SMTL ID : 8w42.1

X-ray crystal structure of V30M-TTR in complex with resveratrol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

4 x STL: RESVERATROL(Non-covalent)

STL.1: 11 residues within 4Å: Chain A: K.47, L.49, A.140, L.142, S.149 Chain C: K.47, T.138, A.140, L.142, S.149 Ligands: STL.4 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:K.47, A:L.49, A:A.140, A:L.142, A:L.142, C:A.140 Hydrogen bonds: A:K.47, A:K.47, A:S.149, C:S.149 Water bridges: C:K.47, C:K.47 STL.2: 12 residues within 4Å: Chain B: K.47, L.49, T.138, A.140, L.142, S.149 Chain D: K.47, L.49, A.140, L.142, S.149 Ligands: STL.5 13 PLIP interactions: 6 interactions with chain B, 7 interactions with chain D Hydrophobic interactions: B:A.140, B:L.142, D:K.47, D:L.49, D:A.140, D:L.142 Hydrogen bonds: B:S.149, B:S.149, D:S.149 Water bridges: B:K.47, B:K.47, D:K.47, D:K.47 STL.4: 11 residues within 4Å: Chain A: K.47, T.138, A.140, L.142, S.149 Chain C: K.47, L.49, A.140, L.142, S.149 Ligands: STL.1 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:A.140, C:K.47, C:L.49, C:A.140, C:L.142, C:L.142 Hydrogen bonds: A:S.149, C:K.47, C:K.47, C:S.149 Water bridges: A:K.47, A:K.47 STL.5: 12 residues within 4Å: Chain B: K.47, L.49, A.140, L.142, S.149 Chain D: K.47, L.49, T.138, A.140, L.142, S.149 Ligands: STL.2 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:K.47, B:L.49, B:A.140, B:L.142, D:A.140, D:L.142 Hydrogen bonds: B:S.149, D:S.149, D:S.149 Water bridges: B:K.47, B:K.47, D:K.47, D:K.47

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 2 residues within 4Å: Chain B: D.131, S.132 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.132 NA.6: 2 residues within 4Å: Chain D: D.131, S.132 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Resveratrol Derivatives Inhibit Transthyretin Fibrillization: Structural Insights into the Interactions between Resveratrol Derivatives and Transthyretin. J.Med.Chem. (2023)

Release Date

2023-11-22

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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