SMTL ID : 9pbv.1

21bin20S complex (NSF-alphaSNAP-2:1 syntaxin-1a:SNAP-25), non-hydrolyzing, class 11

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-2-1-3-mer

Ligands

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

ATP.1: 19 residues within 4Å: Chain A: I.506, M.507, N.508, G.509, I.510, I.511, W.513, V.517, H.549, S.550, G.551, K.552, T.553, A.554, L.555, I.710, K.711, L.714 Chain F: K.634 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:M.507, A:N.508, A:N.508, A:I.511, A:I.511, A:W.513, A:H.549, A:G.551, A:K.552, A:T.553, A:T.553 Salt bridges: A:H.549, A:K.552, A:K.552, A:K.711, A:K.711 ATP.3: 19 residues within 4Å: Chain A: 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, I.409, I.412, H.413, G.441, A.442, E.445 17 PLIP interactions: 13 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:T.270, B:T.270, 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: 19 residues within 4Å: Chain A: K.634 Chain B: 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 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.508, B:N.508, B:I.511, B:I.511, B:H.549, B:S.550, B:G.551, B:K.552, B:T.553, B:T.553, B:A.554 Salt bridges: B:K.552, B:K.552, B:K.711, B:K.711, B:K.711, A:K.634 ATP.5: 22 residues within 4Å: 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, D.607, I.710, K.711, L.714 Chain E: K.634 14 PLIP interactions: 13 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:Y.505, C:N.508, C:N.508, C:I.511, C:I.511, C:H.549, C:S.550, C:G.551, C:K.552, C:T.553 Salt bridges: C:K.552, C:K.552, C:K.711, E:K.634 ATP.6: 20 residues within 4Å: Chain C: G.222, G.224, P.265, G.266, C.267, G.268, K.269, T.270, L.271, R.274, M.375, I.409, H.413, G.441, A.442, E.445 Chain E: K.254, D.362, R.388, R.391 14 PLIP interactions: 10 interactions with chain C, 4 interactions with chain E Hydrogen bonds: C:G.266, C:C.267, C:C.267, C:G.268, C:K.269, C:T.270, C:T.270, C:E.445 Salt bridges: C:K.269, C:K.269, E:R.388, E:R.388, E:R.388, E:R.391 ATP.7: 22 residues within 4Å: Chain B: 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 15 PLIP interactions: 14 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:N.508, D:N.508, D:I.511, D:I.511, D:H.549, D:G.551, D:K.552, D:T.553, D:T.553, D:D.607 Salt bridges: D:K.552, D:K.552, D:K.711, D:K.711, B:K.634 ATP.8: 21 residues within 4Å: Chain B: K.254, D.362, R.388, R.391 Chain D: 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 18 PLIP interactions: 5 interactions with chain B, 13 interactions with chain D Hydrogen bonds: B:K.254, 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:N.377, D:H.413, D:E.445 Salt bridges: B:R.388, B:R.388, B:R.388, B:R.391, D:K.269, D:K.269 ATP.9: 21 residues within 4Å: Chain D: K.634 Chain E: 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 17 PLIP interactions: 16 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:N.508, E:N.508, E:I.511, E:I.511, E:W.513, E:H.549, E:G.551, E:K.552, E:T.553, E:T.553, E:A.554 Salt bridges: E:K.552, E:K.552, E:K.711, E:K.711, E:K.711, D:K.634 ATP.10: 21 residues within 4Å: Chain D: K.254, D.362, 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, H.413, G.441, A.442, E.445 18 PLIP interactions: 4 interactions with chain D, 14 interactions with chain E Salt bridges: D:R.388, D:R.388, D:R.388, D:R.391, E:K.269, E:K.269 Hydrogen bonds: E:G.224, E:G.224, E:G.266, E:C.267, E:G.268, E:K.269, E:T.270, E:T.270, E:T.270, E:L.271, E:N.377, E:H.413 ATP.11: 20 residues within 4Å: Chain C: 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, I.710, K.711, L.714 16 PLIP interactions: 1 interactions with chain C, 15 interactions with chain F Salt bridges: C:K.634, F:H.549, F:K.552, F:K.552, F:K.711, F:K.711 Hydrogen bonds: 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

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

ADP.2: 16 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, I.409, I.412, H.413, G.441, A.442, E.445 9 PLIP interactions: 9 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 Salt bridges: A:K.269

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
E

D
C

E
D

F
F

G
L

H
G

I
H

J
I

K
J

L
K

Vesicle-fusing ATPase

Syntaxin-1A

Synaptosomal-associated protein 25

Alpha-soluble NSF attachment protein

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