SMTL ID : 4wns.1

Crystal structure of Transthyretin complexed with pterostilbene

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: K.70, E.72, H.90 Chain B: K.35, W.41, K.70, V.94 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:W.41, A:E.72 Water bridges: B:K.35, B:D.39, B:K.70, B:K.70, A:K.70 Salt bridges: B:K.35, B:K.70, A:K.70, A:H.90 SO4.3: 8 residues within 4Å: Chain A: K.35, W.41, K.70, V.94 Chain B: K.70, E.72, H.90, E.92 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:E.92, B:E.92, A:W.41 Water bridges: B:K.70, B:K.70, B:K.70, B:K.70, A:K.35 Salt bridges: B:K.70, B:H.90, A:K.35, A:K.70 SO4.7: 7 residues within 4Å: Chain C: K.70, E.72, H.90 Chain D: K.35, W.41, K.70, V.94 11 PLIP interactions: 7 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:W.41, C:E.72 Water bridges: D:K.35, D:D.39, D:K.70, D:K.70, C:K.70 Salt bridges: D:K.35, D:K.70, C:K.70, C:H.90 SO4.9: 8 residues within 4Å: Chain C: K.35, W.41, K.70, V.94 Chain D: K.70, E.72, H.90, E.92 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain D Hydrogen bonds: C:W.41, D:E.92, D:E.92 Water bridges: C:K.35, D:K.70, D:K.70, D:K.70, D:K.70 Salt bridges: C:K.35, C:K.70, D:K.70, D:H.90

6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 3 residues within 4Å: Chain A: S.50, E.51, S.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.51 Salt bridges: A:E.51 DMS.4: 5 residues within 4Å: Chain B: I.26, N.27, Y.78, A.81, L.82 1 PLIP interactions: 1 interactions with chain B Water bridges: B:I.26 DMS.5: 10 residues within 4Å: Chain B: P.11, F.64, E.66, A.97, N.98, D.99, G.101, P.102, R.103, Y.105 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:D.99 DMS.8: 3 residues within 4Å: Chain C: S.50, E.51, S.52 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.51 Salt bridges: C:E.51 DMS.10: 5 residues within 4Å: Chain D: I.26, N.27, Y.78, A.81, L.82 1 PLIP interactions: 1 interactions with chain D Water bridges: D:I.26 DMS.11: 10 residues within 4Å: Chain D: P.11, F.64, E.66, A.97, N.98, D.99, G.101, P.102, R.103, Y.105 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:D.99

2 x 3RL: Pterostilbene(Non-covalent)

3RL.6: 22 residues within 4Å: Chain B: M.13, K.15, L.17, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Chain D: M.13, K.15, L.17, E.54, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Ligands: 3RL.12 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:A.108, B:L.110, D:K.15, D:L.110 Hydrogen bonds: B:S.117 3RL.12: 22 residues within 4Å: Chain B: M.13, K.15, L.17, E.54, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Chain D: M.13, K.15, L.17, T.106, A.108, L.110, S.117, T.118, T.119, V.121 Ligands: 3RL.6 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain D Hydrophobic interactions: B:K.15, B:L.110, D:A.108, D:L.110 Hydrogen bonds: D:S.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cianci, M. et al., Structural evidence for asymmetric ligand binding to transthyretin. Acta Crystallogr.,Sect.D (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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