SMTL ID : 2zfx.1

Crystal structure of the rat vitamin D receptor ligand binding domain complexed with YR301 and a synthetic peptide containing the NR2 box of DRIP 205

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

hetero-1-1-mer

Ligands

1 x YR3: (2S)-3-{4-[1-ethyl-1-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}-3-methylphenyl)propyl]-2-methylphenoxy}propane-1,2-diol(Non-covalent)

YR3.1: 23 residues within 4Å: Chain A: Y.32, L.65, L.68, A.69, L.71, V.72, Y.74, S.75, I.109, M.110, R.112, S.113, S.116, W.124, C.126, Y.133, V.138, H.143, L.147, H.235, Y.239, L.242, F.260 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.68, A:A.69, A:L.71, A:L.71, A:V.72, A:I.109, A:W.124, A:W.124, A:Y.133, A:V.138, A:V.138, A:L.147, A:Y.239, A:Y.239, A:L.242, A:F.260 Hydrogen bonds: A:S.75, A:R.112, A:R.112 Water bridges: A:T.31, A:D.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kakuda, S. et al., Structure of the ligand-binding domain of rat VDR in complex with the nonsecosteroidal vitamin D3 analogue YR301. Acta Crystallogr.,Sect.F (2008)

Release Date

2009-01-20

Peptides

Vitamin D3 receptor: A
DRIP 205 NR2 box peptide: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Vitamin D3 receptor

DRIP 205 NR2 box peptide

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