5XYN

The crystal structure of Csm2-Psy3-Shu1-Shu2 complex from budding yeast


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 

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This is version 1.2 of the entry. See complete history


Literature

Structural basis for the functional role of the Shu complex in homologous recombination.

Zhang, S.Wang, L.Tao, Y.Bai, T.Lu, R.Zhang, T.Chen, J.Ding, J.

(2017) Nucleic Acids Res 45: 13068-13079

  • DOI: https://doi.org/10.1093/nar/gkx992
  • Primary Citation of Related Structures:  
    5XYN

  • PubMed Abstract: 

    The Shu complex, a conserved regulator consisting of Csm2, Psy3, Shu1 and Shu2 in budding yeast, plays an important role in the assembly of the Rad51-ssDNA filament in homologous recombination. However, the molecular basis for the assembly of the Shu complex and its functional role in DNA repair is still elusive. Here, we report the crystal structure of the yeast Shu complex, revealing that Csm2, Psy3, Shu1 and Shu2 interact with each other in sequence to form a V-shape overall structure. Shu1 adopts a structure resembling the ATPase core domain of Rad51 and represents a new Rad51 paralog. Shu2 assumes a novel structural fold consisting of a conserved zinc-finger containing SWIM domain and a small insertion domain. The functional roles of the key residues are validated using mutagenesis and in vitro pull-down and in vivo yeast growth studies. Structural analysis together with available biological data identifies two potential DNA-binding sites, one of which might be responsible for binding the ssDNA region of the 3'-overhang DNA and the other for the dsDNA region. Collectively, these findings reveal the molecular basis for the assembly of the Shu complex and shed new insight on its functional role in homologous recombination.


  • Organizational Affiliation

    State Key Laboratory of Molecular Biology, National Center for Protein Science Shanghai, Shanghai Science Research Center, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, University of Chinese Academy of Sciences, Chinese Academy of Sciences; 333 Haike Road, Shanghai 201210, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Platinum sensitivity protein 3244Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: PSY3YLR376CL8039.17
UniProt
Find proteins for Q12318 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  Q12318
Entity Groups  
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UniProt GroupQ12318
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome segregation in meiosis protein 2213Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSM2YIL132C
UniProt
Find proteins for P40465 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P40465
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UniProt GroupP40465
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Suppressor of HU sensitivity involved in recombination protein 1150Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SHU1YHL006C
UniProt
Find proteins for P38751 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38751 
Go to UniProtKB:  P38751
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UniProt GroupP38751
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Suppressor of hydroxyurea sensitivity protein 2223Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SHU2YDR078CD4436
UniProt
Find proteins for P38957 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38957 
Go to UniProtKB:  P38957
Entity Groups  
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UniProt GroupP38957
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
E [auth D]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 174.24α = 90
b = 174.24β = 90
c = 102.87γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000data scaling
PDB_EXTRACTdata extraction
PHENIXphasing
HKL-3000data reduction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31521061
Chinese Academy of SciencesChinaXDB08010302
Ministry of Science and Technology of ChinaChina2013CB910404

Revision History  (Full details and data files)

  • Version 1.0: 2017-11-08
    Type: Initial release
  • Version 1.1: 2017-12-27
    Changes: Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references