5MGJ Transcription date Nov 21, 2016
title Crystal Structure Of Baz2a Bromodomain In Complex With 1- Methylpyridine Derivative 1
authors G.Lolli, D.Spiliotopoulos, A.Caflisch
compound source
Molecule: Bromodomain Adjacent To Zinc Finger Domain Protei
Chain: A
Fragment: Bromodomain, Unp Residues 1796-1898
Synonym: Transcription Termination Factor I-Interacting Pro Tip5,Hwalp3;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Baz2a, Kiaa0314, Tip5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.192 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.737 95.737 32.960 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand 7MX enzyme
Primary referenceDiscovery of BAZ2A bromodomain ligands., Spiliotopoulos D, Wamhoff EC, Lolli G, Rademacher C, Caflisch A, Eur J Med Chem. 2017 Aug 12;139:564-572. doi: 10.1016/j.ejmech.2017.08.028. PMID:28837921
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (5mgj.pdb1.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 5MGJ
  • CSU: Contacts of Structural Units for 5MGJ
  • Structure Factors (445 Kb)
  • Retrieve 5MGJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MGJ from S2C, [Save to disk]
  • Re-refined 5mgj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MGJ 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 5MGJ
  • 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
  • Fold representative 5mgj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mgj] [5mgj_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MGJ
  • Community annotation for 5MGJ at PDBWiki (http://pdbwiki.org)

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