3G99 Transcription Dna date Feb 13, 2009
title Gr Dna Binding Domain:Pal Complex-9
authors M.A.Pufall, K.R.Yamamoto, S.H.Meijsing
compound source
Molecule: Glucocorticoid Receptor
Chain: A, B
Fragment: Unp Residues 440-525
Synonym: Gr, Nuclear Receptor Subfamily 3 Group C Member 1
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Brown Rat,Rat,Rats
Organism_taxid: 10116
Gene: Grl, Nr3c1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Gold
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: Dna (5'-D(Tpapgpapapcpapapapaptpgptp 3');
Chain: D
Engineered: Yes
Other_details: Glucocorticoid Receptor Binding Site Pal Bot Strand;

Synthetic: Yes

Molecule: Dna (5'-D(Apapgpapapcpaptptptptpgptp 3');
Chain: C
Engineered: Yes
Other_details: Glucocorticoid Receptor Binding Site Pal Top

Synthetic: Yes
symmetry Space Group: C 1 2 1
R_factor 0.191 R_Free 0.230
length a length b length c angle alpha angle beta angle gamma
116.774 38.189 97.064 90.00 123.11 90.00
method X-Ray Diffractionresolution 1.81 Å
ligand BR, EDO, ZN enzyme
A, B

Primary referenceDNA binding site sequence directs glucocorticoid receptor structure and activity., Meijsing SH, Pufall MA, So AY, Bates DL, Chen L, Yamamoto KR, Science. 2009 Apr 17;324(5925):407-10. PMID:19372434
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk]
  • Biological Unit Coordinates (3g99.pdb1.gz) 81 Kb
  • LPC: Ligand-Protein Contacts for 3G99
  • CSU: Contacts of Structural Units for 3G99
  • Likely Quarternary Molecular Structure file(s) for 3G99
  • Structure Factors (173 Kb)
  • Retrieve 3G99 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3G99 from S2C, [Save to disk]
  • Re-refined 3g99 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3G99 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 3G99
  • 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 3G99, from MSDmotif at EBI
  • Fold representative 3g99 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3g99_A] [3g99_D] [3g99_B] [3g99_C] [3g99]
  • SWISS-PROT database: [P06536]
  • Domain organization of [GCR_RAT] by SWISSPFAM
  • Domain found in 3G99: [ZnF_C4 ] by SMART
  • Other resources with information on 3G99
  • Community annotation for 3G99 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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