6HM0 Transcription date Sep 11, 2018
title Crystal Structure Of Human Brd9 Bromodomain In Complex With
authors S.J.Hughes, V.Zoppi, A.Ciulli
compound source
Molecule: Bromodomain-Containing Protein 9
Chain: A, B
Synonym: Rhabdomyosarcoma Antigen Mu-Rms-40.8
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Brd9, Unq3040pro9856
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.216 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.840 59.820 60.340 90.00 108.75 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand GBW enzyme
Primary referenceIterative design and optimization of initially inactive Proteolysis Targeting Chimeras (PROTACs) identify VZ185 as a potent, fast and selective von Hippel-Lindau (VHL)-based dual degrader probe of BRD9 and BRD7., Zoppi V, Hughes SJ, Maniaci C, Testa A, Gmaschitz T, Wieshofer C, Koegl M, Riching K, Daniels DL, Spallarossa A, Ciulli A, J Med Chem. 2018 Dec 12. doi: 10.1021/acs.jmedchem.8b01413. PMID:30540463
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (6hm0.pdb1.gz) 39 Kb
  • Biological Unit Coordinates (6hm0.pdb2.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 6HM0
  • CSU: Contacts of Structural Units for 6HM0
  • Structure Factors (463 Kb)
  • Retrieve 6HM0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6HM0 from S2C, [Save to disk]
    • View 6HM0 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 6HM0
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6hm0_A] [6hm0_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6HM0
  • Community annotation for 6HM0 at PDBWiki (http://pdbwiki.org)

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