SMTL ID : 5cch.1

Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (short unit cell form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-1-1-3-mer

Ligands

11 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain E: D.163, S.168, D.169, D.223, Y.224, D.225 Ligands: CA.2 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:S.168, E:D.223, E:Y.224 CA.2: 5 residues within 4Å: Chain E: M.162, D.163, D.223, D.225 Ligands: CA.1 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:M.162, E:D.223 CA.3: 5 residues within 4Å: Chain E: D.32, D.38, D.90, F.91, D.92 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:D.32, E:D.38, E:F.91, E:D.92 CA.4: 5 residues within 4Å: Chain F: D.32, D.90, F.91, D.92 Ligands: CA.5 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:D.32, F:D.90, F:D.90, F:F.91, F:D.92 CA.5: 6 residues within 4Å: Chain F: D.32, D.38, D.90, F.91, D.92 Ligands: CA.4 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:D.32, F:D.38, F:F.91 CA.6: 3 residues within 4Å: Chain F: D.169, Y.224 Ligands: CA.7 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:D.169, F:Y.224 CA.7: 4 residues within 4Å: Chain F: D.223, Y.224, D.225 Ligands: CA.6 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:D.223, F:D.223, F:D.225 CA.8: 6 residues within 4Å: Chain F: K.184 Chain G: D.32, D.90, F.91, D.92 Ligands: CA.9 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:D.32, G:D.90, G:D.90, G:F.91, G:D.92 CA.9: 6 residues within 4Å: Chain G: D.32, D.38, D.90, F.91, D.92 Ligands: CA.8 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:D.32, G:D.38, G:F.91 CA.10: 3 residues within 4Å: Chain G: D.169, Y.224 Ligands: CA.11 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:D.169, G:Y.224 CA.11: 4 residues within 4Å: Chain G: D.223, Y.224, D.225 Ligands: CA.10 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:D.223, G:D.223, G:D.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Q. et al., Architecture of the synaptotagmin-SNARE machinery for neuronal exocytosis. Nature (2015)

Release Date

2015-08-12

Peptides

Vesicle-associated membrane protein 2: A
Syntaxin-1A: B
Synaptosomal-associated protein 25: C
Synaptosomal-associated protein 25: D
Synaptotagmin-1: EFG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
F

Vesicle-associated membrane protein 2

Syntaxin-1A

Synaptosomal-associated protein 25

Synaptosomal-associated protein 25

Synaptotagmin-1

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