SMTL ID : 7q9o.1

Complex of Transthyretin with resveratrol exhibits multiple binding modes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-tetramer

Ligands

4 x STL: RESVERATROL(Non-covalent)

STL.1: 12 residues within 4Å: Chain A: K.7, L.9, L.102, S.109, T.111 Chain C: K.7, L.9, T.98, A.100, L.102, S.109 Ligands: STL.5 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:K.7, A:L.9, A:L.102, A:T.111, C:L.102 Hydrogen bonds: A:S.109, A:S.109, C:S.109 STL.3: 10 residues within 4Å: Chain B: K.7, L.9, A.100, L.102, S.109 Chain D: K.7, L.9, L.102, S.109 Ligands: STL.7 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain D Hydrophobic interactions: B:L.102, D:K.7, D:L.9, D:L.102 Hydrogen bonds: B:S.109, D:S.109, D:S.109 Water bridges: B:T.98 STL.5: 12 residues within 4Å: Chain A: K.7, L.9, T.98, A.100, L.102, S.109 Chain C: K.7, L.9, L.102, S.109, T.111 Ligands: STL.1 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:L.102, C:K.7, C:L.9, C:L.102, C:T.111 Hydrogen bonds: A:S.109, C:S.109, C:S.109 STL.7: 10 residues within 4Å: Chain B: K.7, L.9, L.102, S.109 Chain D: K.7, L.9, A.100, L.102, S.109 Ligands: STL.3 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:K.7, B:L.9, B:L.102, D:L.102 Hydrogen bonds: B:S.109, B:S.109, D:S.109

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 11 residues within 4Å: Chain A: S.109 Chain B: A.11, L.102, L.103, S.104, S.107, Y.108, S.109 Chain C: L.102, S.104, S.107 6 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:S.104, C:L.102, C:S.104, A:S.109 Water bridges: C:S.109, A:S.109 GOL.6: 11 residues within 4Å: Chain A: L.102, S.104, S.107 Chain C: S.109 Chain D: A.11, L.102, L.103, S.104, S.107, Y.108, S.109 6 PLIP interactions: 1 interactions with chain D, 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: D:S.104, A:L.102, A:S.104, C:S.109 Water bridges: A:S.109, C:S.109

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

NA.4: 1 residues within 4Å: Chain B: D.91 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.91 Water bridges: B:G.93 NA.8: 1 residues within 4Å: Chain D: D.91 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.91 Water bridges: D:G.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Begum, A. et al., Transthyretin Binding Mode Dichotomy of Fluorescent trans -Stilbene Ligands. Acs Chem Neurosci (2023)

Release Date

2022-11-23

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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