SMTL ID : 7upg.1

Tau Paired Helical Filament from Alzheimer's Disease incubated with EGCG for 3 hours

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-10-mer

Ligands

10 x KDH: (2R,3R)-5,7-dihydroxy-2-(3,4,5-trihydroxyphenyl)-3,4-dihydro-2H-chromen-3-yl 3,4,5-trihydroxybenzoate(Non-covalent)

KDH.1: 9 residues within 4Å: Chain A: E.338, K.340 Chain B: N.327, H.329 Chain C: K.340 Chain F: N.327, H.329 Ligands: KDH.4, KDH.6 7 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A, 3 interactions with chain F Hydrogen bonds: B:N.327, B:H.329, C:K.340, A:K.340, F:N.327, F:N.327, F:N.327 KDH.2: 9 residues within 4Å: Chain A: N.327, H.329 Chain B: K.340 Chain E: N.327, H.329 Chain F: E.338, K.340 Ligands: KDH.3, KDH.7 7 PLIP interactions: 1 interactions with chain B, 1 interactions with chain F, 2 interactions with chain A, 3 interactions with chain E Hydrogen bonds: B:K.340, F:K.340, A:N.327, A:H.329, E:N.327, E:N.327, E:N.327 KDH.3: 9 residues within 4Å: Chain A: N.327, H.329 Chain B: E.338, K.340 Chain C: N.327, H.329 Chain D: K.340 Ligands: KDH.2, KDH.5 7 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A, 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: B:K.340, A:N.327, A:N.327, A:N.327, C:N.327, C:H.329, D:K.340 KDH.4: 9 residues within 4Å: Chain B: N.327, H.329 Chain C: E.338, K.340 Chain D: N.327, H.329 Chain G: K.340 Ligands: KDH.1, KDH.8 7 PLIP interactions: 1 interactions with chain G, 2 interactions with chain D, 1 interactions with chain C, 3 interactions with chain B Hydrogen bonds: G:K.340, D:N.327, D:H.329, C:K.340, B:N.327, B:N.327, B:N.327 KDH.5: 9 residues within 4Å: Chain C: N.327, H.329 Chain D: E.338, K.340 Chain G: N.327, H.329 Chain H: K.340 Ligands: KDH.3, KDH.9 7 PLIP interactions: 3 interactions with chain C, 2 interactions with chain G, 1 interactions with chain H, 1 interactions with chain D Hydrogen bonds: C:N.327, C:N.327, C:N.327, G:N.327, G:H.329, H:K.340, D:K.340 KDH.6: 9 residues within 4Å: Chain A: K.340 Chain E: E.338, K.340 Chain F: N.327, H.329 Chain J: N.327, H.329 Ligands: KDH.1, KDH.10 7 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E, 3 interactions with chain J, 1 interactions with chain A Hydrogen bonds: F:N.327, F:H.329, E:K.340, J:N.327, J:N.327, J:N.327, A:K.340 KDH.7: 8 residues within 4Å: Chain E: N.327, H.329 Chain F: K.340 Chain I: N.327, H.329 Chain J: E.338, K.340 Ligands: KDH.2 7 PLIP interactions: 2 interactions with chain E, 3 interactions with chain I, 1 interactions with chain J, 1 interactions with chain F Hydrogen bonds: E:N.327, E:H.329, I:N.327, I:N.327, I:N.327, J:K.340, F:K.340 KDH.8: 7 residues within 4Å: Chain D: N.327, H.329 Chain G: E.338, K.340 Chain H: N.327, H.329 Ligands: KDH.4 6 PLIP interactions: 2 interactions with chain H, 1 interactions with chain G, 3 interactions with chain D Hydrogen bonds: H:N.327, H:H.329, G:K.340, D:N.327, D:N.327, D:N.327 KDH.9: 5 residues within 4Å: Chain G: N.327, H.329 Chain H: E.338, K.340 Ligands: KDH.5 5 PLIP interactions: 4 interactions with chain G, 1 interactions with chain H Hydrogen bonds: G:N.327, G:N.327, G:N.327, G:H.329, H:K.340 KDH.10: 6 residues within 4Å: Chain E: K.340 Chain I: E.338, K.340 Chain J: N.327, H.329 Ligands: KDH.6 4 PLIP interactions: 2 interactions with chain J, 1 interactions with chain E, 1 interactions with chain I Hydrogen bonds: J:N.327, J:H.329, E:K.340, I:K.340

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seidler, P.M. et al., Structure-based discovery of small molecules that disaggregate Alzheimer's disease tissue derived tau fibrils in vitro. Nat Commun (2022)

Release Date

2022-09-28

Peptides

Isoform Tau-F of Microtubule-associated protein tau: ABCDEFGHIJ

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

Isoform Tau-F of Microtubule-associated protein tau

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