4MDD Protein Binding date Aug 22, 2013
title Crystal Structure Of The Glucocorticoid Receptor Bound To A Steroidal Antagonist Reveals Repositioning And Partial Diso Activation Function Helix 12
authors M.J.Coghlan, J.G.Luz
compound source
Molecule: Glucocorticoid Receptor
Chain: A, B
Fragment: Unp Residues 522-777
Synonym: Gr, Nuclear Receptor Subfamily 3 Group C Member 1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr3c1, Grl
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nuclear Receptor Corepressor 1
Chain: C, D
Fragment: Unp Residues 2260-2274
Synonym: N-Cor, N-Cor1
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 32 2 1
R_factor 0.221 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.543 72.543 229.472 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand 29M enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk]
  • Biological Unit Coordinates (4mdd.pdb1.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 4MDD
  • CSU: Contacts of Structural Units for 4MDD
  • Structure Factors (504 Kb)
  • Retrieve 4MDD in mmCIF format [Save to disk]
  • Re-refined 4mdd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4MDD 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 4MDD
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4MDD, from MSDmotif at EBI
  • Fold representative 4mdd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4mdd_C] [4mdd] [4mdd_D] [4mdd_A] [4mdd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4MDD: [HOLI ] by SMART
  • Other resources with information on 4MDD
  • Community annotation for 4MDD at PDBWiki (http://pdbwiki.org)

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