SMTL ID : 9pb9.1

21bin20S complex (NSF-alphaSNAP-2:1 syntaxin-1a:SNAP-25), non-hydrolyzing, class 8

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-2-1-3-mer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 17 residues within 4Å: Chain A: G.222, I.223, G.224, L.226, G.266, C.267, G.268, K.269, T.270, L.271, M.375, I.409, I.412, H.413, G.441, A.442, E.445 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.224, A:G.224, A:G.266, A:C.267, A:G.268, A:K.269, A:T.270, A:T.270, A:L.271, A:H.413 Salt bridges: A:K.269

11 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 22 residues within 4Å: Chain A: Y.505, I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, S.650, I.710, K.711, L.714 Chain F: K.634 20 PLIP interactions: 19 interactions with chain A, 1 interactions with chain F Hydrogen bonds: A:M.507, A:N.508, A:N.508, A:G.509, A:I.511, A:I.511, A:W.513, A:H.549, A:S.550, A:G.551, A:K.552, A:T.553, A:A.554 Water bridges: A:T.553 Salt bridges: A:H.549, A:K.552, A:K.552, A:K.711, A:K.711, F:K.634 ATP.3: 21 residues within 4Å: Chain A: K.254, R.388, R.391 Chain B: G.222, I.223, G.224, L.226, P.265, G.266, C.267, G.268, K.269, T.270, L.271, N.377, I.409, I.412, H.413, G.441, A.442, E.445 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:G.224, B:G.224, B:G.266, B:C.267, B:G.268, B:K.269, B:T.270, B:L.271, B:H.413, B:E.445 Salt bridges: B:K.269, B:K.269, A:R.388, A:R.388, A:R.388, A:R.391 ATP.4: 20 residues within 4Å: Chain A: K.634 Chain B: I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, I.710, K.711, L.714 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:M.507, B:N.508, B:I.511, B:I.511, B:W.513, B:H.549, B:S.550, B:G.551, B:K.552, B:T.553, B:T.553, B:A.554 Water bridges: B:T.553 Salt bridges: B:H.549, B:K.552, B:K.552, B:K.711, B:K.711, B:K.711 ATP.5: 23 residues within 4Å: Chain B: K.254, D.362, R.388, R.391 Chain C: G.222, I.223, G.224, L.226, P.265, G.266, C.267, G.268, K.269, T.270, L.271, E.332, N.377, I.409, I.412, H.413, G.441, A.442, E.445 19 PLIP interactions: 4 interactions with chain B, 15 interactions with chain C Salt bridges: B:R.388, B:R.388, B:R.388, B:R.391, C:K.269, C:K.269 Hydrogen bonds: C:G.224, C:G.224, C:G.266, C:C.267, C:G.268, C:K.269, C:T.270, C:L.271, C:N.377, C:H.413, C:E.445, C:E.445 Water bridges: C:E.332 ATP.6: 21 residues within 4Å: Chain B: K.634 Chain C: Y.505, I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, I.710, K.711, L.714 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:M.507, C:N.508, C:I.511, C:I.511, C:W.513, C:H.549, C:S.550, C:G.551, C:K.552, C:T.553, C:A.554 Water bridges: C:T.553 Salt bridges: C:H.549, C:K.552, C:K.552, C:K.711, C:K.711, C:K.711 ATP.7: 22 residues within 4Å: Chain C: K.634 Chain D: Y.505, I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, D.607, I.710, K.711, L.714 19 PLIP interactions: 18 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:M.507, D:N.508, D:I.511, D:I.511, D:W.513, D:H.549, D:S.550, D:G.551, D:K.552, D:T.553, D:A.554 Water bridges: D:T.553 Salt bridges: D:H.549, D:K.552, D:K.552, D:K.711, D:K.711, D:K.711, C:K.634 ATP.8: 20 residues within 4Å: Chain C: R.388, R.391 Chain D: G.222, I.223, G.224, L.226, P.265, G.266, C.267, G.268, K.269, T.270, L.271, N.377, I.409, I.412, H.413, G.441, A.442, E.445 19 PLIP interactions: 15 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:G.224, D:G.224, D:G.266, D:C.267, D:G.268, D:K.269, D:T.270, D:T.270, D:L.271, D:N.377, D:H.413 Water bridges: D:T.270, D:E.332 Salt bridges: D:K.269, D:K.269, C:R.388, C:R.388, C:R.388, C:R.391 ATP.9: 20 residues within 4Å: Chain D: R.388, R.391 Chain E: G.222, I.223, G.224, L.226, P.265, G.266, C.267, G.268, K.269, T.270, L.271, N.377, I.409, I.412, H.413, G.441, A.442, E.445 15 PLIP interactions: 11 interactions with chain E, 4 interactions with chain D Hydrogen bonds: E:G.224, E:G.224, E:G.266, E:C.267, E:G.268, E:K.269, E:T.270, E:L.271, E:N.377 Salt bridges: E:K.269, E:K.269, D:R.388, D:R.388, D:R.388, D:R.391 ATP.10: 23 residues within 4Å: Chain D: K.634 Chain E: Y.505, I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, D.607, S.650, I.710, K.711, L.714 16 PLIP interactions: 1 interactions with chain D, 15 interactions with chain E Salt bridges: D:K.634, E:K.552, E:K.552, E:K.711 Hydrogen bonds: E:M.507, E:N.508, E:G.509, E:I.511, E:W.513, E:H.549, E:S.550, E:G.551, E:K.552, E:T.553, E:A.554, E:D.607 ATP.11: 19 residues within 4Å: Chain E: K.254, R.388, R.391 Chain F: G.222, I.223, G.224, P.265, G.266, C.267, G.268, K.269, T.270, L.271, N.377, I.409, H.413, G.441, A.442, E.445 18 PLIP interactions: 13 interactions with chain F, 5 interactions with chain E Hydrogen bonds: F:G.224, F:G.224, F:G.266, F:C.267, F:G.268, F:K.269, F:T.270, F:L.271, F:N.377, F:G.441, F:A.442, E:K.254 Salt bridges: F:K.269, F:K.269, E:R.388, E:R.388, E:R.388, E:R.391 ATP.12: 21 residues within 4Å: Chain E: K.634 Chain F: I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, P.548, H.549, S.550, G.551, K.552, T.553, A.554, L.555, D.607, I.710, K.711, L.714 22 PLIP interactions: 21 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:M.507, F:N.508, F:N.508, F:I.511, F:I.511, F:W.513, F:H.549, F:S.550, F:G.551, F:K.552, F:T.553, F:A.554, F:D.607 Water bridges: F:D.607, F:K.711, F:K.711 Salt bridges: F:H.549, F:K.552, F:K.552, F:K.711, F:K.711, E:K.634

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

White, K.I. et al., Pre-fusion AAA+ remodeling of target-SNARE protein complexes enables synaptic transmission. Biorxiv (2024)

Release Date

2025-08-06

Peptides

Vesicle-fusing ATPase: ABCDEF
Syntaxin-1A: GH
Synaptosomal-associated protein 25: I
Alpha-soluble NSF attachment protein: JKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

Vesicle-fusing ATPase

Syntaxin-1A

Synaptosomal-associated protein 25

Alpha-soluble NSF attachment protein

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