SMTL ID : 5en3.1

Crystal structure of human transthyretin in complex with luteolin-Cl at 1.25 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

homo-tetramer

Ligands

4 x 7LU: 2-[3,4-bis(oxidanyl)phenyl]-7-chloranyl-5-oxidanyl-chromen-4-one(Non-covalent)

7LU.1: 19 residues within 4Å: Chain A: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119 Chain B: S.115 Chain C: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 7LU.5 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:A.108, A:T.119, C:K.15, C:L.17, C:A.108, C:L.110 Hydrogen bonds: C:K.15, C:S.117, C:S.117, C:T.119 7LU.3: 20 residues within 4Å: Chain B: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119 Chain D: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119, V.121 Ligands: 7LU.7 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:A.108, D:L.110, B:K.15, B:L.17, B:T.119 Hydrogen bonds: D:S.117, D:T.119, B:K.15 7LU.5: 19 residues within 4Å: Chain A: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Chain C: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119 Chain D: S.115 Ligands: 7LU.1 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:K.15, A:L.17, A:A.108, A:L.110, C:A.108, C:T.119 Hydrogen bonds: A:K.15, A:S.117, A:S.117, A:T.119 7LU.7: 20 residues within 4Å: Chain B: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119, V.121 Chain D: K.15, L.17, T.106, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 7LU.3 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:A.108, B:L.110, D:K.15, D:L.17, D:T.119 Hydrogen bonds: B:S.117, B:T.119, D:K.15

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

NA.2: 3 residues within 4Å: Chain A: E.66, D.99, S.100 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.66 NA.6: 3 residues within 4Å: Chain C: E.66, D.99, S.100 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.99

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain A: S.85, P.86, F.87, Y.114 Chain B: T.96, N.98, G.101, Y.105, V.122 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.98 GOL.8: 9 residues within 4Å: Chain C: S.85, P.86, F.87, Y.114 Chain D: T.96, N.98, G.101, Y.105, V.122 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nilsson, L. et al., Modifications of the 7-Hydroxyl Group of the Transthyretin Ligand Luteolin Provide Mechanistic Insights into Its Binding Properties and High Plasma Specificity. Plos One (2016)

Release Date

2016-04-20

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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