8Q85

Outer kinetochore Dam1 protomer monomer Ndc80-Nuf2 coiled-coil complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.97 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural mechanism of outer kinetochore Dam1-Ndc80 complex assembly on microtubules.

Muir, K.W.Batters, C.Dendooven, T.Yang, J.Zhang, Z.Burt, A.Barford, D.

(2023) Science 382: 1184-1190

  • DOI: https://doi.org/10.1126/science.adj8736
  • Primary Citation of Related Structures:  
    8Q84, 8Q85

  • PubMed Abstract: 

    Kinetochores couple chromosomes to the mitotic spindle to segregate the genome during cell division. An error correction mechanism drives the turnover of kinetochore-microtubule attachments until biorientation is achieved. The structural basis for how kinetochore-mediated chromosome segregation is accomplished and regulated remains an outstanding question. In this work, we describe the cryo-electron microscopy structure of the budding yeast outer kinetochore Ndc80 and Dam1 ring complexes assembled onto microtubules. Complex assembly occurs through multiple interfaces, and a staple within Dam1 aids ring assembly. Perturbation of key interfaces suppresses yeast viability. Force-rupture assays indicated that this is a consequence of impaired kinetochore-microtubule attachment. The presence of error correction phosphorylation sites at Ndc80-Dam1 ring complex interfaces and the Dam1 staple explains how kinetochore-microtubule attachments are destabilized and reset.


  • Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Kinetochore protein NDC80A [auth F]691Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: NDC80
UniProt
Find proteins for P40460 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P40460 
Go to UniProtKB:  P40460
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP40460
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Kinetochore protein NUF2B [auth G]451Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: NUF2
UniProt
Find proteins for P33895 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P33895 
Go to UniProtKB:  P33895
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP33895
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DAM1C [auth U]343Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DAM1
UniProt
Find proteins for P53267 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P53267 
Go to UniProtKB:  P53267
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP53267
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DUO1D [auth V]247Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DUO1
UniProt
Find proteins for P53168 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P53168 
Go to UniProtKB:  P53168
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP53168
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DAD2E [auth W]133Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DAD2
UniProt
Find proteins for P36162 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P36162 
Go to UniProtKB:  P36162
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36162
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DAD1F [auth X]94Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DAD1
UniProt
Find proteins for Q12248 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q12248 
Go to UniProtKB:  Q12248
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ12248
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DAD4G [auth Y]72Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DAD4
UniProt
Find proteins for P69851 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P69851 
Go to UniProtKB:  P69851
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69851
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit DAD3H [auth Z]94Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DAD3
UniProt
Find proteins for P69850 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P69850 
Go to UniProtKB:  P69850
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69850
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit SPC34I [auth a]295Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: SPC34
UniProt
Find proteins for P36131 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P36131 
Go to UniProtKB:  P36131
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36131
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit ASK1J [auth b]292Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: ASK1
UniProt
Find proteins for P35734 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P35734 
Go to UniProtKB:  P35734
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35734
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit HSK3K [auth c]69Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: HSK3
UniProt
Find proteins for P69852 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P69852 
Go to UniProtKB:  P69852
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69852
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
DASH complex subunit SPC19L [auth d]165Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: SPC19
UniProt
Find proteins for Q03954 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q03954 
Go to UniProtKB:  Q03954
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03954
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.97 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIXdev-4620-000

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
UK Research and Innovation (UKRI)United KingdomMC_UP_1201/6
Cancer Research UKUnited KingdomC576/A14109

Revision History  (Full details and data files)

  • Version 1.0: 2023-12-06
    Type: Initial release
  • Version 1.1: 2023-12-20
    Changes: Database references