SMTL ID : 7zfg.1

VDR complex with aromatic D-ring analog

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 7 residues within 4Å: Chain A: T.23, Y.24, D.25, Y.28, Y.113, K.117, R.151 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.28 Hydrogen bonds: A:D.25 Salt bridges: A:K.117, A:R.151

1 x IV5: (1R,3S,5Z)-4-methylidene-5-[(E)-9-methyl-3-[3-(6-methyl-6-oxidanyl-heptyl)phenyl]-9-oxidanyl-dec-2-enylidene]cyclohexane-1,3-diol(Non-covalent)

IV5.2: 25 residues within 4Å: Chain A: Y.24, Y.28, M.103, L.104, L.107, L.110, V.111, S.114, I.148, M.149, R.151, S.152, S.155, W.163, C.165, Y.172, C.173, I.174, D.176, V.177, H.182, L.190, H.272, Y.276, L.279 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.104, A:L.107, A:L.110, A:V.111, A:I.148, A:W.163, A:Y.172, A:L.190, A:Y.276, A:L.279 Hydrogen bonds: A:Y.28, A:S.114, A:R.151, A:S.155, A:C.173, A:I.174, A:D.176, A:D.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seoane, S. et al., Design, Synthesis, Biological Activity, and Structural Analysis of Novel Des-C-Ring and Aromatic-D-Ring Analogues of 1 alpha ,25-Dihydroxyvitamin D 3. J.Med.Chem. (2022)

Release Date

2022-11-23

Peptides

Vitamin D3 receptor A: A
Nuclear receptor coactivator 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Vitamin D3 receptor A

Nuclear receptor coactivator 1

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