SMTL ID : 5l4f.1

Crystal Structure of Human Transthyretin in Complex with 2,6-Dinitro-p-cresol (DNPC)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.48 Å

Oligo State

homo-tetramer

Ligands

4 x 6J1: 2,6-Dinitro-p-cresol(Non-covalent)

6J1.1: 15 residues within 4Å: Chain A: M.13, K.15, L.17, T.106, A.108, V.121 Chain C: K.15, L.17, T.106, A.108, A.109, L.110, T.119, V.121 Ligands: 6J1.4 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:K.15, C:K.15 Hydrophobic interactions: C:L.17 6J1.3: 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 C: S.115 Chain D: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 6J1.6 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:S.117, B:S.117 Water bridges: D:S.117, B:S.117 6J1.4: 15 residues within 4Å: Chain A: K.15, L.17, T.106, A.108, A.109, L.110, T.119, V.121 Chain C: M.13, K.15, L.17, T.106, A.108, V.121 Ligands: 6J1.1 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.17 Hydrogen bonds: A:K.15, C:K.15 6J1.6: 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 C: S.115 Chain D: K.15, L.17, A.108, A.109, L.110, S.117, T.118, T.119 Ligands: 6J1.3 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:S.117, B:S.117 Water bridges: D:S.117, B:S.117

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

NA.2: 3 residues within 4Å: Chain A: E.66, D.99, S.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.66 Water bridges: A:G.101 NA.5: 3 residues within 4Å: Chain C: E.66, D.99, S.100 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.66 Water bridges: C:G.101

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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