3AQA Transcription Transcription Inhibitor date Oct 27, 2010
title Crystal Structure Of The Human Brd2 Bd1 Bromodomain In Compl Brd2-Interactive Compound, Bic1
authors T.Umehara, Y.Nakamura, T.Terada, M.Shirouzu, B.Padmanabhan, S.Yok Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Bromodomain-Containing Protein 2
Chain: A, B, C
Fragment: Residues 73-194
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Brd2, Kiaa9001, Ring3
Expression_system: Bacterial Cell Free System
symmetry Space Group: C 1 2 1
R_factor 0.189 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
114.597 55.716 68.205 90.00 94.17 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand BYH, MES, MSE BindingDB enzyme
Primary referenceReal-Time Imaging of Histone H4K12-Specific Acetylation Determines the Modes of Action of Histone Deacetylase and Bromodomain Inhibitors., Ito T, Umehara T, Sasaki K, Nakamura Y, Nishino N, Terada T, Shirouzu M, Padmanabhan B, Yokoyama S, Ito A, Yoshida M, Chem Biol. 2011 Apr 22;18(4):495-507. PMID:21513886
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (3aqa.pdb1.gz) 22 Kb
  • Biological Unit Coordinates (3aqa.pdb2.gz) 21 Kb
  • Biological Unit Coordinates (3aqa.pdb3.gz) 20 Kb
  • Biological Unit Coordinates (3aqa.pdb4.gz) 41 Kb
  • Biological Unit Coordinates (3aqa.pdb5.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 3AQA
  • CSU: Contacts of Structural Units for 3AQA
  • Structure Factors (157 Kb)
  • Retrieve 3AQA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AQA from S2C, [Save to disk]
  • Re-refined 3aqa structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3AQA 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 3AQA
  • 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 3AQA, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3aqa] [3aqa_C] [3aqa_A] [3aqa_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3AQA: [BROMO ] by SMART
    • Other resources with information on 3AQA
  • Community annotation for 3AQA 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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