7FIU

Crystal structure of the DUB domain of Wolbachia cytoplasmic incompatibility factor CidB from wMel


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


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Literature

Crystal Structures of Wolbachia CidA and CidB Reveal Determinants of Bacteria-induced Cytoplasmic Incompatibility and Rescue.

Wang, H.Xiao, Y.Chen, X.Zhang, M.Sun, G.Wang, F.Wang, L.Zhang, H.Zhang, X.Yang, X.Li, W.Wei, Y.Yao, D.Zhang, B.Li, J.Cui, W.Wang, F.Chen, C.Shen, W.Su, D.Bai, F.Huang, J.Ye, S.Zhang, L.Ji, X.Wang, W.Wang, Z.Hochstrasser, M.Yang, H.

(2022) Nat Commun 13: 1608-1608

  • DOI: https://doi.org/10.1038/s41467-022-29273-w
  • Primary Citation of Related Structures:  
    7FIT, 7FIU, 7FIV, 7FIW

  • PubMed Abstract: 

    Cytoplasmic incompatibility (CI) results when Wolbachia bacteria-infected male insects mate with uninfected females, leading to embryonic lethality. "Rescue" of viability occurs if the female harbors the same Wolbachia strain. CI is caused by linked pairs of Wolbachia genes called CI factors (CifA and CifB). The co-evolution of CifA-CifB pairs may account in part for the incompatibility patterns documented in insects infected with different Wolbachia strains, but the molecular mechanisms remain elusive. Here, we use X-ray crystallography and AlphaFold to analyze the CI factors from Wolbachia strain wMel called CidA wMel and CidB wMel . Substituting CidA wMel interface residues with those from CidA wPip (from strain wPip) enables the mutant protein to bind CidB wPip and rescue CidB wPip -induced yeast growth defects, supporting the importance of CifA-CifB interaction in CI rescue. Sequence divergence in CidA wPip and CidB wPip proteins affects their pairwise interactions, which may help explain the complex incompatibility patterns of mosquitoes infected with different wPip strains.


  • Organizational Affiliation

    School of Life Sciences, Tianjin University, Tianjin, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ULP_PROTEASE domain-containing protein293Wolbachia endosymbiont of Drosophila melanogasterMutation(s): 0 
Gene Names: WD_0632
UniProt
Find proteins for Q73HD4 (Wolbachia pipientis wMel)
Explore Q73HD4 
Go to UniProtKB:  Q73HD4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ73HD4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.11α = 90
b = 60.59β = 90
c = 85.55γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data scaling
PDB_EXTRACTdata extraction
Aimlessdata scaling
AutoSolphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81772204

Revision History  (Full details and data files)

  • Version 1.0: 2022-04-06
    Type: Initial release