This term is obsolete.

GO:0003972 JSON

RNA ligase (ATP) activity

Molecular Function

Definition (GO:0003972 GONUTS page)

Catalysis of the reaction: ATP + (ribonucleotide)n-3'-hydroxyl + 5'-phospho-(ribonucleotide)m = (ribonucleotide)n+m + AMP + diphosphate.

21,161 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
polyribonucleotide synthase (ATP) activity related
ribonucleic ligase activity broad
polyribonucleotide ligase activity related
poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming) related

Ancestor Chart

Ancestor chart for GO:0003972
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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 A0A8I5Y5Z6 10116 A0A8I5Y5Z6_RAT GO:0016874 1 NOT-qualified manual annotation exists with evidence code ECO:0000266 from this reference: GO_REF:0000096
NOT-qualified manual protein A0A8I6A2T0 10116 A0A8I6A2T0_RAT GO:0016874 1 NOT-qualified manual annotation exists with evidence code ECO:0000266 from this reference: GO_REF:0000096
NOT-qualified manual protein A6I4N6 10116 A6I4N6_RAT GO:0016874 1 NOT-qualified manual annotation exists with evidence code ECO:0000266 from this reference: GO_REF:0000096
NOT-qualified manual protein F7EEB9 10116 F7EEB9_RAT GO:0016874 1 NOT-qualified manual annotation exists with evidence code ECO:0000266 from this reference: GO_REF:0000096
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 Q13426 9606 XRCC4_HUMAN GO:0016874 1 NOT-qualified manual annotation exists with evidence code ECO:0000314 from this reference: PMID:9242410
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

Cross-references

Database ID Description
EC 6.5.1.3
InterPro IPR012387 tRNA ligase Trl1, fungi
InterPro IPR012647 RNA ligase, Rnl2
InterPro IPR012648 T4 RNA ligase 1
InterPro IPR015965 tRNA ligase, phosphodiesterase
InterPro IPR015966 tRNA ligase, kinase domain, fungi
InterPro IPR038837 tRNA ligase 1
InterPro IPR041211 RNA ligase 1
InterPro IPR044263 RNA ligase 2, viral
MetaCyc RNA-LIGASE-ATP-RXN

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:0003972 based on ALL annotations
The top 100 of 235 co-occurring terms
Co-occurring Term PR S% #Together #Compared
RNA ligase (ATP) activity
9,379.22 100.00 21,127 21,127
RNA ligase (GTP) activity
4,772.23 32.92 10,195 20,037
RNA repair
1,952.41 17.09 10,322 49,586
tRNA-splicing ligase complex
2,698.18 10.27 2,911 10,119
tRNA splicing, via endonucleolytic cleavage and ligation
1,197.11 9.06 5,020 39,331
GTP-dependent polyribonucleotide 5'-hydroxyl-kinase activity
9,379.22 5.79 1,224 1,224
ligase activity, forming phosphoric ester bonds
8,754.46 5.29 1,121 1,201
intron homing
2,921.30 2.12 470 1,509
response to reactive oxygen species
279.46 1.80 916 30,743
RNA processing
118.87 1.26 13,496 1,064,849
Totals 131884 71323662
No co-occurrence statistics for GO:0003972 based on MANUAL annotations
The top 35 of 35 co-occurring terms
Co-occurring Term PR S% #Together #Compared
RNA ligase (ATP) activity
54,289.73 100.00 26 26
GTP-dependent polyribonucleotide 5'-hydroxyl-kinase activity
54,289.73 11.54 3 3
mRNA editing complex
6,032.19 4.76 2 18
tRNA splicing, via endonucleolytic cleavage and ligation
2,096.55 3.81 19 492
virus tail fiber assembly
10,857.95 3.33 1 5
RNA splicing, via endonucleolytic cleavage and ligation
10,857.95 3.33 1 5
positive regulation of translation in response to stress
6,786.22 3.03 1 8
RNA ligase (GTP) activity
5,428.97 2.86 1 10
mitochondrial mRNA editing complex
1,962.28 2.83 3 83
GMP binding
3,016.10 2.33 1 18
Totals 112 634477

