SMTL ID : 3vt3.2 (1 other biounit)

Crystal structures of rat VDR-LBD with R270L mutation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 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: 16 residues within 4Å: Chain A: Y.38, Y.42, L.71, L.77, V.78, S.81, I.115, S.119, S.122, W.130, C.132, V.144, H.149, L.153, H.241, Y.245 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.38, A:L.71, A:L.77, A:L.77, A:I.115, A:W.130, A:V.144, A:L.153, A:Y.245 Hydrogen bonds: A:Y.38, A:S.81, A:H.149 Water bridges: A:S.81

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain A: A.28, L.31 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.28

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 6 residues within 4Å: Chain A: I.180, Q.200, S.204, Y.224, I.228, L.231 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.204, A:S.204 FMT.4: 1 residues within 4Å: Chain A: V.141 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakabayashi, M. et al., Crystal structures of hereditary vitamin D-resistant rickets-associated vitamin D receptor mutants R270L and W282R bound to 1,25-dihydroxyvitamin D3 and synthetic ligands. J.Med.Chem. (2013)

Release Date

2013-05-22

Peptides

Vitamin D3 receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Vitamin D3 receptor

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