6XWS | pdb_00006xws

Crystal Structure of Drosophila CAL1 1-160 bound to CENP-A/H4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.36 Å
  • R-Value Free: 
    0.323 (Depositor), 0.331 (DCC) 
  • R-Value Work: 
    0.306 (Depositor), 0.305 (DCC) 
  • R-Value Observed: 
    0.307 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6XWS

This is version 1.1 of the entry. See complete history

Literature

Structural basis for centromere maintenance by Drosophila CENP-A chaperone CAL1.

Medina-Pritchard, B.Lazou, V.Zou, J.Byron, O.Abad, M.A.Rappsilber, J.Heun, P.Jeyaprakash, A.A.

(2020) EMBO J 39: e103234-e103234

  • DOI: https://doi.org/10.15252/embj.2019103234
  • Primary Citation Related Structures: 
    6XWS, 6XWT, 6XWU, 6XWV

  • PubMed Abstract: 

    Centromeres are microtubule attachment sites on chromosomes defined by the enrichment of histone variant CENP-A-containing nucleosomes. To preserve centromere identity, CENP-A must be escorted to centromeres by a CENP-A-specific chaperone for deposition. Despite this essential requirement, many eukaryotes differ in the composition of players involved in centromere maintenance, highlighting the plasticity of this process. In humans, CENP-A recognition and centromere targeting are achieved by HJURP and the Mis18 complex, respectively. Using X-ray crystallography, we here show how Drosophila CAL1, an evolutionarily distinct CENP-A histone chaperone, binds both CENP-A and the centromere receptor CENP-C without the requirement for the Mis18 complex. While an N-terminal CAL1 fragment wraps around CENP-A/H4 through multiple physical contacts, a C-terminal CAL1 fragment directly binds a CENP-C cupin domain dimer. Although divergent at the primary structure level, CAL1 thus binds CENP-A/H4 using evolutionarily conserved and adaptive structural principles. The CAL1 binding site on CENP-C is strategically positioned near the cupin dimerisation interface, restricting binding to just one CAL1 molecule per CENP-C dimer. Overall, by demonstrating how CAL1 binds CENP-A/H4 and CENP-C, we provide key insights into the minimalistic principles underlying centromere maintenance.


  • Organizational Affiliation
    • Wellcome Centre for Cell Biology, University of Edinburgh, Edinburgh, UK.

Macromolecule Content 

  • Total Structure Weight: 47.92 kDa 
  • Atom Count: 1,715 
  • Modeled Residue Count: 242 
  • Deposited Residue Count: 436 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Histone H3-like centromeric protein cid225Drosophila melanogasterMutation(s): 0 
Gene Names: cidCENP-ACG13329
UniProt
Find proteins for Q9V6Q2 (Drosophila melanogaster)
Explore Q9V6Q2 
Go to UniProtKB:  Q9V6Q2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9V6Q2
Sequence Annotations
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Histone H4103Drosophila melanogasterMutation(s): 0 
Gene Names: His4rBcDNA:RH52884Dmel\CG3379FBtr0082962H4rHis4-88CDHis4RCG3379Dmel_CG3379
UniProt
Find proteins for P84040 (Drosophila melanogaster)
Explore P84040 
Go to UniProtKB:  P84040
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UniProt GroupP84040
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Chromosome alignment defect 1,Chromosome alignment defect 1108Drosophila melanogasterMutation(s): 0 
Gene Names: cal1CAL1CLD2Dmel\CG5148CG5148Dmel_CG5148
UniProt
Find proteins for Q9VEN2 (Drosophila melanogaster)
Explore Q9VEN2 
Go to UniProtKB:  Q9VEN2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9VEN2
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.36 Å
  • R-Value Free:  0.323 (Depositor), 0.331 (DCC) 
  • R-Value Work:  0.306 (Depositor), 0.305 (DCC) 
  • R-Value Observed: 0.307 (Depositor) 
Space Group: P 63 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 199.7α = 90
b = 199.7β = 90
c = 76.754γ = 120
Software Package:
Software NamePurpose
autoPROCdata processing
PHENIXrefinement
STARANISOdata scaling
Cootmodel building
PHASERphasing
XDSdata reduction

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom202811

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-15
    Type: Initial release
  • Version 1.1: 2024-01-24
    Changes: Data collection, Database references, Refinement description