SMTL ID : 3a4f.1

Crystal Structure of Human Transthyretin (E54K)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

homo-tetramer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: S.50, S.52, K.54, H.56 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.50, A:S.50, A:S.52 Water bridges: A:S.52 GOL.2: 5 residues within 4Å: Chain A: H.90, E.92 Chain B: K.35, W.41, V.94 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.35, A:E.92 Water bridges: B:K.70, A:K.70, A:E.92 GOL.4: 4 residues within 4Å: Chain B: S.50, S.52, K.54, H.56 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.50, B:S.52, B:K.54 GOL.5: 9 residues within 4Å: Chain A: S.117 Chain B: L.110, S.112, S.115, Y.116, S.117 Chain C: L.110, S.117 Chain D: S.117 8 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D, 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: B:S.112, D:S.117, D:S.117, A:S.117, C:S.112 Water bridges: A:S.117, A:S.117, C:S.117 GOL.6: 8 residues within 4Å: Chain B: A.108, A.109, L.110, S.117, T.118, T.119 Chain D: L.110 Ligands: GOL.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.109, B:S.117 GOL.7: 4 residues within 4Å: Chain C: S.50, S.52, K.54, H.56 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.50, C:S.50, C:S.52 Water bridges: C:S.52 GOL.8: 5 residues within 4Å: Chain C: H.90, E.92 Chain D: K.35, W.41, V.94 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:E.92, D:K.35 Water bridges: C:K.70, C:E.92, D:K.70 GOL.10: 4 residues within 4Å: Chain D: S.50, S.52, K.54, H.56 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.50, D:S.52, D:K.54 GOL.11: 9 residues within 4Å: Chain A: L.110, S.117 Chain B: S.117 Chain C: S.117 Chain D: L.110, S.112, S.115, Y.116, S.117 8 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 interactions with chain D, 3 interactions with chain C Hydrogen bonds: A:S.112, B:S.117, B:S.117, D:S.112, C:S.117 Water bridges: A:S.117, C:S.117, C:S.117 GOL.12: 8 residues within 4Å: Chain B: L.110 Chain D: A.108, A.109, L.110, S.117, T.118, T.119 Ligands: GOL.6 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.109, D:S.117

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

SO4.3: 5 residues within 4Å: Chain A: K.35, W.41 Chain B: E.72, H.90, E.92 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:E.92 Water bridges: B:K.70, B:K.70, A:K.70 Salt bridges: B:K.70, B:H.90, A:K.35, A:K.70 SO4.9: 5 residues within 4Å: Chain C: K.35, W.41 Chain D: E.72, H.90, E.92 8 PLIP interactions: 5 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:E.92 Water bridges: D:K.70, D:K.70, C:K.70 Salt bridges: D:K.70, D:H.90, C:K.35, C:K.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miyata, M. et al., Role of the glutamic acid 54 residue in transthyretin stability and thyroxine binding. Biochemistry (2010)

Release Date

2009-12-22

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin