7PMN image
Deposition Date 2021-09-02
Release Date 2021-11-10
Last Version Date 2024-07-17
Entry Detail
PDB ID:
7PMN
Keywords:
Title:
S. cerevisiae replisome-SCF(Dia2) complex bound to double-stranded DNA (conformation II)
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.20 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DNA replication licensing factor MCM2
Gene (Uniprot):MCM2
Chain IDs:A (auth: 2)
Chain Length:868
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication licensing factor MCM3
Gene (Uniprot):MCM3
Chain IDs:B (auth: 3)
Chain Length:1009
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication licensing factor MCM4
Gene (Uniprot):MCM4
Chain IDs:C (auth: 4)
Chain Length:933
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Minichromosome maintenance protein 5
Gene (Uniprot):MCM5
Chain IDs:D (auth: 5)
Chain Length:775
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication licensing factor MCM6
Gene (Uniprot):MCM6
Chain IDs:E (auth: 6)
Chain Length:1017
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication licensing factor MCM7
Gene (Uniprot):MCM7
Chain IDs:F (auth: 7)
Chain Length:845
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication complex GINS protein PSF1
Gene (Uniprot):PSF1
Chain IDs:G (auth: A)
Chain Length:208
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication complex GINS protein PSF2
Gene (Uniprot):PSF2
Chain IDs:H (auth: B)
Chain Length:213
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication complex GINS protein PSF3
Chain IDs:I (auth: C)
Chain Length:194
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA replication complex GINS protein SLD5
Gene (Uniprot):SLD5
Chain IDs:J (auth: D)
Chain Length:294
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Cell division control protein 45,Cell division control protein 45
Gene (Uniprot):CDC45
Chain IDs:K (auth: E)
Chain Length:657
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA polymerase alpha-binding protein
Gene (Uniprot):CTF4
Chain IDs:L (auth: F), M (auth: G), N (auth: H)
Chain Length:962
Number of Molecules:3
Biological Source:Saccharomyces cerevisiae
Polymer Type:polydeoxyribonucleotide
Molecule:Leading strand template DNA
Chain IDs:O (auth: I)
Chain Length:115
Number of Molecules:1
Biological Source:Synthetic construct
Polymer Type:polydeoxyribonucleotide
Molecule:Lagging strand template DNA
Chain IDs:P (auth: J)
Chain Length:122
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Suppressor of kinetochore protein 1
Gene (Uniprot):SKP1
Chain IDs:Q (auth: K)
Chain Length:194
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Protein DIA2
Gene (Uniprot):DIA2
Chain IDs:R (auth: L)
Chain Length:735
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA polymerase epsilon catalytic subunit A
Gene (Uniprot):POL2
Chain IDs:S (auth: Q)
Chain Length:2222
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:DNA polymerase epsilon subunit B
Gene (Uniprot):DPB2
Chain IDs:T (auth: R)
Chain Length:689
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Topoisomerase 1-associated factor 1
Gene (Uniprot):TOF1
Chain IDs:U (auth: X)
Chain Length:1238
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polypeptide(L)
Molecule:Chromosome segregation in meiosis protein 3
Gene (Uniprot):CSM3
Chain IDs:V (auth: Y)
Chain Length:319
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Primary Citation
A conserved mechanism for regulating replisome disassembly in eukaryotes.
Nature 600 743 747 (2021)
PMID: 34700328 DOI: 10.1038/s41586-021-04145-3

Abstact

Replisome disassembly is the final step of eukaryotic DNA replication and is triggered by ubiquitylation of the CDC45-MCM-GINS (CMG) replicative helicase1-3. Despite being driven by evolutionarily diverse E3 ubiquitin ligases in different eukaryotes (SCFDia2 in budding yeast1, CUL2LRR1 in metazoa4-7), replisome disassembly is governed by a common regulatory principle, in which ubiquitylation of CMG is suppressed before replication termination, to prevent replication fork collapse. Recent evidence suggests that this suppression is mediated by replication fork DNA8-10. However, it is unknown how SCFDia2 and CUL2LRR1 discriminate terminated from elongating replisomes, to selectively ubiquitylate CMG only after termination. Here we used cryo-electron microscopy to solve high-resolution structures of budding yeast and human replisome-E3 ligase assemblies. Our structures show that the leucine-rich repeat domains of Dia2 and LRR1 are structurally distinct, but bind to a common site on CMG, including the MCM3 and MCM5 zinc-finger domains. The LRR-MCM interaction is essential for replisome disassembly and, crucially, is occluded by the excluded DNA strand at replication forks, establishing the structural basis for the suppression of CMG ubiquitylation before termination. Our results elucidate a conserved mechanism for the regulation of replisome disassembly in eukaryotes, and reveal a previously unanticipated role for DNA in preserving replisome integrity.

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