5W5D

Crystal structure of the primed SNARE-Complexin-Synaptotagmin-1 C2B complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.496 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The primed SNARE-complexin-synaptotagmin complex for neuronal exocytosis.

Zhou, Q.Zhou, P.Wang, A.L.Wu, D.Zhao, M.Sudhof, T.C.Brunger, A.T.

(2017) Nature 548: 420-425

  • DOI: 10.1038/nature23484
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Synaptotagmin, complexin, and neuronal SNARE (soluble N-ethylmaleimide sensitive factor attachment protein receptor) proteins mediate evoked synchronous neurotransmitter release, but the molecular mechanisms mediating the cooperation between these mo ...

    Synaptotagmin, complexin, and neuronal SNARE (soluble N-ethylmaleimide sensitive factor attachment protein receptor) proteins mediate evoked synchronous neurotransmitter release, but the molecular mechanisms mediating the cooperation between these molecules remain unclear. Here we determine crystal structures of the primed pre-fusion SNARE-complexin-synaptotagmin-1 complex. These structures reveal an unexpected tripartite interface between synaptotagmin-1 and both the SNARE complex and complexin. Simultaneously, a second synaptotagmin-1 molecule interacts with the other side of the SNARE complex via the previously identified primary interface. Mutations that disrupt either interface in solution also severely impair evoked synchronous release in neurons, suggesting that both interfaces are essential for the primed pre-fusion state. Ca2+ binding to the synaptotagmin-1 molecules unlocks the complex, allows full zippering of the SNARE complex, and triggers membrane fusion. The tripartite SNARE-complexin-synaptotagmin-1 complex at a synaptic vesicle docking site has to be unlocked for triggered fusion to start, explaining the cooperation between complexin and synaptotagmin-1 in synchronizing evoked release on the sub-millisecond timescale.


    Organizational Affiliation

    Department of Molecular and Cellular Physiology, Howard Hughes Medical Institute, Stanford University, Stanford, California 94305, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Vesicle-associated membrane protein 2
A
40Rattus norvegicusMutation(s): 0 
Gene Names: Vamp2 (Syb2)
Find proteins for P63045 (Rattus norvegicus)
Go to UniProtKB:  P63045
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Syntaxin-1A
B
67Rattus norvegicusMutation(s): 0 
Gene Names: Stx1a (Sap)
Find proteins for P32851 (Rattus norvegicus)
Go to UniProtKB:  P32851
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Synaptosomal-associated protein 25
C
77Rattus norvegicusMutation(s): 0 
Gene Names: Snap25 (Snap)
Find proteins for P60881 (Rattus norvegicus)
Go to UniProtKB:  P60881
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Synaptosomal-associated protein 25
D
65Rattus norvegicusMutation(s): 0 
Gene Names: Snap25 (Snap)
Find proteins for P60881 (Rattus norvegicus)
Go to UniProtKB:  P60881
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Complexin-1
E
83Rattus norvegicusMutation(s): 0 
Gene Names: Cplx1
Find proteins for P63041 (Rattus norvegicus)
Go to UniProtKB:  P63041
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Synaptotagmin-1
F
152Rattus norvegicusMutation(s): 0 
Gene Names: Syt1
Find proteins for P21707 (Rattus norvegicus)
Go to UniProtKB:  P21707
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
C
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.496 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.198 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 85.202α = 90.00
b = 89.199β = 90.00
c = 87.202γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PDB_EXTRACTdata extraction
SCALAdata scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-08-23
    Type: Initial release
  • Version 1.1: 2017-08-30
    Type: Database references
  • Version 1.2: 2017-09-06
    Type: Database references