SMTL ID : 4ynk.1

Crystal structure of vitamin D receptor ligand binding domain complexed with a 19-norvitamin D compound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x YW2: (1R,3R,7E,17beta)-17-{(5S)-5-hydroxy-5-[(3R,5R,7R)-tricyclo[3.3.1.1~3,7~]dec-1-yl]penta-1,3-diyn-1-yl}-2-methylidene-9,10-secoestra-5,7-diene-1,3-diol(Non-covalent)

YW2.1: 21 residues within 4Å: Chain A: Y.38, L.74, A.75, L.77, V.78, S.81, I.112, M.116, R.118, S.119, S.122, W.130, C.132, Y.139, V.144, A.147, H.149, L.157, H.241, Y.245, L.258 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.38, A:L.74, A:A.75, A:L.77, A:V.78, A:I.112, A:W.130, A:W.130, A:Y.139, A:V.144, A:L.157, A:Y.245, A:L.258 Hydrogen bonds: A:R.118, A:S.122, A:H.241, A:H.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watarai, Y. et al., Synthesis, Biological Activities, and X-ray Crystal Structural Analysis of 25-Hydroxy-25(or 26)-adamantyl-17-[20(22),23-diynyl]-21-norvitamin D Compounds. J.Med.Chem. (2015)

Release Date

2016-01-20

Peptides

Vitamin D3 receptor,Vitamin D3 receptor: A
Coactivator peptide drip from cDNA FLJ50196, highly similar to Peroxisome proliferator-activated receptor-binding protein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Vitamin D3 receptor,Vitamin D3 receptor

Coactivator peptide drip from cDNA FLJ50196, highly similar to Peroxisome proliferator-activated receptor-binding protein

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