4APU Transcription date Apr 06, 2012
title Pr X-Ray Structures In Agonist Conformations Reveal Two Diff Mechanisms For Partial Agonism In 11beta-Substituted Steroi
authors S.J.Lusher, H.C.A.Raaijmakers, R.Bosch, D.Vu-Pham, R.Mcguire, A.O J.De Vlieg
compound source
Molecule: Progesterone Receptor
Chain: A, B
Fragment: Ligand Binding Domain, Residues 514-769
Synonym: Pr, Nuclear Receptor Subfamily 3 Group C Member 3
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet15b
symmetry Space Group: P 1 21 1
R_factor 0.205 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.662 64.374 70.468 90.00 96.33 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand A2K, OR8, SO4 BindingDB enzyme
Primary referenceX-ray Structures of Progesterone Receptor Ligand Binding Domain in Its Agonist State Reveal Differing Mechanisms for Mixed Profiles of 11beta-Substituted Steroids., Lusher SJ, Raaijmakers HC, Vu-Pham D, Kazemier B, Bosch R, McGuire R, Azevedo R, Hamersma H, Dechering K, Oubrie A, van Duin M, de Vlieg J, J Biol Chem. 2012 Jun 8;287(24):20333-43. Epub 2012 Apr 25. PMID:22535964
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (178 Kb) [Save to disk]
  • Biological Unit Coordinates (4apu.pdb1.gz) 87 Kb
  • Biological Unit Coordinates (4apu.pdb2.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 4APU
  • CSU: Contacts of Structural Units for 4APU
  • Structure Factors (291 Kb)
  • Retrieve 4APU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4APU from S2C, [Save to disk]
  • Re-refined 4apu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4APU 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 4APU
  • 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 4APU, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4apu_A] [4apu] [4apu_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4APU: [HOLI ] by SMART
  • Other resources with information on 4APU
  • Community annotation for 4APU at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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