SMTL ID : 7dt3.1

Crystal structure of human transthyretin in complex with 4-chloro-9,10-dioxo-9,10-dihydroanthracene-2-carboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: E.98, D.131 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.98, A:D.131, A:D.131, H2O.4 CA.3: 2 residues within 4Å: Chain B: E.98, N.130 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.98 CA.5: 2 residues within 4Å: Chain C: E.98, D.131 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.98, C:D.131, C:D.131, H2O.11 CA.7: 2 residues within 4Å: Chain D: E.98, N.130 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:E.98

4 x HG6: 4-chloranyl-9,10-bis(oxidanylidene)anthracene-2-carboxylic acid(Non-covalent)

HG6.2: 13 residues within 4Å: Chain A: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Chain C: K.47, L.49, A.140, A.141, L.142 Ligands: HG6.6 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:K.47, C:L.49, C:A.140, C:L.142, A:A.140, A:L.142 Salt bridges: C:K.47, A:K.47 Halogen bonds: C:A.141 Water bridges: A:K.47 HG6.4: 11 residues within 4Å: Chain B: K.47, L.49, A.140, A.141, L.142 Chain D: L.49, A.140, A.141, L.142, S.149 Ligands: HG6.8 7 PLIP interactions: 2 interactions with chain D, 5 interactions with chain B Hydrophobic interactions: D:A.140, D:L.142, B:K.47, B:L.49, B:L.142 Halogen bonds: B:K.47, B:A.141 HG6.6: 13 residues within 4Å: Chain A: K.47, L.49, A.140, A.141, L.142 Chain C: K.47, L.49, A.140, A.141, L.142, S.149, T.151 Ligands: HG6.2 10 PLIP interactions: 4 interactions with chain C, 6 interactions with chain A Hydrophobic interactions: C:A.140, C:L.142, A:K.47, A:L.49, A:A.140, A:L.142 Water bridges: C:K.47 Salt bridges: C:K.47, A:K.47 Halogen bonds: A:A.141 HG6.8: 11 residues within 4Å: Chain B: L.49, A.140, A.141, L.142, S.149 Chain D: K.47, L.49, A.140, A.141, L.142 Ligands: HG6.4 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:K.47, D:L.49, D:L.142, B:A.140, B:L.142 Halogen bonds: D:K.47, D:A.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kitakami, R. et al., Inhibitory activities of anthraquinone and xanthone derivatives against transthyretin amyloidogenesis. Bioorg.Med.Chem. (2021)

Release Date

2021-10-13

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin

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