4YHP Crystal structure of 309M3-B Fab in complex with H3K9me3 peptide date
authors Hattori, T., Dementieva, I.S., Montano, S.P., Koide, S.
compound source
symmetry
R_factor
R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.53
ligand M3L enzyme
Primary referenceAntigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation., Hattori T, Lai D, Dementieva IS, Montano SP, Kurosawa K, Zheng Y, Akin LR, Swist-Rosowska KM, Grzybowski AT, Koide A, Krajewski K, Strahl BD, Kelleher NL, Ruthenburg AJ, Koide S, Proc Natl Acad Sci U S A. 2016 Feb 9. pii: 201522691. PMID:26862167
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (280 Kb) [Save to disk]
  • Biological Unit Coordinates (4yhp.pdb1.gz) 274 Kb
  • LPC: Ligand-Protein Contacts for 4YHP
  • CSU: Contacts of Structural Units for 4YHP
  • Structure Factors (3578 Kb)
  • Retrieve 4YHP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YHP from S2C, [Save to disk]
  • Re-refined 4yhp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YHP 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 4YHP
  • 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: [4yhp_H] [4yhp] [4yhp_D] [4yhp_L] [4yhp_B] [4yhp_C] [4yhp_E] [4yhp_Q] [4yhp_F] [4yhp_A] [4yhp_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4YHP: [IG_like] [IGv ] by SMART
    • Other resources with information on 4YHP
  • Community annotation for 4YHP at PDBWiki (http://pdbwiki.org)

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