SMTL ID : 5b5b.1 (1 other biounit)

Crystal structure of VDR-LBD complexed with 2-methylidene-26,27-diphenyl-19-nor-1,25-dihydroxyvitamin D3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

1 x AKX: (1R,3R)-5-[(2E)-2-[(1R,3aS,7aR)-7a-methyl-1-[(2R)-6-oxidanyl-7-phenyl-6-(phenylmethyl)heptan-2-yl]-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol(Non-covalent)

AKX.1: 21 residues within 4Å: Chain A: Y.38, Y.42, L.71, L.74, A.75, V.78, S.81, R.118, S.119, S.122, W.130, C.132, D.143, V.144, K.146, A.147, L.157, H.241, Q.244, Y.245, V.262 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.38, A:L.71, A:L.74, A:V.78, A:V.78, A:W.130, A:V.144, A:K.146, A:A.147, A:L.157, A:Y.245, A:V.262 Hydrogen bonds: A:R.118, A:S.122, A:Q.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kato, A. et al., Helix12-Stabilization Antagonist of Vitamin D Receptor. Bioconjug.Chem. (2016)

Release Date

2016-06-29

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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