SMTL ID : 5jiq.1

Crystal Structure of Human Transthyretin in Complex with 2,2',4,4'-tetrahydroxybenzophenone (BP2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

4 x 27M: bis(2,4-dihydroxyphenyl)methanone(Non-covalent)

27M.1: 18 residues within 4Å: Chain A: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Chain B: S.115 Chain C: K.15, V.16, L.17, A.108, A.109, L.110, S.117, T.119 Ligands: 27M.5 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:L.17, A:A.108, A:T.119, C:K.15, C:A.108, C:L.110, C:L.110 Hydrogen bonds: A:L.110, C:K.15, C:L.17, C:A.109, C:L.110 27M.3: 19 residues within 4Å: Chain A: S.115 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, L.110, S.117, T.119, V.121 Ligands: 27M.7, GOL.8 7 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: B:A.108, D:L.17, D:A.108, D:L.110 Hydrogen bonds: A:S.115, A:S.115, D:S.117 27M.5: 18 residues within 4Å: Chain A: K.15, V.16, L.17, A.108, A.109, L.110, S.117, T.119 Chain C: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Chain D: S.115 Ligands: 27M.1 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:K.15, A:A.108, A:L.110, A:L.110, C:L.17, C:A.108, C:T.119 Hydrogen bonds: A:K.15, A:L.17, A:A.109, A:L.110, C:L.110 27M.7: 19 residues within 4Å: Chain B: K.15, L.17, T.106, A.108, L.110, S.117, T.119, V.121 Chain C: S.115 Chain D: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 27M.3, GOL.4 7 PLIP interactions: 4 interactions with chain B, 1 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: B:L.17, B:A.108, B:L.110, D:A.108 Hydrogen bonds: B:S.117, C:S.115, C:S.115

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

NA.2: 2 residues within 4Å: Chain A: D.99, S.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.99 Water bridges: A:G.101 NA.6: 2 residues within 4Å: Chain C: D.99, S.100 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.99 Water bridges: C:G.101

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 16 residues within 4Å: Chain A: S.117 Chain B: A.19, L.110, S.112, S.115, S.117 Chain C: A.19, L.110, L.111, S.112, S.115, Y.116, S.117 Chain D: S.117 Ligands: 27M.7, GOL.8 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 1 interactions with chain D Hydrogen bonds: C:L.111, C:Y.116, B:S.117, D:S.117 GOL.8: 16 residues within 4Å: Chain A: A.19, L.110, L.111, S.112, S.115, Y.116, S.117 Chain B: S.117 Chain C: S.117 Chain D: A.19, L.110, S.112, S.115, S.117 Ligands: 27M.3, GOL.4 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 1 interactions with chain D Hydrogen bonds: B:S.117, A:L.111, A:Y.116, D:S.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J. et al., Structure-Based Virtual Screening Protocol for in Silico Identification of Potential Thyroid Disrupting Chemicals Targeting Transthyretin. Environ. Sci. Technol. (2016)

Release Date

2016-10-05

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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