1ynw Summary

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Crystal Structure of Vitamin D Receptor and 9-cis Retinoic Acid Receptor DNA-Binding Domains Bound to a DR3 Response Element

The structure was published by Shaffer, P.L. and Gewirth, D.T., in 2004 in a paper entitled "Structural analysis of RXR-VDR interactions on DR3 DNA" (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 3.0 Å and deposited in 2005.

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

This entry contains 8 copies of 4 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 heterotetramers.

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 Vitamin D3 Receptor P11473 (16-125) (VDR_HUMAN)search Homo sapienssearch < 90% 110 87%
B Retinoic acid receptor RXR-alpha P19793 (130-228) (RXRA_HUMAN)search Homo sapienssearch 98% 99 73%


This entry contains 2 unique UniProt proteins:

UniProt accession Name Organism PDB
P11473 (16 - 125) Vitamin D3 Receptor Homo sapiens
P19793 (130 - 228) Retinoic acid receptor RXR-alpha Homo sapiens

Chain Structural classification (SCOP) Structural classification (CATH) Sequence family (Pfam)
A Nuclear receptorsearch Erythroid Transcription Factor GATA-1, subunit Asearch Zinc finger, C4 type (two domains)search
B (P19793) Nuclear receptorsearch Erythroid Transcription Factor GATA-1, subunit Asearch PF00105: Zinc finger, C4 type (two domains)search

Chain ID Biological process (GO) Cellular component (GO) Molecular function (GO)
A (P11473) regulation of transcription, DNA-templatedsearch nucleussearch steroid hormone receptor activitysearch sequence-specific DNA binding transcription factor activitysearch zinc ion bindingsearch sequence-specific DNA bindingsearch
B (P19793) regulation of transcription, DNA-templatedsearch nucleussearch sequence-specific DNA binding transcription factor activitysearch sequence-specific DNA bindingsearch steroid hormone receptor activitysearch zinc ion bindingsearch

Chain InterPro annotation
A Zinc finger, nuclear hormone receptor-typesearch Nuclear hormone receptor, ligand-bindingsearch Zinc finger, NHR/GATA-typesearch
B Zinc finger, nuclear hormone receptor-typesearch Nuclear hormone receptor, ligand-bindingsearch Zinc finger, NHR/GATA-typesearch