SMTL ID : 5boj.1

Crystal Structure of Human Transthyretin in Complex with Gemfibrozil

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

4 x 4TX: 5-(2,5-dimethylphenoxy)-2,2-dimethylpentanoic acid(Non-covalent)

4TX.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 C: K.15, L.17, E.54, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 4TX.4 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:A.108, C:K.15, C:L.17, C:L.110, C:L.110 Salt bridges: A:K.15, C:K.15 4TX.3: 19 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, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 4TX.6 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:A.108, B:L.110, B:L.110, D:K.15, D:L.110 Water bridges: B:K.15, D:K.15 Salt bridges: B:K.15, D:K.15 4TX.4: 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, T.106, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 4TX.1 7 PLIP interactions: 2 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:A.108, A:K.15, A:L.17, A:L.110, A:L.110 Salt bridges: C:K.15, A:K.15 4TX.6: 19 residues within 4Å: Chain B: K.15, L.17, 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: 4TX.3 9 PLIP interactions: 5 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:A.108, D:L.110, D:L.110, B:K.15, B:L.110 Water bridges: D:K.15, B:K.15 Salt bridges: D:K.15, B: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:D.99 NA.5: 3 residues within 4Å: Chain C: E.66, D.99, S.100 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iakovleva, I. et al., Enthalpic Forces Correlate with the Selectivity of Transthyretin-Stabilizing Ligands in Human Plasma. J.Med.Chem. (2015)

Release Date

2015-08-05

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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