3DZU	Transcription Dna	date	Jul 30, 2008
title	Intact Ppar Gamma - Rxr Alpha Nuclear Receptor Complex On Dn With Bvt.13, 9-Cis Retinoic Acid And Ncoa2 Peptide
authors	V.Chandra, P.Huang, Y.Hamuro, S.Raghuram, Y.Wang, T.P.Burris, F.Ra
compound		source
Molecule: Retinoic Acid Receptor Rxr-Alpha Chain: A Fragment: Unp Residues 11-462 Synonym: Retinoid X Receptor Alpha, Nuclear Receptor Subfam Group B Member 1; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Rxra, Nr2b1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-46 Eklic
Molecule: Peroxisome Proliferator-Activated Receptor Gamma Chain: D Fragment: Unp Residues 102-505 Synonym: Ppar-Gamma, Nuclear Receptor Subfamily 1 Group C M Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pparg, Nr1c3 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-46 Eklic
Molecule: Dna (5'- D(Dcpdapdapdapdcpdtpdapdgpdgpdtpdcpdapdapdap Pdcpdapdg)-3'); Chain: C Engineered: Yes		Synthetic: Yes Other_details: Synthetic Dna
Molecule: Dna (5'- D(Dcpdtpdgpdapdcpdcpdtpdtpdtpdgpdapdcpdcpdtp Pdtpdtpdg)-3'); Chain: F Engineered: Yes		Synthetic: Yes Other_details: Synthetic Dna
Molecule: Ncoa2 Peptide Chain: G, E Engineered: Yes Other_details: Lxxll Motif Peptide		Synthetic: Yes Other_details: This Sequence Occurs Naturally In Humans
symmetry	Space Group: P 1	R_factor 0.201 R_Free 0.272
crystal cell	length a length b length c angle alpha angle beta angle gamma 64.186 66.907 78.464 70.95 82.56 62.88
method	X-Ray Diffraction	resolution	3.20 Å
ligand	9CR, PLB, ZN BindingDB	enzyme
Gene Ontology	Chain Function Process Component A steroid hormone receptor act... D
Primary reference	Structure of the intact PPAR-gamma-RXR- nuclear receptor complex on DNA., Chandra V, Huang P, Hamuro Y, Raghuram S, Wang Y, Burris TP, Rastinejad F, Nature. 2008 Nov 20;456(7220):350-6. PMID:19043829

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk] Biological Unit Coordinates (3dzu.pdb1.gz) 124 Kb LPC: Ligand-Protein Contacts for 3DZU CSU: Contacts of Structural Units for 3DZU Likely Quarternary Molecular Structure file(s) for 3DZU Structure Factors (139 Kb) Retrieve 3DZU in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DZU from S2C, [Save to disk] Re-refined 3dzu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DZU 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 3DZU

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 3D motif for 3DZU, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3dzu_C] [3dzu] [3dzu_E] [3dzu_F] [3dzu_D] [3dzu_G] [3dzu_A] SWISS-PROT database: [Q15596] [P37231] [P19793] Domain organization of [NCOA2_HUMAN] [PPARG_HUMAN] [RXRA_HUMAN] by SWISSPFAM Domains found in 3DZU: [HOLI] [ZnF_C4 ] by SMART

Other resources with information on 3DZU

Community annotation for 3DZU at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---