SMTL ID : 8svr.1

Crystal structure of pregnane X receptor ligand binding domain in complex with SJPYT-326

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.92 Å

Oligo State

homo-dimer

Ligands

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

DMS.1: 5 residues within 4Å: Chain A: L.52, W.101 Chain B: P.53, V.55, W.101 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A pi-Cation interactions: B:W.101, A:W.101, A:W.101

2 x WT1: (1P)-N-(5-tert-butyl-2-{[(3S)-hexan-3-yl]oxy}phenyl)-5-methyl-1-(2,4,5-trimethoxyphenyl)-1H-1,2,3-triazole-4-carboxamide(Non-covalent)

WT1.2: 14 residues within 4Å: Chain A: L.87, V.89, L.117, M.121, S.125, F.129, F.159, Q.163, F.166, W.177, Y.184, H.205, H.285, L.289 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.87, A:L.117, A:F.166, A:F.166, A:W.177, A:W.177, A:W.177, A:Y.184, A:L.289 Hydrogen bonds: A:S.125, A:Q.163 pi-Stacking: A:H.285 WT1.3: 19 residues within 4Å: Chain B: L.87, V.89, L.117, L.118, M.121, S.125, F.129, F.159, Q.163, F.166, W.177, Y.184, M.201, H.205, H.285, T.286, L.289, L.306, F.307 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.117, B:L.118, B:F.159, B:F.166, B:F.166, B:F.166, B:W.177, B:W.177, B:Y.184, B:L.289, B:F.307 Hydrogen bonds: B:S.125, B:Q.163

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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