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Truncated SNARE complex with complexin

X-ray diffraction
3.5Å resolution
PDB entry 3rk3 coloured by chain, front view.
PDB entry 3rk3 coloured by chain, side view.
PDB entry 3rk3 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero pentamer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero pentamer
Accessible surface area: 17682.12 Å2
Buried surface area: 9903.72 Å2
Dissociation area: 590.79 Å2
Dissociation energy (ΔGdiss): -2.5 kcal/mol
Dissociation entropy (TΔSdiss): 10.83 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-127157

Macromolecules

Vesicle-associated membrane protein 2
Chain: A
Length: 37 amino acids
Theoretical weight: 4.25 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P63027 (Residues: 28-60; Coverage: 28%)
Gene names: SYB2, VAMP2
Pfam: Synaptobrevin
InterPro:
Vesicle-associated membrane protein 2 in PDB entry 3rk3, assembly 1, front view.
Vesicle-associated membrane protein 2 in PDB entry 3rk3, assembly 1, side view.
Vesicle-associated membrane protein 2 in PDB entry 3rk3, assembly 1, top view.
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Syntaxin-1A
Chain: B
Length: 65 amino acids
Theoretical weight: 7.55 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P32851 (Residues: 191-253; Coverage: 22%)
Gene names: Sap, Stx1a
Pfam: SNARE domain
InterPro:
CATH: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Syntaxin-1A in PDB entry 3rk3, assembly 1, front view.
Syntaxin-1A in PDB entry 3rk3, assembly 1, side view.
Syntaxin-1A in PDB entry 3rk3, assembly 1, top view.
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Synaptosomal-associated protein 25
Chain: C
Length: 81 amino acids
Theoretical weight: 9.5 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P60880 (Residues: 7-82; Coverage: 37%)
Gene names: SNAP, SNAP25
InterPro:
CATH: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, front view.
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, side view.
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, top view.
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Synaptosomal-associated protein 25
Chain: D
Length: 65 amino acids
Theoretical weight: 7.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P60880 (Residues: 141-203; Coverage: 31%)
Gene names: SNAP, SNAP25
InterPro: Target SNARE coiled-coil homology domain
CATH: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, front view.
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, side view.
Synaptosomal-associated protein 25 in PDB entry 3rk3, assembly 1, top view.
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Complexin-1
Chain: E
Length: 63 amino acids
Theoretical weight: 7.24 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O14810 (Residues: 26-83; Coverage: 43%)
Gene name: CPLX1
Pfam: Synaphin protein
InterPro: Synaphin
CATH: Single Helix bin
Complexin-1 in PDB entry 3rk3, assembly 1, front view.
Complexin-1 in PDB entry 3rk3, assembly 1, side view.
Complexin-1 in PDB entry 3rk3, assembly 1, top view.
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