6S1C

P3221 crystal form of the Ctf18-1-8/Pol2(1-528) complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.10 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.275 
  • R-Value Observed: 0.280 

Starting Models: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Ctf18-RFC and DNA Pol ε form a stable leading strand polymerase/clamp loader complex required for normal and perturbed DNA replication.

Stokes, K.Winczura, A.Song, B.Piccoli, G.Grabarczyk, D.B.

(2020) Nucleic Acids Res 48: 8128-8145

  • DOI: https://doi.org/10.1093/nar/gkaa541
  • Primary Citation of Related Structures:  
    6S1C, 6S2E, 6S2F

  • PubMed Abstract: 

    The eukaryotic replisome must faithfully replicate DNA and cope with replication fork blocks and stalling, while simultaneously promoting sister chromatid cohesion. Ctf18-RFC is an alternative PCNA loader that links all these processes together by an unknown mechanism. Here, we use integrative structural biology combined with yeast genetics and biochemistry to highlight the specific functions that Ctf18-RFC plays within the leading strand machinery via an interaction with the catalytic domain of DNA Pol ϵ. We show that a large and unusually flexible interface enables this interaction to occur constitutively throughout the cell cycle and regardless of whether forks are replicating or stalled. We reveal that, by being anchored to the leading strand polymerase, Ctf18-RFC can rapidly signal fork stalling to activate the S phase checkpoint. Moreover, we demonstrate that, independently of checkpoint signaling or chromosome cohesion, Ctf18-RFC functions in parallel to Chl1 and Mrc1 to protect replication forks and cell viability.


  • Organizational Affiliation

    University of Warwick, Warwick Medical School, Coventry, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA polymerase epsilon catalytic subunit AA,
B [auth E]
549Saccharomyces cerevisiae S288CMutation(s): 2 
Gene Names: POL2DUN2YNL262WN0825
EC: 2.7.7.7 (PDB Primary Data), 3.1.11 (UniProt)
UniProt
Find proteins for P21951 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P21951 
Go to UniProtKB:  P21951
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP21951
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Sister chromatid cohesion protein DCC1C [auth B],
F
380Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: DCC1YCL016CYCL16C
UniProt
Find proteins for P25559 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P25559 
Go to UniProtKB:  P25559
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25559
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome transmission fidelity protein 8D [auth C],
G
133Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CTF8YHR191C
UniProt
Find proteins for P38877 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38877 
Go to UniProtKB:  P38877
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP38877
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome transmission fidelity protein 18E [auth D],
H
33Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CTF18CHL12YMR078CYM9582.03C
UniProt
Find proteins for P49956 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P49956 
Go to UniProtKB:  P49956
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49956
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.10 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.275 
  • R-Value Observed: 0.280 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 126.334α = 90
b = 126.334β = 90
c = 378.427γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanyGR 5152/3-1

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-08
    Type: Initial release
  • Version 1.1: 2021-01-20
    Changes: Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description
  • Version 1.3: 2024-11-20
    Changes: Structure summary