lyase activity |
Timestamp | Action | Category | Detail |
---|---|---|---|
2024-05-11 | Added | SYNONYM | class I AP endonuclease activity |
2024-05-11 | Added | SYNONYM | AP lyase activity |
2018-03-10 | Added | SYNONYM | class I DNA-(apurinic or apyrimidinic site) lyase activity |
2018-03-10 | Added | SYNONYM | AP site-DNA 5'-phosphomonoester-lyase activity |
2018-03-10 | Added | SYNONYM | DNA-(apurinic or apyrimidinic site) lyase activity |
2018-03-10 | Added | SYNONYM | DNA-(apurinic or apyrimidinic site) 5'-phosphomonoester-lyase activity |
2017-07-28 | Added | SYNONYM | AP endonuclease class I activity |
2017-07-28 | Added | DEFINITION | Catalysis of the cleavage of an AP site 3' of the baseless site by a beta-lyase mechanism, leaving an unsaturated aldehyde, termed a 3'-(4-hydroxy-5-phospho-2-pentenal) residue, and a 5'-phosphate. |
Timestamp | Action | Category | Detail |
---|---|---|---|
2018-03-10 | Added | RELATION | is a GO:0016835 (carbon-oxygen lyase activity) |
2017-07-28 | Added | RELATION | is a GO:0003906 (DNA-(apurinic or apyrimidinic site) endonuclease activity) |
Timestamp | Action | Category | Detail |
---|---|---|---|
2021-10-30 | Added | XREF | RHEA:66592 |
2021-10-30 | Added | XREF | Wikipedia:AP_endonuclease |
2017-07-28 | Added | XREF | MetaCyc:4.2.99.18-RXN |
2017-07-28 | Added | XREF | EC:4.2.99.18 |
Timestamp | Action | Category | Detail |
---|
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