4CN2 Transcription Dna date Jan 21, 2014
title Crystal Structure Of The Human Retinoid X Receptor Dna- Binding Domain Bound To The Human Ramp2 Response Element
authors A.G.Mcewen, P.Poussin-Courmontagne, J.Osz, N.Rochel
compound source
Molecule: Retinoic Acid Receptor Rxr-Alpha
Chain: C, D
Fragment: Dna-Binding Domain, Residues 130-212
Synonym: Nuclear Receptor Subfamily 2 Group B Member 1, Ret Receptor Alpha, Retinoid X Receptor;
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_plasmid: Phxgw

Molecule: 5'-D(Tpgpapgptptpcpapapgpgpgptpdc Apaptp)-3';
Chain: A

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 5'-D(Aptptpgpapcpcpcptptpgpapapdc Tpcpap)-3';
Chain: B

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.1648 R_Free 0.2142
crystal
cell
length a length b length c angle alpha angle beta angle gamma
113.234 43.952 63.316 90.00 106.02 90.00
method X-Ray Diffractionresolution 2.07 Å
ligand CL, MES, MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
D, C


Primary referenceStructural basis of natural promoter recognition by the retinoid x nuclear receptor., Osz J, McEwen AG, Poussin-Courmontagne P, Moutier E, Birck C, Davidson I, Moras D, Rochel N, Sci Rep. 2015 Feb 3;5:8216. doi: 10.1038/srep08216. PMID:25645674
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (4cn2.pdb1.gz) 91 Kb
  • LPC: Ligand-Protein Contacts for 4CN2
  • CSU: Contacts of Structural Units for 4CN2
  • Structure Factors (902 Kb)
  • Retrieve 4CN2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4CN2 from S2C, [Save to disk]
  • Re-refined 4cn2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4CN2 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 4CN2
  • 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 4CN2, from MSDmotif at EBI
  • Fold representative 4cn2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4cn2_C] [4cn2_D] [4cn2_B] [4cn2_A] [4cn2]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4CN2: [ZnF_C4 ] by SMART
  • Other resources with information on 4CN2
  • Community annotation for 4CN2 at PDBWiki (http://pdbwiki.org)

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