› 5w5c

X-ray diffraction
1.85Å resolution

Crystal structure of the primed SNARE-Complexin-Synaptotagmin-1 C2AB complex

Released:
DOI: 10.2210/pdb5w5c/pdb
PDB entry 5w5c coloured by chain, front view.
PDB entry 5w5c coloured by chain, side view.
PDB entry 5w5c coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
The primed SNARE-complexin-synaptotagmin complex for neuronal exocytosis.
Zhou Q, Zhou P, Wang AL, Wu D, Zhao M, Südhof TC, Brunger AT
Nature 548 420-425 (2017)
PMID: 28813412

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-149384 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Vesicle-associated membrane protein 2 Chain: A
Molecule details ›
Chain: A
Length: 40 amino acids
Theoretical weight: 4.7 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P63045 (Residues: 28-66; Coverage: 34%)
Gene names: Syb2, Vamp2
Sequence domains: Synaptobrevin
Syntaxin-1A Chain: B
Molecule details ›
Chain: B
Length: 67 amino acids
Theoretical weight: 7.84 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P32851 (Residues: 190-256; Coverage: 23%)
Gene names: Sap, Stx1a
Sequence domains: SNARE domain
Synaptosomal-associated protein 25 Chain: C
Molecule details ›
Chain: C
Length: 77 amino acids
Theoretical weight: 9.03 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P60881 (Residues: 7-83; Coverage: 37%)
Gene names: Snap, Snap25
Synaptosomal-associated protein 25 Chain: D
Molecule details ›
Chain: D
Length: 65 amino acids
Theoretical weight: 7.47 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P60881 (Residues: 141-204; Coverage: 31%)
Gene names: Snap, Snap25
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Complexin-1 Chain: E
Molecule details ›
Chain: E
Length: 83 amino acids
Theoretical weight: 9.61 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P63041 (Residues: 1-83; Coverage: 62%)
Gene name: Cplx1
Sequence domains: Synaphin protein
Synaptotagmin-1 Chain: F
Molecule details ›
Chain: F
Length: 282 amino acids
Theoretical weight: 32.38 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P21707 (Residues: 140-421; Coverage: 67%)
Gene name: Syt1
Sequence domains: C2 domain
Structure domains: C2 domain

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21212
Unit cell:
a: 85.663Å b: 89.683Å c: 91.728Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.195 0.232
Expression system: Escherichia coli

Quick links

Citations

36 review citations

Botulinum and Tetanus Neurotoxins.
Dong et al. (2019)
35 more

22 mentions without citation

Mechanism of neurotransmitter release coming into focus.
Rizo J. (2018)
21 more