6R17

Crystal structure of the SYCE2-TEX12 delta-Ctip 2:2 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.330 
  • R-Value Work: 0.287 
  • R-Value Observed: 0.291 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of meiotic chromosome synaptic elongation through hierarchical fibrous assembly of SYCE2-TEX12.

Dunce, J.M.Salmon, L.J.Davies, O.R.

(2021) Nat Struct Mol Biol 28: 681-693

  • DOI: https://doi.org/10.1038/s41594-021-00636-z
  • Primary Citation of Related Structures:  
    6R17, 6YQF

  • PubMed Abstract: 

    The synaptonemal complex (SC) is a supramolecular protein assembly that mediates synapsis between homologous chromosomes during meiosis. SC elongation along the chromosome length (up to 24 μm) depends on its midline α-fibrous component SYCE2-TEX12. Here, we report X-ray crystal structures of human SYCE2-TEX12 as an individual building block and on assembly within a fibrous lattice. We combine these structures with mutagenesis, biophysics and electron microscopy to reveal the hierarchical mechanism of SYCE2-TEX12 fiber assembly. SYCE2-TEX12's building blocks are 2:2 coiled coils that dimerize into 4:4 hetero-oligomers and interact end-to-end and laterally to form 10-nm fibers that intertwine within 40-nm bundled micrometer-long fibers that define the SC's midline structure. This assembly mechanism bears striking resemblance with intermediate filament proteins vimentin, lamin and keratin. Thus, SYCE2-TEX12 exhibits behavior typical of cytoskeletal proteins to provide an α-fibrous SC backbone that structurally underpins synaptic elongation along meiotic chromosomes.


  • Organizational Affiliation

    Biosciences Institute, Faculty of Medical Sciences, Newcastle University, Framlington Place, Newcastle upon Tyne, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Synaptonemal complex central element protein 2
A, B
112Homo sapiensMutation(s): 0 
Gene Names: SYCE2CESC1
UniProt & NIH Common Fund Data Resources
Find proteins for Q6PIF2 (Homo sapiens)
Explore Q6PIF2 
Go to UniProtKB:  Q6PIF2
PHAROS:  Q6PIF2
GTEx:  ENSG00000161860 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6PIF2
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Testis-expressed protein 12
C, D
69Homo sapiensMutation(s): 0 
Gene Names: TEX12
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BXU0 (Homo sapiens)
Explore Q9BXU0 
Go to UniProtKB:  Q9BXU0
PHAROS:  Q9BXU0
GTEx:  ENSG00000150783 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BXU0
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.52α = 90
b = 24.19β = 115.74
c = 88.48γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
STARANISOdata scaling
PHASERphasing
Arcimboldophasing
SHELXEmodel building
PHENIXmodel building

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom104158/Z/14/Z
Royal SocietyUnited KingdomRG170118

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-30
    Type: Initial release
  • Version 1.1: 2021-09-15
    Changes: Database references, Refinement description
  • Version 1.2: 2024-05-01
    Changes: Data collection, Refinement description