7VS3 | pdb_00007vs3

The crystal structure of rat calcium-dependent activator protein for secretion (CAPS) C2PH


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 
    0.279 (Depositor), 0.280 (DCC) 
  • R-Value Work: 
    0.223 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 
    0.226 (Depositor) 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The C 2 and PH domains of CAPS constitute an effective PI(4,5)P2-binding unit essential for Ca 2+ -regulated exocytosis.

Zhang, L.Li, L.Wei, Z.Zhou, H.Liu, H.Wang, S.Ren, Y.Dai, T.Wang, J.Hu, Z.Ma, C.

(2023) Structure 31: 424

  • DOI: https://doi.org/10.1016/j.str.2023.02.004
  • Primary Citation of Related Structures:  
    7VS3

  • PubMed Abstract: 

    Ca 2+ -dependent activator proteins for secretion (CAPSs) are required for Ca 2+ -regulated exocytosis in neurons and neuroendocrine cells. CAPSs contain a pleckstrin homology (PH) domain that binds PI(4,5)P2-membrane. There is also a C 2 domain residing adjacent to the PH domain, but its function remains unclear. In this study, we solved the crystal structure of the CAPS-1 C 2 PH module. The structure showed that the C 2 and PH tandem packs against one another mainly via hydrophobic residues. With this interaction, the C 2 PH module exhibited enhanced binding to PI(4,5)P2-membrane compared with the isolated PH domain. In addition, we identified a new PI(4,5)P2-binding site on the C 2 domain. Disruption of either the tight interaction between the C 2 and PH domains or the PI(4,5)P2-binding sites on both domains significantly impairs CAPS-1 function in Ca 2+ -regulated exocytosis at the Caenorhabditis elegans neuromuscular junction (NMJ). These results suggest that the C 2 and PH domains constitute an effective unit to promote Ca 2+ -regulated exocytosis.


  • Organizational Affiliation
    • Key Laboratory of Molecular Biophysics of the Ministry of Education, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Calcium-dependent secretion activator 1244Rattus norvegicusMutation(s): 0 
Gene Names: CadpsCapsCaps1
UniProt
Find proteins for Q62717 (Rattus norvegicus)
Explore Q62717 
Go to UniProtKB:  Q62717
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ62717
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free:  0.279 (Depositor), 0.280 (DCC) 
  • R-Value Work:  0.223 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 0.226 (Depositor) 
Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.94α = 90
b = 62.452β = 90
c = 64.071γ = 90
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31670846
National Natural Science Foundation of China (NSFC)China31721002

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-15
    Type: Initial release
  • Version 1.1: 2023-04-05
    Changes: Database references
  • Version 1.2: 2023-04-26
    Changes: Database references
  • Version 1.3: 2023-11-29
    Changes: Data collection, Refinement description