SMTL ID : 5w5c.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-2-2-2-2-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 1 residues within 4Å: Chain C: D.52 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain I: D.52 No protein-ligand interaction detected (PLIP)

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: R.5, Q.12 Chain D: S.15, G.16 Chain L: K.193, Y.225 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain L Hydrogen bonds: A:R.5, A:Q.8, A:Q.12, L:K.193 Water bridges: A:Q.12, L:D.226 GOL.3: 7 residues within 4Å: Chain F: K.162, G.167, L.168, S.169, N.194, T.195, L.196 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:S.169, F:S.169 Water bridges: F:M.163, F:D.164, F:N.194 GOL.4: 3 residues within 4Å: Chain F: K.186, K.187, K.188 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:K.188, F:K.188 GOL.5: 5 residues within 4Å: Chain F: Q.179, N.180, G.181, K.215, Y.241 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:N.180, F:G.181, F:K.215 Water bridges: F:Q.217, F:Y.241, F:Y.241 GOL.6: 6 residues within 4Å: Chain B: E.17 Chain C: E.18, R.25 Chain F: Q.214, K.215, Y.241 6 PLIP interactions: 2 interactions with chain C, 3 interactions with chain F, 1 interactions with chain B Hydrogen bonds: C:R.25, F:Q.214, F:K.215, B:E.17 Water bridges: C:R.25, F:Y.241 GOL.8: 4 residues within 4Å: Chain G: R.5, Q.12 Chain J: S.15, G.16 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:R.5, G:Q.8 Water bridges: G:Q.12 GOL.9: 7 residues within 4Å: Chain L: K.162, G.167, L.168, S.169, N.194, T.195, L.196 5 PLIP interactions: 5 interactions with chain L Hydrogen bonds: L:S.169, L:S.169 Water bridges: L:M.163, L:D.164, L:N.194 GOL.10: 5 residues within 4Å: Chain A: V.22 Chain D: L.26 Chain L: K.186, K.187, K.188 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain L Water bridges: A:N.23, A:K.26, A:K.26, A:K.26 Hydrogen bonds: L:K.188, L:K.188 GOL.11: 5 residues within 4Å: Chain L: Q.179, N.180, G.181, K.215, Y.241 5 PLIP interactions: 5 interactions with chain L Hydrogen bonds: L:N.180, L:G.181, L:K.215 Water bridges: L:Q.217, L:Y.241 GOL.12: 6 residues within 4Å: Chain H: E.17 Chain I: E.18, R.25 Chain L: Q.214, K.215, Y.241 5 PLIP interactions: 2 interactions with chain I, 2 interactions with chain L, 1 interactions with chain H Hydrogen bonds: I:R.25, L:Q.214, L:K.215, H:E.17 Water bridges: I:R.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Q. et al., The primed SNARE-complexin-synaptotagmin complex for neuronal exocytosis. Nature (2017)

Release Date

2017-08-23

Peptides

Vesicle-associated membrane protein 2: AG
Syntaxin-1A: BH
Synaptosomal-associated protein 25: CI
Synaptosomal-associated protein 25: DJ
Complexin-1: EK
Synaptotagmin-1: FL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

G
A

B
B

H
B

C
C

I
C

D
D

J
D

E
E

K
E

F
F

L
F

Vesicle-associated membrane protein 2

Syntaxin-1A

Synaptosomal-associated protein 25

Synaptosomal-associated protein 25

Complexin-1

Synaptotagmin-1

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