3e00 Summary

pdbe.org/3e00
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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 Cellular component (GO) Biological process (GO) Molecular function (GO)
A (P19793) nucleussearch RNA polymerase II transcription factor complexsearch nuclear chromatinsearch nucleoplasmsearch receptor complexsearch steroid hormone mediated signaling pathwaysearch regulation of transcription from RNA polymerase II promotersearch transcription initiation from RNA polymerase II promotersearch placenta developmentsearch cholesterol metabolic processsearch regulation of branching involved in prostate gland morphogenesissearch negative regulation of transcription from RNA polymerase II promotersearch regulation of transcription, DNA-templatedsearch positive regulation of transcription from RNA polymerase II promotersearch peroxisome proliferator activated receptor signaling pathwaysearch retinoic acid receptor signaling pathwaysearch ventricular cardiac muscle tissue morphogenesissearch viral processsearch in utero embryonic developmentsearch heart developmentsearch protein homotetramerizationsearch gene expressionsearch small molecule metabolic processsearch ventricular cardiac muscle cell differentiationsearch embryo implantationsearch secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus developmentsearch positive regulation of transcription, DNA-templatedsearch cardiac muscle cell proliferationsearch vitamin metabolic processsearch modulation by virus of host morphology or physiologysearch response to retinoic acidsearch maternal placenta developmentsearch transcription, DNA-templatedsearch cellular lipid metabolic processsearch camera-type eye developmentsearch 9-cis retinoic acid receptor activitysearch retinoic acid-responsive element bindingsearch sequence-specific DNA binding transcription factor activitysearch protein heterodimerization activitysearch DNA bindingsearch metal ion bindingsearch protein bindingsearch vitamin D receptor bindingsearch sequence-specific DNA bindingsearch vitamin D response element bindingsearch transcription regulatory region DNA bindingsearch chromatin DNA bindingsearch retinoic acid receptor activitysearch zinc ion bindingsearch enzyme bindingsearch ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activitysearch RNA polymerase II regulatory region sequence-specific DNA bindingsearch transcription factor bindingsearch transcription coactivator activitysearch steroid hormone receptor activitysearch
D (P37231) nucleussearch regulation of transcription, DNA-templatedsearch steroid hormone mediated signaling pathwaysearch ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activitysearch sequence-specific DNA binding transcription factor activitysearch steroid hormone receptor activitysearch DNA bindingsearch zinc ion bindingsearch sequence-specific DNA bindingsearch

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