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TitleAn SI3-σ arch stabilizes cyanobacteria transcription initiation complex.
Journal, issue, pagesProc Natl Acad Sci U S A, Vol. 120, Issue 16, Page e2219290120, Year 2023
Publish dateApr 18, 2023
AuthorsLiqiang Shen / Giorgio Lai / Linlin You / Jing Shi / Xiaoxian Wu / Maria Puiu / Zhanxi Gu / Yu Feng / Yulia Yuzenkova / Yu Zhang /
PubMed AbstractMultisubunit RNA polymerases (RNAPs) associate with initiation factors (σ in bacteria) to start transcription. The σ factors are responsible for recognizing and unwinding promoter DNA in all ...Multisubunit RNA polymerases (RNAPs) associate with initiation factors (σ in bacteria) to start transcription. The σ factors are responsible for recognizing and unwinding promoter DNA in all bacterial RNAPs. Here, we report two cryo-EM structures of cyanobacterial transcription initiation complexes at near-atomic resolutions. The structures show that cyanobacterial RNAP forms an "SI3-σ" arch interaction between domain 2 of σ (σ) and sequence insertion 3 (SI3) in the mobile catalytic domain Trigger Loop (TL). The "SI3-σ" arch facilitates transcription initiation from promoters of different classes through sealing the main cleft and thereby stabilizing the RNAP-promoter DNA open complex. Disruption of the "SI3-σ" arch disturbs cyanobacteria growth and stress response. Our study reports the structure of cyanobacterial RNAP and a unique mechanism for its transcription initiation. Our data suggest functional plasticity of SI3 and provide the foundation for further research into cyanobacterial and chloroplast transcription.
External linksProc Natl Acad Sci U S A / PubMed:37036976 / PubMed Central
MethodsEM (single particle) / X-ray diffraction
Resolution1.552 - 3.13 Å
Structure data

34397

8gzg

EMDB-34397, PDB-8gzg:
Cryo-EM structure of Synechocystis sp. PCC 6803 RPitc
Method: EM (single particle) / Resolution: 3.13 Å

34398

8gzh

EMDB-34398, PDB-8gzh:
Cryo-EM structure of Synechocystis sp. PCC 6803 CTP-bound RPitc
Method: EM (single particle) / Resolution: 2.96 Å

PDB-8h02:
Crystal structure of Synechococcus elongatus PCC 7942 RNA polymerase SI3-tail
Method: X-RAY DIFFRACTION / Resolution: 1.552 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-ZN:
Unknown entry

ChemComp-CTP:
CYTIDINE-5'-TRIPHOSPHATE

ChemComp-HOH:
WATER

Source
  • synechocystis sp. pcc 6803 (bacteria)
  • synthetic construct (others)
  • synechococcus elongatus (strain pcc 7942 / fachb-805) (bacteria)
KeywordsTRANSCRIPTION/DNA/RNA / Cryo-EM / Synechocystis sp. PCC 6803 / Syn6803 / Transcription initiation / RPitc / Transcription / Cyanobacteria / TRANSCRIPTION-DNA-RNA complex / CTP-bound RPitc / RNA polymerase / SI3

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