SMTL ID : 7ynf.1

CCA-bound alpha-synuclein fibrils

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

8 x V79: copper;trisodium;18-(2-carboxylatoethyl)-20-(carboxylatomethyl)-12-ethenyl-7-ethyl-3,8,13,17-tetramethyl-17,18-dihydroporphyrin-21,23-diide-2-carboxylate(Non-covalent)

V79.1: 14 residues within 4Å: Chain A: A.85, S.87, A.90, A.91, T.92, V.95, K.97 Chain B: S.87, A.90, T.92, V.95, K.97 Chain F: A.85, G.86 10 PLIP interactions: 1 interactions with chain F, 4 interactions with chain B, 5 interactions with chain A, Hydrophobic interactions: F:A.85, B:A.90, B:V.95, A:A.85, A:A.90 Salt bridges: B:K.97, B:K.97, A:K.97, A:K.97, A:K.97 V79.2: 4 residues within 4Å: Chain A: K.43 Chain C: K.60 Chain D: T.59 Chain F: K.43 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C, Hydrophobic interactions: D:T.59 Salt bridges: D:K.60, C:K.60, C:K.60 V79.3: 2 residues within 4Å: Chain A: Q.62 Chain B: V.66 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, Hydrogen bonds: A:Q.62 Salt bridges: A:K.60 Hydrophobic interactions: B:V.66 V79.4: 1 residues within 4Å: Chain A: K.96 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain F, Salt bridges: A:K.96, A:K.96, F:K.96 V79.5: 14 residues within 4Å: Chain C: A.85, S.87, A.90, A.91, T.92, V.95, K.97 Chain D: S.87, A.90, T.92, V.95, K.97 Chain E: A.85, G.86 10 PLIP interactions: 5 interactions with chain C, 1 interactions with chain E, 4 interactions with chain D, Hydrophobic interactions: C:A.85, C:A.90, E:A.85, D:A.90, D:V.95 Salt bridges: C:K.97, C:K.97, C:K.97, D:K.97, D:K.97 V79.6: 2 residues within 4Å: Chain C: Q.62 Chain D: V.66 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain C, Hydrophobic interactions: D:V.66 Hydrogen bonds: C:Q.62 Salt bridges: C:K.60 V79.7: 1 residues within 4Å: Chain C: K.96 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain C, Salt bridges: E:K.96, C:K.96, C:K.96 V79.8: 4 residues within 4Å: Chain A: K.60 Chain B: T.59 Chain C: K.43 Chain D: K.43 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, Hydrophobic interactions: B:T.59 Salt bridges: B:K.60, A:K.60, A:K.60

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tao, Y.Q. et al., CCA-bound alpha-synuclein fibrils. To Be Published

Release Date

2023-12-06

Peptides

Alpha-synuclein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Alpha-synuclein

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