SMTL ID : 8svo.1

Crystal structure of pregnane X receptor ligand binding domain in complex with SJPYT-310

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-dimer

Ligands

2 x WSO: (1P)-N-(5-tert-butyl-2-{[(2S)-pentan-2-yl]oxy}phenyl)-1-(2-methoxy-5-methylphenyl)-5-methyl-1H-1,2,3-triazole-4-carboxamide(Non-covalent)

WSO.1: 18 residues within 4Å: Chain A: L.87, V.89, L.117, L.118, M.121, S.125, F.129, A.158, F.159, Q.163, F.166, W.177, Y.184, M.201, H.285, T.286, L.306, F.307 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.87, A:L.117, A:L.118, A:F.129, A:A.158, A:F.159, A:F.166, A:F.166, A:W.177, A:W.177, A:Y.184, A:F.307 Hydrogen bonds: A:Q.163 WSO.3: 20 residues within 4Å: Chain B: L.87, V.89, L.117, L.118, M.121, M.124, S.125, F.129, A.158, F.159, C.162, Q.163, F.166, W.177, Y.184, H.285, T.286, M.303, L.306, F.307 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.117, B:L.118, B:F.129, B:A.158, B:F.159, B:F.166, B:F.166, B:W.177, B:Y.184, B:F.307 Hydrogen bonds: B:S.125, B:Q.163

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

DMS.2: 4 residues within 4Å: Chain A: L.52, V.55, W.101 Chain B: W.101 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B pi-Cation interactions: A:W.101, A:W.101, B:W.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garcia-Maldonado, E. et al., Chemical manipulation of an activation/inhibition switch in the nuclear receptor PXR. Nat Commun (2024)

Release Date

2024-05-15

Peptides

Pregnane X receptor ligand binding domain fused to SRC-1 coactivator peptide: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pregnane X receptor ligand binding domain fused to SRC-1 coactivator peptide

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