HAMAP rule MF_03144
General rule information
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Accession | MF_03144 |
Dates | 9-MAR-2011 (Created) 19-NOV-2022 (Last updated, Version 11) |
Name | RtcB_euk |
Scope | Eukaryota |
Template | Q9Y3I0 (RTCB_HUMAN) |
Triggered by |
Propagated annotation
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Identifier, protein and gene names
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Identifier |
|
Protein name |
|
case <OC:Vertebrata>
Gene name |
|
end case
Comments
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Function | Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as an RNA ligase with broad substrate specificity, and may function toward other RNAs. |
Catalytic activity | RHEA:68076: a 3'-end 3'-phospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP
EC 6.5.1.8 |
RHEA:68080: a 3'-end 2',3'-cyclophospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP + H2O = a ribonucleotidyl-ribonucleotide-RNA + diphosphate + GMP + H(+)
EC 6.5.1.8 |
|
Cofactor | Mn(2+) Note: Binds 2 manganese ions per subunit |
Subunit | Catalytic component of the tRNA-splicing ligase complex. |
case <OC:Vertebrata>
Subcellular location | Cytoplasm. |
end case
Miscellaneous | Ligation probably proceeds through 3 nucleotidyl transfer steps, with 2',3'-cyclic phosphate termini being hydrolyzed to 3'-P termini in a step that precedes 3'-P activation with GMP. In the first nucleotidyl transfer step, RTCB reacts with GTP to form a covalent RTCB-histidine-GMP intermediate with release of PPi; in the second step, the GMP moiety is transferred to the RNA 3'-P; in the third step, the 5'-OH from the opposite RNA strand attacks the activated 3'-P to form a 3',5'-phosphodiester bond and release GMP. |
Similarity | Belongs to the RtcB family. |
Cross-references
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Keywords
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case <OC:Vertebrata>
end case
Gene Ontology
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GO:0072669; Cellular component: tRNA-splicing ligase complex.
GO:0016886; Molecular function: ligase activity, forming phosphoric ester bonds.
GO:0006388; Biological process: tRNA splicing, via endonucleolytic cleavage and ligation.
GO:0016886; Molecular function: ligase activity, forming phosphoric ester bonds.
GO:0006388; Biological process: tRNA splicing, via endonucleolytic cleavage and ligation.
Features
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From: RTCB_HUMAN (Q9Y3I0) | ||||||||||||
Key | From | To | Description | Tag | Condition | FTGroup | ||||||
BINDING | 226 | 230 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | N-H-Y-x-E | ||||||||
BINDING | 353 | 354 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | H-N | ||||||||
BINDING | 402 | 405 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | G-G-[TS]-M | ||||||||
BINDING | 428 | 431 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | H-G-[AS]-G | ||||||||
ACT_SITE | 428 | 428 | GMP-histidine intermediate | H | ||||||||
BINDING | 119 | 119 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="1 | D | ||||||||
BINDING | 122 | 122 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="1 | C | ||||||||
BINDING | 122 | 122 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="2 | C | ||||||||
BINDING | 227 | 227 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="1 | H | ||||||||
BINDING | 259 | 259 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="2 | H | ||||||||
BINDING | 353 | 353 | /ligand="Mn(2+)" /ligand_id="ChEBI:CHEBI:29035" /ligand_label="2 | H | ||||||||
BINDING | 409 | 409 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | S | ||||||||
BINDING | 504 | 504 | /ligand="GMP" /ligand_id="ChEBI:CHEBI:58115 | K |
Additional information
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Size range | 457-535 amino acids |
Related rules | None |
Fusion | None |