ISDA: 3KDU

Deposition Date 2009-10-23

Release Date 2010-04-28

Last Version Date 2023-09-06

Entry Detail

PDB ID:

3KDU

Keywords:

HORMONE RECEPTOR

Title:

Crystal structure of peroxisome proliferator-activatedeceptor alpha (PPARalpha) complex with N-3-((2-(4-Chlorophenyl)-5-methyl-1,3-oxazol-4-yl)methoxy)benzyl)-N-((4-methylphenoxy)carbonyl)glycine

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.07 Å

R-Value Free:

0.23

R-Value Work:

0.17

R-Value Observed:

0.18

Space Group:

P 41

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Peroxisome proliferator-activated receptor alpha
Gene (Uniprot):PPARA
Chain IDs:A, B
Chain Length:277
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q07869 Pfam ID:PF00104

Ligand Molecules

NKS

Primary Citation

Discovery of an oxybenzylglycine based peroxisome proliferator activated receptor alpha selective agonist 2-((3-((2-(4-chlorophenyl)-5-methyloxazol-4-yl)methoxy)benzyl)(methoxycarbonyl)amino)acetic acid (BMS-687453).

Li, J, Kennedy, L.J, Shi, Y, Tao, S, Ye, X.Y, Chen, S.Y, Wang, Y, Hernandez, A.S, Wang, W, Devasthale, P.V, Chen, S, Lai, Z, Zhang, H, Wu, S, Smirk, R.A, Bolton, S.A, Ryono, D.E, Zhang, H, Lim, N.K, Chen, B.C, Locke, K.T, O'Malley, K.M, Zhang, L, Srivastava, R.A, Miao, B, Meyers, D.S, Monshizadegan, H, Search, D, Grimm, D, Zhang, R, Harrity, T, Kunselman, L.K, Cap, M, Kadiyala, P, Hosagrahara, V, Zhang, L, Xu, C, Li, Y.X, Muckelbauer, J.K, Chang, C, An, Y, Krystek, S.R, Blanar, M.A, Zahler, R, Mukherjee, R, Cheng, P.T, Tino, J.A, Ye, X.-Y, Chen, S, Zhang, H, Locke, K.T, O'Malley, K, Zhang, L, Srivastava, R, Miao, B, Meyers, D, Monshizadegan, H, Search, D, Grimm, D, Zhang, R, Lippy, J, Twamley, C, Muckelbauer, J.K, Chang, C, An, Y, Hosagrahara, V, Zhang, L, Yang, T.-J, Mukherjee, R, Cheng, P.T.W, Tino, J.A.Show

J.Med.Chem. 53 2854 2864 (2010)

PMID: 20218621 DOI: 10.1021/jm9016812

Abstact

An 1,3-oxybenzylglycine based compound 2 (BMS-687453) was discovered to be a potent and selective peroxisome proliferator activated receptor (PPAR) alpha agonist, with an EC(50) of 10 nM for human PPARalpha and approximately 410-fold selectivity vs human PPARgamma in PPAR-GAL4 transactivation assays. Similar potencies and selectivity were also observed in the full length receptor co-transfection assays. Compound 2 has negligible cross-reactivity against a panel of human nuclear hormone receptors including PPARdelta. Compound 2 demonstrated an excellent pharmacological and safety profile in preclinical studies and thus was chosen as a development candidate for the treatment of atherosclerosis and dyslipidemia. The X-ray cocrystal structures of the early lead compound 12 and compound 2 in complex with PPARalpha ligand binding domain (LBD) were determined. The role of the crystal structure of compound 12 with PPARalpha in the development of the SAR that ultimately resulted in the discovery of compound 2 is discussed.

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Abstact

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