SMTL ID : 7z60.1

Human transthyretin (TTR) complexed with Quercetin 3-O-beta-D-galactoside

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: K.70, H.90, E.92 Chain B: W.41, K.70, E.92 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.70, A:K.70 Water bridges: B:K.35, B:K.35, A:K.70 EDO.4: 6 residues within 4Å: Chain C: K.70, H.90, E.92 Chain D: W.41, K.70, E.92 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:K.70, D:K.70 Water bridges: C:K.70, D:K.35, D:K.35

2 x J6O: 2-[3,4-bis(oxidanyl)phenyl]-3-[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5,7-bis(oxidanyl)chromen-4-one(Non-covalent)

J6O.2: 17 residues within 4Å: Chain B: K.15, L.17, T.106, A.108, L.110, T.119, V.121 Chain D: K.15, L.17, S.52, E.54, T.106, A.108, S.117, T.119, V.121 Ligands: J6O.5 13 PLIP interactions: 8 interactions with chain D, 5 interactions with chain B Hydrophobic interactions: D:K.15, D:L.17, D:A.108, B:A.108 Hydrogen bonds: D:E.54, D:S.117, D:S.117, D:T.119 pi-Cation interactions: D:K.15 Water bridges: B:T.106, B:T.119, B:T.123 Salt bridges: B:K.15 J6O.5: 17 residues within 4Å: Chain B: K.15, L.17, S.52, E.54, T.106, A.108, S.117, T.119, V.121 Chain D: K.15, L.17, T.106, A.108, L.110, T.119, V.121 Ligands: J6O.2 13 PLIP interactions: 5 interactions with chain D, 8 interactions with chain B Hydrophobic interactions: D:A.108, B:K.15, B:L.17, B:A.108 Water bridges: D:T.106, D:T.119, D:T.123 Salt bridges: D:K.15 Hydrogen bonds: B:E.54, B:S.117, B:S.117, B:T.119 pi-Cation interactions: B:K.15

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 5 residues within 4Å: Chain A: K.35, W.41 Chain B: K.70, H.90, E.92 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.70 IMD.6: 5 residues within 4Å: Chain C: K.35, W.41 Chain D: K.70, H.90, E.92 1 PLIP interactions: 1 interactions with chain D Water bridges: D:K.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ciccone, L. et al., Antioxidant Quercetin 3-O-Glycosylated Plant Flavonols Contribute to Transthyretin Stabilization. Crystals (2022)

Release Date

2022-05-18

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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