This term is obsolete.
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.

77,432 annotations

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

Ancestor chart for GO:0140078
Chart options
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

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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