3JVK Signaling Protein date Sep 17, 2009
title Crystal Structure Of Bromodomain 1 Of Mouse Brd4 In Complex With Histone H3-K(Ac)14
authors F.Vollmuth, W.Blankenfeldt, M.Geyer
compound source
Molecule: Bromodomain-Containing Protein 4
Chain: A
Fragment: Bromodomain 1, Unp Residues 42-168
Synonym: Mitotic Chromosome-Associated Protein, Mcap
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Brd4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pproex-Htb

Molecule: Histone H3.3 Peptide
Chain: C
Fragment: Unp Residues 13-20
Engineered: Yes

Synthetic: Yes
Other_details: Fmoc Solid Phase Synthesis
symmetry Space Group: P 21 21 21
R_factor 0.196 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
36.131 47.030 77.250 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ALY, EDO enzyme
Primary referenceStructures of the dual bromodomains of the P-TEFb-activating protein Brd4 at atomic resolution., Vollmuth F, Blankenfeldt W, Geyer M, J Biol Chem. 2009 Dec 25;284(52):36547-56. Epub 2009 Oct 13. PMID:19828451
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3jvk.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 3JVK
  • CSU: Contacts of Structural Units for 3JVK
  • Structure Factors (85 Kb)
  • Retrieve 3JVK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3JVK from S2C, [Save to disk]
  • Re-refined 3jvk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3JVK 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 3JVK
  • 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 3JVK, from MSDmotif at EBI
  • Fold representative 3jvk from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3jvk_A] [3jvk] [3jvk_C]
  • SWISS-PROT database: [Q9ESU6] [P84243]
  • Domain organization of [BRD4_MOUSE] [H33_HUMAN] by SWISSPFAM
  • Domain found in 3JVK: [BROMO ] by SMART
  • Other resources with information on 3JVK
  • Community annotation for 3JVK 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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