5KGF Structural model of 53BP1 bound to a ubiquitylated and methylated nucleosome, at 4.5 A resolution date
authors Wilson, M.D., Benlekbir, S., Sicheri, F., Rubinstein, J.L., Durocher, D.
compound source
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 4.54
ligand M2L enzyme
A, E

C, G

F, B

H, D

Primary referenceThe structural basis of modified nucleosome recognition by 53BP1., Wilson MD, Benlekbir S, Fradet-Turcotte A, Sherker A, Julien JP, McEwan A, Noordermeer SM, Sicheri F, Rubinstein JL, Durocher D, Nature. 2016 Aug 4;536(7614):100-3. PMID:27462807
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (279 Kb) [Save to disk]
  • Biological Unit Coordinates (5kgf.pdb1.gz) 271 Kb
  • LPC: Ligand-Protein Contacts for 5KGF
  • CSU: Contacts of Structural Units for 5KGF
  • Retrieve 5KGF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KGF from S2C, [Save to disk]
  • View 5KGF 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 5KGF
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5kgf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kgf_J] [5kgf_L] [5kgf_B] [5kgf_H] [5kgf_K] [5kgf_M] [5kgf_I] [5kgf_O] [5kgf_A] [5kgf_E] [5kgf_F] [5kgf_D] [5kgf_C] [5kgf] [5kgf_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5KGF: [H2A] [H2B] [H3] [H4] [UBQ ] by SMART
  • Other resources with information on 5KGF
  • Community annotation for 5KGF at PDBWiki (http://pdbwiki.org)

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