5L8U Transcription date Jun 08, 2016
title Crystal Structure Of Baz2b Bromodomain In Complex With 3-Ami Methylpyridine Derivative 5
authors G.Lolli, J.R.Marchand, A.Caflisch
compound source
Molecule: Bromodomain Adjacent To Zinc Finger Domain Protei
Chain: A
Fragment: Bromodomain (Residues 1954-2067)
Synonym: Hwalp4
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Baz2b, Kiaa1476
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 21
R_factor 0.174 R_Free 0.192
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.312 96.813 57.716 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand 6RS, PGE enzyme
Primary referenceDerivatives of 3-amino-2-methylpyridine as BAZ2B Bromodomain Ligands: in silico Discovery and in crystallo Validation., Marchand JR, Lolli G, Caflisch A, J Med Chem. 2016 Oct 12. PMID:27731638
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (5l8u.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 5L8U
  • CSU: Contacts of Structural Units for 5L8U
  • Structure Factors (1279 Kb)
  • Retrieve 5L8U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5L8U from S2C, [Save to disk]
  • Re-refined 5l8u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5L8U 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 5L8U
  • 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: [5l8u] [5l8u_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5L8U: [BROMO ] by SMART
    • Other resources with information on 5L8U
  • Community annotation for 5L8U at PDBWiki (http://pdbwiki.org)

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