1TXI Gene Regulation date Jul 05, 2004
title Crystal Structure Of The Vdr Ligand Binding Domain Complexed
authors D.Moras, N.Rochel
compound source
Molecule: Vitamin D Receptor
Chain: A
Fragment: Ligand Binding Domain
Synonym: Vdr, 1,25-Dihydroxyvitamin D3 Receptor
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr1i1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21de3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.218
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.259 52.504 132.930 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand TX5 enzyme
related structures by homologous chain: 1DB1, 1RKG
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSuperagonistic action of 14-epi-analogs of 1,25-dihydroxyvitamin D explained by vitamin D receptor-coactivator interaction., Eelen G, Verlinden L, Rochel N, Claessens F, De Clercq P, Vandewalle M, Tocchini-Valentini G, Moras D, Bouillon R, Verstuyf A, Mol Pharmacol 2005 May;67(5):1566-73. Epub 2005 Feb 22. PMID:15728261
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (1txi.pdb1.gz) 44 Kb
  • LPC: Ligand-Protein Contacts for 1TXI
  • CSU: Contacts of Structural Units for 1TXI
  • Likely Quarternary Molecular Structure file(s) for 1TXI
  • Structure Factors (253 Kb)
  • Retrieve 1TXI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1TXI from S2C, [Save to disk]
  • Re-refined 1txi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1TXI 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 1TXI
  • 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 1TXI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1txi] [1txi_A]
  • SWISS-PROT database: [P11473]
  • Belongs to the vitamin d3 receptor (vdr) family according to TCDB.
  • Domain organization of [VDR_HUMAN] by SWISSPFAM
  • Domain found in 1TXI: [HOLI ] by SMART
  • Other resources with information on 1TXI
  • Community annotation for 1TXI at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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