3e00 Summary

pdbe.org/3e00
spacer

Intact PPAR gamma - RXR alpha Nuclear Receptor Complex on DNA bound with GW9662, 9-cis Retinoic Acid and NCOA2 Peptide

The structure was published by Chandra, V., Huang, P., Hamuro, Y., et al., Wang, Y., Burris, T.P., and Rastinejad, F., in 2008 in a paper entitled "Structure of the intact PPAR-gamma-RXR- nuclear receptor complex on DNA." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 3.1 Å and deposited in 2008.

The experimental data on which the structure is based was also deposited.

This entry contains 12 copies of 5 unique biopolymers (complete list).

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule most likely forms heterohexamers.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A Retinoic acid receptor RXR-alpha P19793 (11-462) (RXRA_HUMAN)search Homo sapienssearch 98% 467 61%
D Peroxisome proliferator-activated receptor gamma P37231 (102-505) (PPARG_HUMAN)search Homo sapienssearch < 90% 419 86%
G NCOA2 Peptide Q15596 (685-697) (NCOA2_HUMAN)search Homo sapienssearch < 90% 13 76%
E NCOA2 Peptide Q15596 (685-697) (NCOA2_HUMAN)search Homo sapienssearch < 90% 13 76%


This entry contains 3 unique UniProt proteins:

UniProt accession Name Organism PDB
P19793 (11 - 462) Retinoic acid receptor RXR-alpha Homo sapiens
P37231 (102 - 505) Peroxisome proliferator-activated receptor gamma Homo sapiens
Q15596 (685 - 697) NCOA2 Peptide

Chain Structural classification (CATH) Sequence family (Pfam)
A (P19793) Erythroid Transcription Factor GATA-1, subunit Asearch, Retinoid X Receptorsearch PF00104: Ligand-binding domain of nuclear hormone receptorsearch, PF00105: Zinc finger, C4 type (two domains)search, PF11825: Nuclear/hormone receptor activator site AF-1search
D Erythroid Transcription Factor GATA-1, subunit Asearch, Retinoid X Receptorsearch Ligand-binding domain of nuclear hormone receptorsearch, Zinc finger, C4 type (two domains)search, PPAR gamma N-terminal regionsearch
G, E Steroid receptor coactivatorsearch

Chain ID Molecular function (GO) Cellular component (GO) Biological process (GO)
A (P19793) DNA bindingsearch sequence-specific DNA binding transcription factor activitysearch zinc ion bindingsearch sequence-specific DNA bindingsearch steroid hormone receptor activitysearch protein bindingsearch vitamin D receptor bindingsearch retinoic acid-responsive element bindingsearch 9-cis retinoic acid receptor activitysearch vitamin D response element bindingsearch protein heterodimerization activitysearch transcription factor bindingsearch transcription regulatory region DNA bindingsearch retinoic acid receptor activitysearch ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activitysearch RNA polymerase II regulatory region sequence-specific DNA bindingsearch chromatin DNA bindingsearch transcription coactivator activitysearch enzyme bindingsearch metal ion bindingsearch nucleussearch nucleoplasmsearch RNA polymerase II transcription factor complexsearch nuclear chromatinsearch receptor complexsearch regulation of transcription, DNA-templatedsearch cellular lipid metabolic processsearch gene expressionsearch transmembrane transportsearch transcription, DNA-templatedsearch viral processsearch cholesterol metabolic processsearch positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulussearch negative regulation of transcription from RNA polymerase II promotersearch placenta developmentsearch positive regulation of transcription from RNA polymerase II promotersearch secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus developmentsearch in utero embryonic developmentsearch ventricular cardiac muscle tissue morphogenesissearch peroxisome proliferator activated receptor signaling pathwaysearch retinoic acid receptor signaling pathwaysearch transcription initiation from RNA polymerase II promotersearch small molecule metabolic processsearch positive regulation of translational initiation by ironsearch vitamin metabolic processsearch modulation by virus of host morphology or physiologysearch camera-type eye developmentsearch regulation of transcription from RNA polymerase II promotersearch embryo implantationsearch maternal placenta developmentsearch ventricular cardiac muscle cell differentiationsearch protein homotetramerizationsearch regulation of branching involved in prostate gland morphogenesissearch response to retinoic acidsearch steroid hormone mediated signaling pathwaysearch
D (P37231) steroid hormone receptor activitysearch sequence-specific DNA binding transcription factor activitysearch ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activitysearch sequence-specific DNA bindingsearch DNA bindingsearch zinc ion bindingsearch nucleussearch regulation of transcription, DNA-templatedsearch steroid hormone mediated signaling pathwaysearch

Chain InterPro annotation
A Retinoid X receptor/HNF4search Nuclear hormone receptor, ligand-binding, coresearch Zinc finger, nuclear hormone receptor-typesearch Steroid hormone receptorsearch Nuclear hormone receptor, ligand-bindingsearch Zinc finger, NHR/GATA-typesearch Nuclear/hormone receptor activator site AF-1search
D Nuclear hormone receptor, ligand-binding, coresearch Zinc finger, nuclear hormone receptor-typesearch Steroid hormone receptorsearch Peroxisome proliferator-activated receptorsearch Peroxisome proliferator-activated receptor, gammasearch Nuclear hormone receptor, ligand-bindingsearch Zinc finger, NHR/GATA-typesearch
G, E Nuclear receptor coactivator Src-1search Steroid receptor coactivatorsearch