SMTL ID : 3w0i.1

Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x O11: (2S)-3-{4-[3-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}phenyl)pentan-3-yl]phenoxy}propane-1,2-diol(Non-covalent)

O11.1: 16 residues within 4Å: Chain A: Y.23, F.30, L.56, L.59, A.60, L.62, V.63, S.66, I.100, R.103, S.104, W.115, Y.124, V.129, H.134, H.226 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.63, A:I.100, A:W.115, A:W.115, A:Y.124, A:V.129, A:V.129 Hydrogen bonds: A:S.66, A:R.103, A:H.134 Water bridges: A:T.22, A:D.24, A:D.24, A:Y.65 pi-Stacking: A:W.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Asano, L. et al., Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands. Febs Lett. (2013)

Release Date

2013-10-09

Peptides

Vitamin D3 Receptor: A
Mediator of RNA polymerase II transcription subunit 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Vitamin D3 Receptor

Mediator of RNA polymerase II transcription subunit 1

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