4YT1	Human PPAR Gamma Ligand Binding Domain in complex with a Gammma Selective Synthetic Partial Agonist MEKT76	date
authors	Oyama, T., Ohashi, M., Miyachi, H., Kusunoki, M.
compound		source
symmetry		R_factor R_Free 0.2557
crystal cell	length a length b length c angle alpha angle beta angle gamma
method	X-Ray Diffraction	resolution	2.20
ligand	JJB	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Peroxisome proliferator-activated receptor gamma (PPARgamma) has multiple binding points that accommodate ligands in various conformations: Structurally similar PPARgamma partial agonists bind to PPARgamma LBD in different conformations., Ohashi M, Gamo K, Oyama T, Miyachi H, Bioorg Med Chem Lett. 2015 Jul 15;25(14):2758-62. doi:, 10.1016/j.bmcl.2015.05.025. Epub 2015 May 22. PMID:26025876

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk] Biological Unit Coordinates (4yt1.pdb1.gz) 84 Kb LPC: Ligand-Protein Contacts for 4YT1 CSU: Contacts of Structural Units for 4YT1 Structure Factors (542 Kb) Retrieve 4YT1 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4YT1 from S2C, [Save to disk] Re-refined 4yt1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4YT1 in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 4YT1

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4yt1_B] [4yt1] [4yt1_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 4YT1: [HOLI ] by SMART

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Community annotation for 4YT1 at PDBWiki (http://pdbwiki.org)

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