Change Log

Timestamp Action Category Detail
2024-03-28 Added DEFINITION Catalysis of the reaction: ATP + (ribonucleotide)n-3'-hydroxyl + 5'-phospho-(ribonucleotide)m = (ribonucleotide)n+m + AMP + diphosphate.
2024-03-28 Deleted DEFINITION Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
2020-10-08 Deleted SYNONYM poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming)
2020-10-08 Added SYNONYM poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming)
2020-10-08 Added SYNONYM polyribonucleotide ligase activity
2020-10-08 Added SYNONYM polyribonucleotide synthase (ATP) activity
2020-10-08 Deleted SYNONYM polyribonucleotide synthase (ATP) activity
2020-10-08 Deleted SYNONYM polyribonucleotide ligase activity
2019-04-01 Added XREF Reactome:R-HSA-5696816
2019-04-01 Deleted XREF reactome:R-HSA-5696816
Timestamp Action Category Detail
2003-03-19 Updated TERM RNA ligase (ATP) activity
2002-02-06 Updated TERM RNA ligase (ATP)
2001-04-03 Updated TERM RNA ligase (ATP)
2001-03-30 Added TERM RNA ligase (ATP)
Timestamp Action Category Detail
2024-03-28 Added DEFINITION Catalysis of the reaction: ATP + (ribonucleotide)n-3'-hydroxyl + 5'-phospho-(ribonucleotide)m = (ribonucleotide)n+m + AMP + diphosphate.
2024-03-28 Deleted DEFINITION Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
2020-10-08 Deleted SYNONYM poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming)
2020-10-08 Added SYNONYM poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming)
2020-10-08 Added SYNONYM polyribonucleotide ligase activity
2020-10-08 Added SYNONYM polyribonucleotide synthase (ATP) activity
2020-10-08 Deleted SYNONYM polyribonucleotide synthase (ATP) activity
2020-10-08 Deleted SYNONYM polyribonucleotide ligase activity
2010-09-03 Deleted DEFINITION Catalysis of the reaction: ATP + ribonucleotide (n) + ribonucleotide (m) = AMP + diphosphate + ribonucleotide (n+m).
2010-09-03 Added DEFINITION Catalysis of the reaction: ATP + ribonucleotide(n) + ribonucleotide(m) = AMP + diphosphate + ribonucleotide(n+m).
2008-05-13 Added DEFINITION Catalysis of the reaction: ATP + ribonucleotide (n) + ribonucleotide (m) = AMP + diphosphate + ribonucleotide (n+m).
2008-05-12 Deleted DEFINITION Catalysis of the reaction: ATP + ribonucleotide (n) + ribonucleotide (m) = AMP + diphosphate + ribonucleotide (n+m).
2007-11-08 Added SYNONYM poly(ribonucleotide):poly(ribonucleotide) ligase (AMP-forming)
2007-11-08 Added SYNONYM polyribonucleotide ligase activity
2007-09-06 Added SYNONYM polyribonucleotide synthase (ATP) activity
2007-09-06 Added SYNONYM ribonucleic ligase activity
2002-11-27 Added DEFINITION Catalysis of the reaction: ATP + ribonucleotide (n) + ribonucleotide (m) = AMP + diphosphate + ribonucleotide (n+m).
Timestamp Action Category Detail
2008-04-01 Updated RELATION is a GO:0008452 (RNA ligase activity)
Timestamp Action Category Detail
2019-04-01 Added XREF Reactome:R-HSA-5696816
2019-04-01 Deleted XREF reactome:R-HSA-5696816
2018-12-11 Added XREF reactome:R-HSA-5696816
2009-05-21 Added XREF MetaCyc:RNA-LIGASE-ATP-RXN
2009-05-21 Deleted XREF MetaCyc:RNA-LIGASE-(ATP)-RXN
2003-10-27 Added XREF MetaCyc:RNA-LIGASE-(ATP)-RXN
2001-03-30 Added XREF EC:6.5.1.3
Timestamp Action Category Detail
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