SMTL ID : 9fzj.1

A new crystal structure of the hPXR-LBD in complex with SR12813 (P43212 form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: K.141, I.151, Q.154, I.155, L.158 Ligands: IPA.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.141 Water bridges: A:Q.154 EDO.2: 2 residues within 4Å: Chain A: A.176, Y.210 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: T.172, L.217, H.218, E.219, Y.222 4 PLIP interactions: 4 interactions with chain A Water bridges: A:T.172, A:K.213, A:K.213, A:E.219

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 6 residues within 4Å: Chain A: I.137, I.155, L.158, E.309, L.310 Ligands: EDO.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.155, A:E.309, A:L.310

1 x SRL: [2-(3,5-DI-TERT-BUTYL-4-HYDROXY-PHENYL)-1-(DIETHOXY-PHOSPHORYL)-VINYL]-PHOSPHONIC ACID DIETHLYL ESTER(Non-covalent)

SRL.5: 19 residues within 4Å: Chain A: L.91, M.125, M.128, S.129, F.133, F.163, Q.167, F.170, W.181, Y.188, M.205, L.206, H.209, H.289, T.290, L.293, I.296, F.302, F.311 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.91, A:M.125, A:F.163, A:F.170, A:F.170, A:W.181, A:W.181, A:Y.188, A:L.206, A:L.293, A:I.296, A:F.302, A:F.311 Hydrogen bonds: A:S.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carivenc, C. et al., A two-in-one expression construct for biophysical and structural studies of the human pregnane X receptor ligand-binding domain, a pharmaceutical and environmental target. Acta Crystallogr.,Sect.F (2025)

Release Date

2025-02-19

Peptides

Nuclear receptor subfamily 1 group I member 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Nuclear receptor subfamily 1 group I member 2

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