7M3P

Xrcc4-Spc110p(164-207) fusion


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

CM1-driven assembly and activation of yeast gamma-tubulin small complex underlies microtubule nucleation.

Brilot, A.F.Lyon, A.S.Zelter, A.Viswanath, S.Maxwell, A.MacCoss, M.J.Muller, E.G.Sali, A.Davis, T.N.Agard, D.A.

(2021) Elife 10

  • DOI: https://doi.org/10.7554/eLife.65168
  • Primary Citation of Related Structures:  
    7M2W, 7M2X, 7M2Y, 7M2Z, 7M3P

  • PubMed Abstract: 

    Microtubule (MT) nucleation is regulated by the γ-tubulin ring complex (γTuRC), conserved from yeast to humans. In Saccharomyces cerevisiae , γTuRC is composed of seven identical γ-tubulin small complex (γTuSC) sub-assemblies, which associate helically to template MT growth. γTuRC assembly provides a key point of regulation for the MT cytoskeleton. Here, we combine crosslinking mass spectrometry, X-ray crystallography, and cryo-EM structures of both monomeric and dimeric γTuSCs, and open and closed helical γTuRC assemblies in complex with Spc110p to elucidate the mechanisms of γTuRC assembly. γTuRC assembly is substantially aided by the evolutionarily conserved CM1 motif in Spc110p spanning a pair of adjacent γTuSCs. By providing the highest resolution and most complete views of any γTuSC assembly, our structures allow phosphorylation sites to be mapped, surprisingly suggesting that they are mostly inhibitory. A comparison of our structures with the CM1 binding site in the human γTuRC structure at the interface between GCP2 and GCP6 allows for the interpretation of significant structural changes arising from CM1 helix binding to metazoan γTuRC.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Xrcc4-Spc110p(164-207)
A, B
183Homo sapiensSaccharomyces cerevisiae
This entity is chimeric
Mutation(s): 0 
Gene Names: XRCC4SCNYR20_0001052900SCP684_0001052400
UniProt & NIH Common Fund Data Resources
Find proteins for P32380 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32380 
Go to UniProtKB:  P32380
Find proteins for Q13426 (Homo sapiens)
Explore Q13426 
Go to UniProtKB:  Q13426
PHAROS:  Q13426
GTEx:  ENSG00000152422 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsQ13426P32380
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.131α = 100.804
b = 52.168β = 94.148
c = 55.916γ = 112.831
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
PHASERphasing
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United StatesDavid Agard
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM031627
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35 GM118099
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP01 GM105537
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41 GM103533
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM083960
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM109824
National Science Foundation (NSF, United States)United States1144247
National Institutes of Health/Office of the DirectorUnited States1S10OD020054
National Institutes of Health/Office of the DirectorUnited States1S10OD021741
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM124149
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP30 GM124169
Department of Energy (DOE, United States)United StatesDE-AC02-05CH11231

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-12
    Type: Initial release
  • Version 1.1: 2021-05-19
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Database references, Refinement description