SMTL ID : 5al8.1

Transthyretin binding heterogeneity and anti-amyloidogenic activity of natural polyphenols and their metabolites: daidzein-7-O- glucuronide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

4 x D75: DAIDZEIN-7-O-GLUCURONIDE(Non-covalent)

D75.1: 19 residues within 4Å: Chain A: K.15, L.17, E.54, A.108, A.109, L.110, S.117, T.118, T.119 Chain C: K.15, L.17, S.52, E.54, A.108, A.109, L.110, S.117, T.119 Ligands: D75.3 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:K.15, A:L.110, A:L.110, C:L.17 Hydrogen bonds: A:E.54, A:S.117, C:K.15 Water bridges: A:K.15, A:K.15, C:A.109 Salt bridges: A:K.15, C:K.15 D75.2: 22 residues within 4Å: Chain B: M.13, K.15, L.17, E.54, R.104, T.106, A.108, L.110, S.117, T.118, T.119 Chain D: K.15, L.17, E.54, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Ligands: D75.4 12 PLIP interactions: 7 interactions with chain B, 5 interactions with chain D Hydrophobic interactions: B:L.17, B:L.110, D:K.15, D:A.108, D:L.110 Hydrogen bonds: B:R.104, B:S.117, D:K.15 Water bridges: B:H.56 Salt bridges: B:K.15, D:K.15 pi-Cation interactions: B:K.15 D75.3: 19 residues within 4Å: Chain A: K.15, L.17, S.52, E.54, A.108, A.109, L.110, S.117, T.119 Chain C: K.15, L.17, E.54, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: D75.1 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:L.17, C:K.15, C:L.110, C:L.110 Hydrogen bonds: A:K.15, C:E.54, C:S.117 Water bridges: A:A.109, C:K.15, C:K.15 Salt bridges: A:K.15, C:K.15 D75.4: 22 residues within 4Å: Chain B: K.15, L.17, E.54, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Chain D: M.13, K.15, L.17, E.54, R.104, T.106, A.108, L.110, S.117, T.118, T.119 Ligands: D75.2 12 PLIP interactions: 5 interactions with chain B, 7 interactions with chain D Hydrophobic interactions: B:K.15, B:A.108, B:L.110, D:L.17, D:L.110 Hydrogen bonds: B:K.15, D:R.104, D:S.117 Salt bridges: B:K.15, D:K.15 Water bridges: D:H.56 pi-Cation interactions: D:K.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Florio, P. et al., Transthyretin Binding Heterogeneity and Anti-Amyloidogenic Activity of Natural Polyphenols and Their Metabolites. J.Biol.Chem. (2015)

Release Date

2015-10-21

Peptides

TRANSTHYRETIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

TRANSTHYRETIN

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