SMTL ID : 8hej.1

Crystal structure of Transthyretin in complex with a covalent inhibitor trans-styrylpyrazole

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-tetramer

Ligands

4 x XHF: 2,6-dibromo-4-[(E)-2-(3,5-dimethyl-1H-pyrazol-4-yl)ethenyl]phenol(Non-covalent)

XHF.1: 19 residues within 4Å: Chain A: K.5, L.7, T.96, A.98, L.100, S.107, T.108, T.109 Chain C: K.5, L.7, T.96, A.98, L.100, S.107, T.108, T.109 Ligands: XHB.2, XHF.5, XHB.6 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:L.7, A:A.98, A:L.100, C:L.7, C:A.98 Hydrogen bonds: A:K.5, A:S.107, C:K.5, C:S.107, C:S.107 XHF.3: 17 residues within 4Å: Chain B: K.5, L.7, A.98, L.100, S.107, T.108, T.109 Chain D: K.5, L.7, T.96, A.98, L.100, S.107, T.108 Ligands: XHB.4, XHF.7, XHB.8 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain B Hydrophobic interactions: D:L.7, D:A.98, D:L.100, B:L.7, B:A.98 Hydrogen bonds: D:K.5, D:S.107, D:S.107, B:S.107 XHF.5: 19 residues within 4Å: Chain A: K.5, L.7, T.96, A.98, L.100, S.107, T.108, T.109 Chain C: K.5, L.7, T.96, A.98, L.100, S.107, T.108, T.109 Ligands: XHF.1, XHB.2, XHB.6 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:L.7, A:A.98, C:L.7, C:A.98, C:L.100 Hydrogen bonds: A:K.5, A:S.107, A:S.107, C:K.5, C:S.107 XHF.7: 17 residues within 4Å: Chain B: K.5, L.7, T.96, A.98, L.100, S.107, T.108 Chain D: K.5, L.7, A.98, L.100, S.107, T.108, T.109 Ligands: XHF.3, XHB.4, XHB.8 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain D Hydrophobic interactions: B:L.7, B:A.98, B:L.100, D:L.7, D:A.98 Hydrogen bonds: B:K.5, B:S.107, B:S.107, D:S.107

4 x XHB: 2,4,6-trifluorobenzaldehyde(Covalent)

XHB.2: 8 residues within 4Å: Chain A: K.5, L.7, P.14, S.42, E.44 Chain C: V.111 Ligands: XHF.1, XHF.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.14 XHB.4: 6 residues within 4Å: Chain B: K.5, P.14, S.42 Chain D: V.111 Ligands: XHF.3, XHF.7 No protein-ligand interaction detected (PLIP) XHB.6: 8 residues within 4Å: Chain A: V.111 Chain C: K.5, L.7, P.14, S.42, E.44 Ligands: XHF.1, XHF.5 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:P.14 XHB.8: 6 residues within 4Å: Chain B: V.111 Chain D: K.5, P.14, S.42 Ligands: XHF.3, XHF.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, S. et al., Crystal structure of Transthyretin in complex with a covalent inhibitor trans-styrylpyrazole. To Be Published

Release Date

2023-11-15

Peptides

Transthyretin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transthyretin