SMTL ID : 5ayt.1

Crystal structure of transthyretin in complex with L6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

4 x L6Y: 2-oxidanyl-6-(phenylcarbonyl)benzo[de]isoquinoline-1,3-dione(Non-covalent)

L6Y.1: 14 residues within 4Å: Chain A: K.47, L.49, A.140, L.142, T.151, V.153 Chain C: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Ligands: L6Y.3 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:L.49, A:A.140, A:L.142, A:V.153, C:L.49, C:A.140, C:L.142 Hydrogen bonds: A:K.47, C:K.47 Water bridges: A:T.151 L6Y.2: 14 residues within 4Å: Chain B: K.47, L.49, A.140, L.142, T.151, V.153 Chain D: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Ligands: L6Y.4 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:L.49, B:A.140, B:L.142, B:V.153, D:L.49, D:L.49, D:A.140, D:A.140, D:L.142 Hydrogen bonds: B:K.47, B:K.47, B:T.151, D:K.47 L6Y.3: 14 residues within 4Å: Chain A: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Chain C: K.47, L.49, A.140, L.142, T.151, V.153 Ligands: L6Y.1 10 PLIP interactions: 4 interactions with chain A, 6 interactions with chain C Hydrophobic interactions: A:L.49, A:A.140, A:L.142, C:L.49, C:A.140, C:L.142, C:V.153 Hydrogen bonds: A:K.47, C:K.47 Water bridges: C:T.151 L6Y.4: 14 residues within 4Å: Chain B: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Chain D: K.47, L.49, A.140, L.142, T.151, V.153 Ligands: L6Y.2 13 PLIP interactions: 6 interactions with chain B, 7 interactions with chain D Hydrophobic interactions: B:L.49, B:L.49, B:A.140, B:A.140, B:L.142, D:L.49, D:A.140, D:L.142, D:V.153 Hydrogen bonds: B:K.47, D:K.47, D:K.47, D:T.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Structural stabilization of transthyretin by a new compound, 6-benzoyl-2-hydroxy-1H-benzo[de]isoquinoline-1,3(2H)-dione. J. Pharmacol. Sci. (2015)

Release Date

2016-01-20

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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