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 5U8S | pdb_00005u8s

Structure of eukaryotic CMG helicase at a replication fork


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.7 of the entry. See complete history. 

Literature

Structure of eukaryotic CMG helicase at a replication fork and implications to replisome architecture and origin initiation.

Georgescu, R., Yuan, Z., Bai, L., de Luna Almeida Santos, R., Sun, J., Zhang, D., Yurieva, O., Li, H., O'Donnell, M.E.

(2017) Proc Natl Acad Sci U S A 114: E697-E706

  • DOI: https://doi.org/10.1073/pnas.1620500114
  • Primary Citation Related Structures: 
    5U8S, 5U8T

  • PubMed Abstract: 

    The eukaryotic CMG (Cdc45, Mcm2-7, GINS) helicase consists of the Mcm2-7 hexameric ring along with five accessory factors. The Mcm2-7 heterohexamer, like other hexameric helicases, is shaped like a ring with two tiers, an N-tier ring composed of the N-terminal domains, and a C-tier of C-terminal domains; the C-tier contains the motor. In principle, either tier could translocate ahead of the other during movement on DNA. We have used cryo-EM single-particle 3D reconstruction to solve the structure of CMG in complex with a DNA fork. The duplex stem penetrates into the central channel of the N-tier and the unwound leading single-strand DNA traverses the channel through the N-tier into the C-tier motor, 5'-3' through CMG. Therefore, the N-tier ring is pushed ahead by the C-tier ring during CMG translocation, opposite the currently accepted polarity. The polarity of the N-tier ahead of the C-tier places the leading Pol ε below CMG and Pol α-primase at the top of CMG at the replication fork. Surprisingly, the new N-tier to C-tier polarity of translocation reveals an unforeseen quality-control mechanism at the origin. Thus, upon assembly of head-to-head CMGs that encircle double-stranded DNA at the origin, the two CMGs must pass one another to leave the origin and both must remodel onto opposite strands of single-stranded DNA to do so. We propose that head-to-head motors may generate energy that underlies initial melting at the origin.


  • Organizational Affiliation: 
    • Department of DNA Replication, The Rockefeller University, New York, NY 10065.

Macromolecule Content 

  • Total Structure Weight: 799.67 kDa 
  • Atom Count: 41,018 
  • Modeled Residue Count: 5,101 
  • Deposited Residue Count: 7,008 
  • Unique protein chains: 11
  • Unique nucleic acid chains: 2

Macromolecules


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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF1208Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PSF1, YDR013W, PZA208, YD8119.18
UniProt
Find proteins for Q12488 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupQ12488
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF2213Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PSF2, YJL072C, HRF213, J1086
UniProt
Find proteins for P40359 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF3194Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PSF3, YOL146W
UniProt
Find proteins for Q12146 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein SLD5294Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SLD5, YDR489W
UniProt
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Cell division control protein 45650Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CDC45, SLD4, YLR103C, L8004.11
UniProt
Find proteins for Q08032 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 8
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication licensing factor MCM2H [auth 2]868Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM2, YBL023C, YBL0438
EC: 3.6.4.12
UniProt
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Reference Sequence
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Entity ID: 9
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication licensing factor MCM3I [auth 3]971Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM3, YEL032W, SYGP-ORF23
EC: 3.6.4.12
UniProt
Find proteins for P24279 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 10
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication licensing factor MCM4J [auth 4]933Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM4, CDC54, HCD21, YPR019W, YP9531.13
EC: 3.6.4.12
UniProt
Find proteins for P30665 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 11
MoleculeChains  Sequence LengthOrganismDetailsImage
Minichromosome maintenance protein 5K [auth 5]775Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM5, CDC46, YLR274W, L9328.1
EC: 3.6.4.12
UniProt
Find proteins for P29496 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 12
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication licensing factor MCM6L [auth 6]1,017Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM6, YGL201C
EC: 3.6.4.12
UniProt
Find proteins for P53091 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 13
MoleculeChains  Sequence LengthOrganismDetailsImage
DNA replication licensing factor MCM7M [auth 7]845Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM7, CDC47, YBR202W, YBR1441
EC: 3.6.4.12
UniProt
Find proteins for P38132 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Reference Sequence
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Entity ID: 6
MoleculeChains LengthOrganismImage
DNA (26-MER)26synthetic construct
Sequence Annotations
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Reference Sequence
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Entity ID: 7
MoleculeChains LengthOrganismImage
DNA (5'-D(P*AP*TP*CP*GP*AP*TP*CP*GP*AP*TP*CP*GP*AP*T)-3')14synthetic construct
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM111472
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM115809

Revision History  (Full details and data files)

  • Version 1.0: 2017-01-25
    Type: Initial release
  • Version 1.1: 2017-02-01
    Changes: Database references
  • Version 1.2: 2017-02-08
    Changes: Database references
  • Version 1.3: 2017-09-20
    Changes: Author supporting evidence, Data collection
  • Version 1.4: 2017-11-08
    Changes: Derived calculations
  • Version 1.5: 2018-10-03
    Changes: Data collection, Refinement description
  • Version 1.6: 2020-01-01
    Changes: Author supporting evidence
  • Version 1.7: 2024-10-09
    Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary