A0A1Y1JYW8 · A0A1Y1JYW8_PHOPY
- ProteinRNA-splicing ligase RtcB homolog
- StatusUniProtKB unreviewed (TrEMBL)
- Amino acids506 (go to sequence)
- Protein existenceInferred from homology
- Annotation score3/5
Function
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.
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.
Catalytic activity
- a 3'-end 2',3'-cyclophospho-ribonucleotide-RNA + a 5'-end dephospho-ribonucleoside-RNA + GTP + H2O = a ribonucleotidyl-ribonucleotide-RNA + GMP + diphosphate + H+
Cofactor
Note: Binds 2 manganese ions per subunit.
Features
Showing features for binding site, active site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 120 | Mn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Binding site | 123 | Mn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 123 | Mn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 227-231 | GMP (UniProtKB | ChEBI) | ||||
Sequence: NHYAE | ||||||
Binding site | 228 | Mn2+ 1 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 260 | Mn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 354 | Mn2+ 2 (UniProtKB | ChEBI) | ||||
Sequence: H | ||||||
Binding site | 354-355 | GMP (UniProtKB | ChEBI) | ||||
Sequence: HN | ||||||
Binding site | 403-406 | GMP (UniProtKB | ChEBI) | ||||
Sequence: GGTM | ||||||
Binding site | 410 | GMP (UniProtKB | ChEBI) | ||||
Sequence: S | ||||||
Active site | 429 | GMP-histidine intermediate | ||||
Sequence: H | ||||||
Binding site | 429-432 | GMP (UniProtKB | ChEBI) | ||||
Sequence: HGAG | ||||||
Binding site | 505 | GMP (UniProtKB | ChEBI) | ||||
Sequence: K |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | nucleus | |
Cellular Component | tRNA-splicing ligase complex | |
Molecular Function | GTP binding | |
Molecular Function | metal ion binding | |
Molecular Function | RNA ligase (ATP) activity | |
Molecular Function | RNA ligase (GTP) activity | |
Biological Process | tRNA splicing, via endonucleolytic cleavage and ligation |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameRNA-splicing ligase RtcB homolog
- EC number
- Alternative names
Gene names
Organism names
- Strain
- Taxonomic lineageEukaryota > Metazoa > Ecdysozoa > Arthropoda > Hexapoda > Insecta > Pterygota > Neoptera > Endopterygota > Coleoptera > Polyphaga > Elateriformia > Elateroidea > Lampyridae > Lampyrinae > Photinus
Accessions
- Primary accessionA0A1Y1JYW8
Proteomes
Subcellular Location
UniProt Annotation
GO Annotation
Interaction
Subunit
Catalytic component of the tRNA-splicing ligase complex.
Structure
Sequence
- Sequence statusComplete
- Length506
- Mass (Da)55,665
- Last updated2017-08-30 v1
- Checksum2886B40A95B9FEBE
Keywords
- Technical term