2Q9Q

The crystal structure of full length human GINS complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.36 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.210 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of the GINS complex and functional insights into its role in DNA replication.

Chang, Y.P.Wang, G.Bermudez, V.Hurwitz, J.Chen, X.S.

(2007) Proc Natl Acad Sci U S A 104: 12685-12690

  • DOI: https://doi.org/10.1073/pnas.0705558104
  • Primary Citation of Related Structures:  
    2Q9Q

  • PubMed Abstract: 

    The GINS complex, which contains the four subunits Sld5, Psf1, Psf2, and Psf3, is essential for both the initiation and progression of DNA replication in eukaryotes. GINS associates with the MCM2-7 complex and Cdc45 to activate the eukaryotic minichromosome maintenance helicase. It also appears to interact with and stimulate the polymerase activities of DNA polymerase epsilon and the DNA polymerase alpha-primase complex. To further understand the functional role of GINS, we determined the crystal structure of the full-length human GINS heterotetramer. Each of the four subunits has a major domain composed of an alpha-helical bundle-like structure. With the exception of Psf1, each of the other subunits has a small domain containing a three-stranded beta-sheet core. Each full-length protein in the crystal has unstructured regions that are all located on the surface of GINS and are probably involved in its interaction with other replication factors. The four subunits contact each other mainly through alpha-helices to form a ring-like tetramer with a central pore. This pore is partially plugged by a 16-residue peptide from the Psf3 N terminus, which is unique to some eukaryotic Psf3 proteins and is not required for tetramer formation. Removal of these N-terminal 16 residues of Psf3 from the GINS tetramer increases the opening of the pore by 80%, suggesting a mechanism by which accessibility to the pore may be regulated. The structural data presented here indicate that the GINS tetramer is a highly stable complex with multiple flexible surface regions.


  • Organizational Affiliation

    Graduate Program in Genetic, Molecular, and Cell Biology, and Section of Molecular and Computational Biology, University of Southern California, Los Angeles, CA 90089, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF2
A, E
191Homo sapiensMutation(s): 0 
Gene Names: GINS2PSF2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y248 (Homo sapiens)
Explore Q9Y248 
Go to UniProtKB:  Q9Y248
PHAROS:  Q9Y248
GTEx:  ENSG00000131153 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y248
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
GINS complex subunit 4
B, F
223Homo sapiensMutation(s): 0 
Gene Names: GINS4
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BRT9 (Homo sapiens)
Explore Q9BRT9 
Go to UniProtKB:  Q9BRT9
PHAROS:  Q9BRT9
GTEx:  ENSG00000147536 
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UniProt GroupQ9BRT9
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA replication complex GINS protein PSF1
C, G
196Homo sapiensMutation(s): 1 
Gene Names: GINS1KIAA0186PSF1
UniProt & NIH Common Fund Data Resources
Find proteins for Q14691 (Homo sapiens)
Explore Q14691 
Go to UniProtKB:  Q14691
PHAROS:  Q14691
GTEx:  ENSG00000101003 
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UniProt GroupQ14691
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
GINS complex subunit 3
D, H
220Homo sapiensMutation(s): 0 
Gene Names: GINS3
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BRX5 (Homo sapiens)
Explore Q9BRX5 
Go to UniProtKB:  Q9BRX5
PHAROS:  Q9BRX5
GTEx:  ENSG00000181938 
Entity Groups  
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UniProt GroupQ9BRX5
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.36 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.210 
  • R-Value Observed: 0.210 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.269α = 105.02
b = 89.096β = 103.58
c = 103.8γ = 95.07
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
SHARPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-08-07
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Data collection, Database references