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TitleStructural and biochemical characterization of the 3'-5' tRNA splicing ligases.
Journal, issue, pagesJ Biol Chem, Vol. 301, Issue 5, Page 108506, Year 2025
Publish dateApr 10, 2025
AuthorsSebastian Chamera / Weronika Zajko / Mariusz Czarnocki-Cieciura / Marcin Jaciuk / Łukasz Koziej / Jakub Nowak / Krzysztof Wycisk / Małgorzata Sroka / Andrzej Chramiec-Głąbik / Mirosław Śmietański / Filip Gołębiowski / Marcin Warmiński / Jacek Jemielity / Sebastian Glatt / Marcin Nowotny /
PubMed AbstractIn archaea and metazoa, tRNA exons are ligated by the RNA ligases RtcB and RTCB, respectively. The metazoan RTCB forms a stable complex with four additional subunits, DDX1, FAM98B, CGI99, and ASHWIN. ...In archaea and metazoa, tRNA exons are ligated by the RNA ligases RtcB and RTCB, respectively. The metazoan RTCB forms a stable complex with four additional subunits, DDX1, FAM98B, CGI99, and ASHWIN. The role and assembly of these four components remain elusive. Furthermore, we lack structural information of how RNA substrates are recognized by 3'-5' tRNA ligases. Here, we use thiol-based chemical crosslinking to confirm the involvement of specific residues of RtcB in RNA binding, and we present a cryo-EM structure of the purified five-subunit Danio rerio tRNA ligase complex. The structure implies that the DDX1 helicase module is mobile and can modulate the activity of RTCB. Taken together, the presented results enhance our mechanistic understanding of RNA binding by 3'-5' tRNA splicing ligases and architecture of the metazoan tRNA ligase complex.
External linksJ Biol Chem / PubMed:40220997 / PubMed Central
MethodsEM (single particle)
Resolution3.33 - 6.32 Å
Structure data

EMDB-50108: Medium-resolution cryo-EM structure of the Danio rerio tRNA ligase complex
Method: EM (single particle) / Resolution: 6.32 Å

52744

9i8v

EMDB-52744, PDB-9i8v:
Cryo-EM structure of the Danio rerio tRNA ligase complex
Method: EM (single particle) / Resolution: 3.33 Å

Source
  • danio rerio (zebrafish)
KeywordsLIGASE / tRNA ligase complex / RTCB / tRNA / tRNA maturation / tRNA splicing / RNA BINDING PROTEIN

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