7DG5

Crystal structure of mouse Smc1-Smc3 hinge domain containing a D574Y mutation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Folding of cohesin's coiled coil is important for Scc2/4-induced association with chromosomes.

Petela, N.J.Gonzalez Llamazares, A.Dixon, S.Hu, B.Lee, B.G.Metson, J.Seo, H.Ferrer-Harding, A.Voulgaris, M.Gligoris, T.Collier, J.Oh, B.H.Lowe, J.Nasmyth, K.A.

(2021) Elife 10

  • DOI: https://doi.org/10.7554/eLife.67268
  • Primary Citation of Related Structures:  
    7DG5, 7OGT

  • PubMed Abstract: 

    Cohesin's association with and translocation along chromosomal DNAs depend on an ATP hydrolysis cycle driving the association and subsequent release of DNA. This involves DNA being 'clamped' by Scc2 and ATP-dependent engagement of cohesin's Smc1 and Smc3 head domains. Scc2's replacement by Pds5 abrogates cohesin's ATPase and has an important role in halting DNA loop extrusion. The ATPase domains of all SMC proteins are separated from their hinge dimerisation domains by 50-nm-long coiled coils, which have been observed to zip up along their entire length and fold around an elbow, thereby greatly shortening the distance between hinges and ATPase heads. Whether folding exists in vivo or has any physiological importance is not known. We present here a cryo-EM structure of the apo form of cohesin that reveals the structure of folded and zipped-up coils in unprecedented detail and shows that Scc2 can associate with Smc1's ATPase head even when it is fully disengaged from that of Smc3. Using cysteine-specific crosslinking, we show that cohesin's coiled coils are frequently folded in vivo, including when cohesin holds sister chromatids together. Moreover, we describe a mutation ( SMC1D588Y ) within Smc1's hinge that alters how Scc2 and Pds5 interact with Smc1's hinge and that enables Scc2 to support loading in the absence of its normal partner Scc4. The mutant phenotype of loading without Scc4 is only explicable if loading depends on an association between Scc2/4 and cohesin's hinge, which in turn requires coiled coil folding.


  • Organizational Affiliation

    Institute of Medical Sciences, University of Aberdeen, Aberdeen, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Structural maintenance of chromosomes protein 1A
A, C
215Mus musculusMutation(s): 1 
Gene Names: Smc1aSb1.8Smc1Smc1l1Smcb
UniProt
Find proteins for Q9CU62 (Mus musculus)
Explore Q9CU62 
Go to UniProtKB:  Q9CU62
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9CU62
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Structural maintenance of chromosomes protein 3
B, D
213Mus musculusMutation(s): 0 
Gene Names: Smc3BamBmhCspg6Mmip1Smc3l1Smcd
UniProt & NIH Common Fund Data Resources
Find proteins for Q9CW03 (Mus musculus)
Explore Q9CW03 
Go to UniProtKB:  Q9CW03
IMPC:  MGI:1339795
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9CW03
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 50.08α = 72.66
b = 60.851β = 88.43
c = 77.757γ = 89.99
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation (NRF, Korea)Korea, Republic OfNRF-2020R1A4A3079755

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-17
    Type: Initial release
  • Version 1.1: 2022-11-30
    Changes: Database references
  • Version 1.2: 2023-11-29
    Changes: Data collection, Refinement description