5KCE Transcription date Jun 06, 2016
title Crystal Structure Of The Er-Alpha Ligand-Binding Domain (Y53 Complex With An N-Methyl, 2-Chlorobenzyl Obhs-N Derivative
authors J.C.Nwachukwu, S.Srinivasan, N.E.Bruno, V.Dharmarajan, D.Goswami I.Kastrati, S.Novick, J.Nowak, H.B.Zhou, N.Boonmuen, Y.Zhao, J.Mi J.Frasor, B.S.Katzenellenbogen, P.R.Griffin, J.A.Katzenellenbo K.W.Nettles
compound source
Molecule: Estrogen Receptor
Chain: A, B
Fragment: Ligand-Binding Domain, Unp Residues 125-381
Synonym: Er,Er-Alpha,Estradiol Receptor,Nuclear Receptor Su Group A Member 1;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Esr1, Esr, Nr3a1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid

Molecule: Nuclear Receptor Coactivator 2
Chain: C, D
Fragment: Nuclear Receptor-Interacting Peptide, Unp Residue
Synonym: Ncoa-2,Class E Basic Helix-Loop-Helix Protein 75,B Transcriptional Intermediary Factor 2,Htif2;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Sequence Occurs Naturally In Humans
symmetry Space Group: P 1 21 1
R_factor 0.192 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
52.577 75.326 57.996 90.00 110.82 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand OB3 enzyme
note 5KCE supersedes 4ZWH
Primary referenceFull antagonism of the estrogen receptor without a prototypical ligand side chain., Srinivasan S, Nwachukwu JC, Bruno NE, Dharmarajan V, Goswami D, Kastrati I, Novick S, Nowak J, Cavett V, Zhou HB, Boonmuen N, Zhao Y, Min J, Frasor J, Katzenellenbogen BS, Griffin PR, Katzenellenbogen JA, Nettles KW, Nat Chem Biol. 2017 Jan;13(1):111-118. doi: 10.1038/nchembio.2236. Epub 2016 Nov , 21. PMID:27870835
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (166 Kb) [Save to disk]
  • Biological Unit Coordinates (5kce.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 5KCE
  • CSU: Contacts of Structural Units for 5KCE
  • Structure Factors (379 Kb)
  • Retrieve 5KCE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KCE from S2C, [Save to disk]
  • Re-refined 5kce structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5KCE 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 5KCE
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kce_D] [5kce_B] [5kce_C] [5kce_A] [5kce]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5KCE: [HOLI ] by SMART
  • Other resources with information on 5KCE
  • Community annotation for 5KCE at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science