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Structure paper

TitleG-quadruplex-stalled eukaryotic replisome structure reveals helical inchworm DNA translocation.
Journal, issue, pagesScience, Vol. 387, Issue 6738, Page eadt1978, Year 2025
Publish dateMar 7, 2025
AuthorsSahil Batra / Benjamin Allwein / Charanya Kumar / Sujan Devbhandari / Jan-Gert Brüning / Soon Bahng / Chong M Lee / Kenneth J Marians / Richard K Hite / Dirk Remus /
PubMed AbstractDNA G-quadruplexes (G4s) are non-B-form DNA secondary structures that threaten genome stability by impeding DNA replication. To elucidate how G4s induce replication fork arrest, we characterized fork ...DNA G-quadruplexes (G4s) are non-B-form DNA secondary structures that threaten genome stability by impeding DNA replication. To elucidate how G4s induce replication fork arrest, we characterized fork collisions with preformed G4s in the parental DNA using reconstituted yeast and human replisomes. We demonstrate that a single G4 in the leading strand template is sufficient to stall replisomes by arresting the CMG helicase. Cryo-electron microscopy structures of stalled yeast and human CMG complexes reveal that the folded G4 is lodged inside the central CMG channel, arresting translocation. The G4 stabilizes the CMG at distinct translocation intermediates, suggesting an unprecedented helical inchworm mechanism for DNA translocation. These findings illuminate the eukaryotic replication fork mechanism under normal and perturbed conditions.
External linksScience / PubMed:40048517
MethodsEM (single particle)
Resolution2.41 - 4.3 Å
Structure data

47470

9e2w

EMDB-47470, PDB-9e2w:
Cryo-EM structure of yeast CMG helicase stalled at G4-containing DNA template, state 1
Method: EM (single particle) / Resolution: 3.3 Å

47471

9e2x

EMDB-47471, PDB-9e2x:
Cryo-EM structure of yeast CMG helicase stalled at G4-containing DNA template, state 2
Method: EM (single particle) / Resolution: 3.5 Å

47472

9e2y

EMDB-47472, PDB-9e2y:
Cryo-EM structure of yeast CMG helicase stalled at G4-containing DNA template, state 3
Method: EM (single particle) / Resolution: 3.2 Å

47473

9e2z

EMDB-47473, PDB-9e2z:
Cryo-EM structure of human CMG helicase stalled at G4-containing DNA template
Method: EM (single particle) / Resolution: 2.6 Å

EMDB-47747: C-tier local refinement of human CMG G4 stall state
Method: EM (single particle) / Resolution: 2.46 Å

EMDB-47748: N-tier local refinement of human CMG G4 stall state
Method: EM (single particle) / Resolution: 2.53 Å

EMDB-47749: Cdc45-GINS local refinement of human CMG G4 stall state
Method: EM (single particle) / Resolution: 2.41 Å

EMDB-47751: Yeast CMG-CTM G4 stall state 1 C-tier local refinement
Method: EM (single particle) / Resolution: 3.15 Å

EMDB-47753: Yeast CMG G4 stall state 1, N-tier local refinement
Method: EM (single particle) / Resolution: 3.06 Å

EMDB-47754: Yeast CMG G4 stall state 1 Cdc45-GINS local refinement
Method: EM (single particle) / Resolution: 3.12 Å

EMDB-47755: Yeast CMG G4 stall state 1 Tof1-Csm3 local refinement
Method: EM (single particle) / Resolution: 3.16 Å

EMDB-47757: C-tier local refinement of yeast CMG G4 stall state 2
Method: EM (single particle) / Resolution: 3.61 Å

EMDB-47758: N-tier local refinement of yeast CMG G4 stall state 2
Method: EM (single particle) / Resolution: 3.28 Å

EMDB-47759: Cdc45-GINS local refinement of yeast CMG G4 stall state 2
Method: EM (single particle) / Resolution: 3.45 Å

EMDB-47760: Tof1-Csm3 local refinement of yeast CMG G4 stall state 2
Method: EM (single particle) / Resolution: 4.3 Å

EMDB-47762: C-tier local refinement of yeast CMG G4 stall state 3
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-47763: N-tier focused refinement of yeast CMG G4 stall state 3
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-47764: Cdc45-GINS local refinement of yeast CMG G4 stall state 3
Method: EM (single particle) / Resolution: 3.11 Å

EMDB-47915: Consensus refinement of yeast CMG G4 stall state 2
Method: EM (single particle) / Resolution: 3.5 Å

EMDB-47916: Consensus refinement of human CMG G4 stall state
Method: EM (single particle) / Resolution: 2.6 Å

EMDB-47925: Consensus refinement of yeast CMG G4 stall state 1
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-47926: Consensus refinement of yeast CMG G4 stall state 3
Method: EM (single particle) / Resolution: 3.2 Å

Chemicals

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

ChemComp-ZN:
Unknown entry

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM

ChemComp-K:
Unknown entry

ChemComp-HOH:
WATER

Source
  • saccharomyces cerevisiae w303 (yeast)
  • synthetic construct (others)
  • homo sapiens (human)
KeywordsREPLICATION/DNA / helicase / DNA replication / cell division / fork stalling / translocation / REPLICATION / REPLICATION-DNA complex

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