2zmi Summary


Crystal Structure of Rat Vitamin D Receptor Bound to Adamantyl Vitamin D Analogs: Structural Basis for Vitamin D Receptor Antagonism and/or Partial Agonism

The structure was published by Nakabayashi, M., Yamada, S., Yoshimoto, N., et al., Tokiwa, H., DeLuca, H.F., and Shimizu, M., in 2008 in a paper entitled "Crystal structures of rat vitamin d receptor bound to adamantyl vitamin d analogs: structural basis for vitamin d receptor antagonism and partial agonism" (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 1.7 Å and deposited in 2008.

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

This PDB entry contains a complex of 2 biomacromolecules, namely Vitamin D3 receptor and Mediator of RNA polymerase II transcription subunit 1.

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 heterodimers.

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 P13053 (116-423) (VDR_RAT)search Rattus norvegicussearch < 90% 271 89%
C Mediator of RNA polymerase II transcription subunit 1 Not available
Synthetic Not available 13 84%

This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
P13053 (116 - 423) Vitamin D3 receptor Rattus norvegicus

Chain Structural classification (SCOP) Structural classification (CATH) Sequence family (Pfam)
A Nuclear receptor ligand-binding domainsearch Retinoid X Receptorsearch Ligand-binding domain of nuclear hormone receptorsearch

Chain ID Biological process (GO) Cellular component (GO) Molecular function (GO)
A (P13053) regulation of transcription, DNA-templatedsearch steroid hormone mediated signaling pathwaysearch nucleussearch DNA bindingsearch thyroid hormone receptor activitysearch steroid hormone receptor activitysearch sequence-specific DNA binding transcription factor activitysearch

Chain InterPro annotation
A Nuclear hormone receptor, ligand-binding, coresearch Steroid hormone receptorsearch Thyroid hormone receptorsearch Nuclear hormone receptor, ligand-bindingsearch