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TitleStructural basis of eukaryotic transcription termination by the Rat1 exonuclease complex.
Journal, issue, pagesNat Commun, Vol. 15, Issue 1, Page 7854, Year 2024
Publish dateSep 8, 2024
AuthorsTatsuo Yanagisawa / Yuko Murayama / Haruhiko Ehara / Mie Goto / Mari Aoki / Shun-Ichi Sekine /
PubMed AbstractThe 5´-3´ exoribonuclease Rat1/Xrn2 is responsible for the termination of eukaryotic mRNA transcription by RNAPII. Rat1 forms a complex with its partner proteins, Rai1 and Rtt103, and acts as a ...The 5´-3´ exoribonuclease Rat1/Xrn2 is responsible for the termination of eukaryotic mRNA transcription by RNAPII. Rat1 forms a complex with its partner proteins, Rai1 and Rtt103, and acts as a "torpedo" to bind transcribing RNAPII and dissociate DNA/RNA from it. Here we report the cryo-electron microscopy structures of the Rat1-Rai1-Rtt103 complex and three Rat1-Rai1-associated RNAPII complexes (type-1, type-1b, and type-2) from the yeast, Komagataella phaffii. The Rat1-Rai1-Rtt103 structure revealed that Rat1 and Rai1 form a heterotetramer with a single Rtt103 bound between two Rai1 molecules. In the type-1 complex, Rat1-Rai1 forms a heterodimer and binds to the RNA exit site of RNAPII to extract RNA into the Rat1 exonuclease active site. This interaction changes the RNA path in favor of termination (the "pre-termination" state). The type-1b and type-2 complexes have no bound DNA/RNA, likely representing the "post-termination" states. These structures illustrate the termination mechanism of eukaryotic mRNA transcription.
External linksNat Commun / PubMed:39245712 / PubMed Central
MethodsEM (single particle)
Resolution3.3 - 3.78 Å
Structure data

39211

8yf5

EMDB-39211, PDB-8yf5:
Cryo EM structure of Komagataella phaffii Rat1-Rai1-Rtt103 complex
Method: EM (single particle) / Resolution: 3.78 Å

39221

8yfe

EMDB-39221, PDB-8yfe:
Cryo EM structure of Komagataella phaffii Rat1-Rai1 complex
Method: EM (single particle) / Resolution: 3.47 Å

39226

8yfq

EMDB-39226, PDB-8yfq:
Cryo EM structure of Komagataella phaffii RNAPII-Rat1-Rai1 pre-termination complex
Method: EM (single particle) / Resolution: 3.3 Å

39227

8yfr

EMDB-39227, PDB-8yfr:
Cryo EM structure of Komagataella phaffii Rat1-Rai1 complex bound within the RNAPII cleft
Method: EM (single particle) / Resolution: 3.4 Å

Chemicals

ChemComp-ZN:
Unknown entry

ChemComp-MG:
Unknown entry

Source
  • komagataella phaffii (fungus)
  • synthetic construct (others)
KeywordsTRANSCRIPTION / transcription termination / RNA polymerase II

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