SMTL ID : 2hc4.1

Crystal structure of the LBD of VDR of Danio rerio in complex with calcitriol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-2-2-mer

Ligands

2 x VDX: 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANE-1,3-DIOL(Non-covalent)

VDX.1: 20 residues within 4Å: Chain A: Y.24, Y.28, F.31, L.104, L.107, L.110, V.111, S.114, I.148, R.151, S.152, S.155, W.163, C.165, V.177, H.182, L.186, H.272, Y.276, L.279 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.24, A:F.31, A:L.104, A:L.107, A:L.110, A:I.148, A:W.163, A:V.177, A:L.186, A:Y.276, A:L.279 Hydrogen bonds: A:Y.24, A:S.114, A:R.151, A:R.151, A:S.155, A:H.182 VDX.2: 20 residues within 4Å: Chain C: Y.24, Y.28, F.31, L.104, L.107, L.110, V.111, S.114, I.148, R.151, S.152, S.155, W.163, C.165, V.177, H.182, L.186, H.272, Y.276, L.279 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:Y.24, C:F.31, C:L.104, C:L.107, C:L.110, C:I.148, C:W.163, C:V.177, C:L.186, C:Y.276, C:L.279 Hydrogen bonds: C:Y.24, C:Y.24, C:S.114, C:R.151, C:R.151, C:H.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ciesielski, F. et al., Adaptability of the Vitamin D nuclear receptor to the synthetic ligand Gemini: remodelling the LBP with one side chain rotation. J.Steroid Biochem.Mol.Biol. (2007)

Release Date

2007-05-01

Peptides

Vitamin D receptor: AC
SRC-1 from Nuclear receptor coactivator 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Vitamin D receptor

SRC-1 from Nuclear receptor coactivator 1

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