6DEI

Structure of Dse3-Csm1 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

The budding-yeast RWD protein Csm1 scaffolds diverse protein complexes through a conserved structural mechanism.

Singh, N.Corbett, K.D.

(2018) Protein Sci 27: 2094-2100

  • DOI: https://doi.org/10.1002/pro.3515
  • Primary Citation of Related Structures:  
    6DEI

  • PubMed Abstract: 

    RWD domains mediate protein-protein interactions in a variety of pathways in eukaryotes. In budding yeast, the RWD domain protein Csm1 is particularly versatile, assembling key complexes in the nucleolus and at meiotic kinetochores through multiple protein interaction surfaces. Here, we reveal a third functional context for Csm1 by identifying a new Csm1-interacting protein, Dse3. We show that Dse3 interacts with Csm1 in a structurally equivalent manner to its known binding partners Mam1 and Ulp2, despite these three proteins' lack of overall sequence homology. We theorize that the unique "clamp" structure of Csm1 and the loose sequence requirements for Csm1 binding have led to its incorporation into at least three different structural/signaling pathways in budding yeast.


  • Organizational Affiliation

    Ludwig Institute for Cancer Research, San Diego Branch, La Jolla, California, 92093.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Monopolin complex subunit CSM1
A, B
113Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSM1SPO86YCR086WYCR86W
UniProt
Find proteins for P25651 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P25651 
Go to UniProtKB:  P25651
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25651
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein DSE3
C, D
24Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: DSE3YOR264W
UniProt
Find proteins for Q08729 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q08729 
Go to UniProtKB:  Q08729
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ08729
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 41.442α = 90
b = 51.235β = 90
c = 117.848γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

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 StatesR01GM104141

Revision History  (Full details and data files)

  • Version 1.0: 2018-10-03
    Type: Initial release
  • Version 1.1: 2018-10-10
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2018-11-14
    Changes: Data collection, Database references, Structure summary
  • Version 1.3: 2018-11-28
    Changes: Data collection, Database references
  • Version 1.4: 2020-01-01
    Changes: Author supporting evidence
  • Version 1.5: 2023-10-11
    Changes: Data collection, Database references, Refinement description