5B31 The crystal structure of the heterotypic H2AZ/H2A nucleosome with H3.1. date
authors Horikoshi, N., Taguchi, H., Arimura, Y., Kurumizaka, H.
compound source
R_Free 0.2707
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.20
ligand CL, MN enzyme
A, E


F, B


H, D

Primary referenceCrystal structures of heterotypic nucleosomes containing histones H2A.Z and H2A., Horikoshi N, Arimura Y, Taguchi H, Kurumizaka H, Open Biol. 2016 Jun;6(6). pii: 160127. doi: 10.1098/rsob.160127. PMID:27358293
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (254 Kb) [Save to disk]
  • Biological Unit Coordinates (5b31.pdb1.gz) 246 Kb
  • LPC: Ligand-Protein Contacts for 5B31
  • CSU: Contacts of Structural Units for 5B31
  • Structure Factors (1677 Kb)
  • Retrieve 5B31 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5B31 from S2C, [Save to disk]
  • Re-refined 5b31 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5B31 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 5B31
  • 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: [5b31_F] [5b31_D] [5b31_A] [5b31_H] [5b31_J] [5b31_I] [5b31_B] [5b31] [5b31_G] [5b31_C] [5b31_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5B31: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 5B31
  • Community annotation for 5B31 at PDBWiki (http://pdbwiki.org)

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