SMTL ID : 5akt.1

Transthyretin binding heterogeneity and anti-amyloidogenic activity of natural polyphenols and their metabolites: resveratrol-4'-O- glucuronide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-tetramer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: K.35, W.41 Chain B: K.70, E.72, H.90 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Water bridges: A:W.41, B:K.70, B:K.70 Salt bridges: A:K.35, B:K.70, B:H.90 SO4.2: 5 residues within 4Å: Chain A: E.72, H.90, E.92 Chain B: K.35, W.41 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:E.72, A:E.92 Water bridges: A:K.70, B:K.35, B:K.35, B:K.35, B:K.70, B:K.70 Salt bridges: A:K.70, A:H.90, B:K.35 SO4.5: 5 residues within 4Å: Chain C: K.35, W.41 Chain D: K.70, E.72, H.90 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Water bridges: D:K.70, D:K.70, C:W.41 Salt bridges: D:K.70, D:H.90, C:K.35 SO4.6: 5 residues within 4Å: Chain C: E.72, H.90, E.92 Chain D: K.35, W.41 11 PLIP interactions: 6 interactions with chain D, 5 interactions with chain C Water bridges: D:K.35, D:K.35, D:K.35, D:K.70, D:K.70, C:K.70 Salt bridges: D:K.35, C:K.70, C:H.90 Hydrogen bonds: C:E.72, C:E.92

4 x R4G: Resveratrol-4'-O-glucuronide(Non-covalent)

R4G.3: 17 residues within 4Å: Chain A: M.13, K.15, L.17, E.54, L.110, S.117, T.119 Chain C: K.15, L.17, S.52, E.54, A.108, L.110, S.117, T.118, T.119 Ligands: R4G.7 20 PLIP interactions: 10 interactions with chain C, 10 interactions with chain A Hydrophobic interactions: C:K.15, C:L.17, C:A.108, C:L.110, C:T.119, A:K.15, A:L.17, A:T.119 Hydrogen bonds: C:E.54, A:K.15, A:K.15, A:E.54 Water bridges: C:K.15, C:K.15, A:T.106, A:S.117, A:S.117 Salt bridges: C:K.15, C:K.15, A:K.15 R4G.4: 16 residues within 4Å: Chain B: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Chain D: M.13, K.15, L.17, E.54, L.110, S.117, T.118, T.119 Ligands: R4G.8 12 PLIP interactions: 6 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:L.17, B:L.110, D:L.17 Hydrogen bonds: B:S.117, B:T.119, D:K.15, D:K.15, D:T.119 Salt bridges: B:K.15, B:K.15, D:K.15 Water bridges: D:T.106 R4G.7: 17 residues within 4Å: Chain A: K.15, L.17, S.52, E.54, A.108, L.110, S.117, T.118, T.119 Chain C: M.13, K.15, L.17, E.54, L.110, S.117, T.119 Ligands: R4G.3 20 PLIP interactions: 10 interactions with chain C, 10 interactions with chain A Hydrophobic interactions: C:K.15, C:L.17, C:T.119, A:K.15, A:L.17, A:A.108, A:L.110, A:T.119 Hydrogen bonds: C:K.15, C:K.15, C:E.54, A:E.54 Water bridges: C:T.106, C:S.117, C:S.117, A:K.15, A:K.15 Salt bridges: C:K.15, A:K.15, A:K.15 R4G.8: 16 residues within 4Å: Chain B: M.13, K.15, L.17, E.54, L.110, S.117, T.118, T.119 Chain D: K.15, L.17, A.108, L.110, S.117, T.118, T.119 Ligands: R4G.4 12 PLIP interactions: 6 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:L.17, D:L.17, D:L.110 Hydrogen bonds: B:K.15, B:K.15, B:T.119, D:S.117, D:T.119 Water bridges: B:T.106 Salt bridges: B:K.15, D:K.15, 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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