4EQ6

The crystal structure of Psy3-Csm2 complex from budding yeast

• PDB DOI: https://doi.org/10.2210/pdb4EQ6/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Saccharomyces cerevisiae S288C
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-04-18 Released: 2012-08-01 
• Deposition Author(s): She, Z., Gao, Z.Q., Dong, Y.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.228 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 

Literature

Structural and SAXS analysis of the budding yeast SHU-complex proteins

She, Z., Gao, Z.Q., Liu, Y., Wang, W.J., Liu, G.F., Shtykova, E.V., Xu, J.H., Dong, Y.H.

(2012) FEBS Lett 586: 2306-2312

• PubMed: 22749910 
• DOI: https://doi.org/10.1016/j.febslet.2012.06.024
• Primary Citation of Related Structures:  
  4EQ6


• PubMed Abstract: 
  

  In Saccharomyces cerevisiae, four proteins, Shu1, Shu2, Psy3 and Csm2, form a stable SHU-complex both in vivo and in vitro. These proteins are involved in the early stages of the homologous recombination DNA damage repair process. In this paper, the crystal structure of the Psy3-Csm2 sub-complex is presented at 1.8Å resolution and successfully fitted into our small angle X-ray scattering (SAXS) data of the SHU-complex. Taken together with our electrophoretic mobility shift assay (EMSA) results, a model is proposed for the SHU-protein complex coupled with DNA.

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Organizational Affiliation: 

Beijing Synchrotron Radiation Facility, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 54.96 kDa 
• Atom Count: 3,337 
• Modelled Residue Count: 402 
• Deposited Residue Count: 470 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chromosome segregation in meiosis protein 2	A	214	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: CSM2, YIL132C
UniProt
Find proteins for P40465 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40465  Go to UniProtKB:  P40465

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Platinum sensitivity protein 3	B	256	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: PSY3, YLR376C, L8039.17
UniProt
Find proteins for Q12318 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12318  Go to UniProtKB:  Q12318

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.228 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 135.333	α = 90
b = 51.162	β = 103.02
c = 77.049	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
SOLVE	phasing
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-08-01 
Deposition Author(s): She, Z., Gao, Z.Q., Dong, Y.H.

Revision History  

• Version 1.0: 2012-08-01
  Type: Initial release
  
• Version 1.1: 2024-03-20
  Changes: Data collection, Database references