1NYX	Transcription	date	Feb 14, 2003
title	Ligand Binding Domain Of The Human Peroxisome Proliferator A Receptor Gamma In Complex With An Agonist
authors	S.Ebdrup, I.Pettersson, H.B.Rasmussen, H.J.Deussen, A.Frost Jen S.B.Mortensen, J.Fleckner, L.Pridal, L.Nygaard, P.Sauerberg
compound		source
Molecule: Peroxisome Proliferator Activated Receptor Gamma Chain: A, B Fragment: Ligand Binding Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-3x
symmetry	Space Group: C 1 2 1	R_factor 0.237 R_Free 0.306
crystal cell	length a length b length c angle alpha angle beta angle gamma 91.546 62.090 117.741 90.00 102.91 90.00
method	X-Ray Diffraction	resolution	2.65 Å
ligand	DRF BindingDB	enzyme
related structures	by homologous chain: 1WM0, 1Y0S
Gene Ontology	Chain Function Process Component A, B
Primary reference	Synthesis and biological and structural characterization of the dual-acting peroxisome proliferator-activated receptor alpha/gamma agonist ragaglitazar., Ebdrup S, Pettersson I, Rasmussen HB, Deussen HJ, Frost Jensen A, Mortensen SB, Fleckner J, Pridal L, Nygaard L, Sauerberg P, J Med Chem 2003 Apr 10;46(8):1306-17. PMID:12672231

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk] Biological Unit Coordinates (1nyx.pdb1.gz) 85 Kb LPC: Ligand-Protein Contacts for 1NYX CSU: Contacts of Structural Units for 1NYX Likely Quarternary Molecular Structure file(s) for 1NYX Retrieve 1NYX in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1NYX from S2C, [Save to disk]

View 1NYX 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 1NYX

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1NYX, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1nyxa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1nyxb_, region B [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1nyx_B] [1nyx_A] [1nyx] SWISS-PROT database: [P37231] Domain organization of [PPARG_HUMAN] by SWISSPFAM Domain found in 1NYX: [HOLI ] by SMART

Other resources with information on 1NYX

Community annotation for 1NYX at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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