4A9M Signaling Protein date Nov 26, 2011
title N-Terminal Bromodomain Of Human Brd2 With N-Cyclopentyl-5-( 3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1- Sulfonamide
authors C.Chung, P.Bamborough
compound source
Molecule: Bromodomain Containing 2
Chain: A, B, C
Fragment: N-Terminal Bromodomain (Bd1), Residues 67-200
Synonym: Human Brd2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.18030 R_Free 0.22464
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.577 55.682 67.986 90.00 94.61 90.00
method X-Ray Diffractionresolution 2.06 Å
ligand P9M, SO4 BindingDB enzyme
Primary referenceFragment-based discovery of bromodomain inhibitors part 2: optimization of phenylisoxazole sulfonamides., Bamborough P, Diallo H, Goodacre JD, Gordon L, Lewis A, Seal JT, Wilson DM, Woodrow MD, Chung CW, J Med Chem. 2012 Jan 26;55(2):587-96. Epub 2012 Jan 11. PMID:22136469
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (4a9m.pdb1.gz) 46 Kb
  • Biological Unit Coordinates (4a9m.pdb2.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 4A9M
  • CSU: Contacts of Structural Units for 4A9M
  • Structure Factors (452 Kb)
  • Retrieve 4A9M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4A9M from S2C, [Save to disk]
  • Re-refined 4a9m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4A9M 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 4A9M
  • 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 4A9M, from MSDmotif at EBI
  • Fold representative 4a9m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4a9m_C] [4a9m] [4a9m_B] [4a9m_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4A9M: [BROMO ] by SMART
  • Other resources with information on 4A9M
  • Community annotation for 4A9M at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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