3AZ3 Hormone Receptor date May 20, 2011
title Crystal Structure Analysis Of Vitamin D Receptor
authors S.Itoh, S.Iijima
compound source
Molecule: Vitamin D3 Receptor
Chain: A
Fragment: Unp Residues 120-164, 216-423
Synonym: Vdr, 1,25-Dihydroxyvitamin D3 Receptor, Nuclear Re Subfamily 1 Group I Member 1;
Engineered: Yes
Other_details: Fusion Protein Of Residues 120-164 And Resid 423
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr1i1, Vdr
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.225 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.320 52.222 131.946 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.36 Å
ligand DS6 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNovel nonsecosteroidal vitamin D(3) carboxylic acid analogs for osteoporosis, and SAR analysis., Kashiwagi H, Ono Y, Shimizu K, Haneishi T, Ito S, Iijima S, Kobayashi T, Ichikawa F, Harada S, Sato H, Sekiguchi N, Ishigai M, Takahashi T, Bioorg Med Chem. 2011 Aug 15;19(16):4721-9. Epub 2011 Jul 8. PMID:21795053
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (3az3.pdb1.gz) 44 Kb
  • LPC: Ligand-Protein Contacts for 3AZ3
  • CSU: Contacts of Structural Units for 3AZ3
  • Structure Factors (1800 Kb)
  • Retrieve 3AZ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AZ3 from S2C, [Save to disk]
  • Re-refined 3az3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3AZ3 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 3AZ3
  • 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 3AZ3, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3az3_A] [3az3]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3AZ3: [HOLI ] by SMART
  • Other resources with information on 3AZ3
  • Community annotation for 3AZ3 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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