4R8P Crystal structure of the Ring1B/Bmi1/UbcH5c PRC1 ubiquitylation module bound to the nucleosome core particle date
authors McGinty, R.K., Henrici, R.C., Tan, S.
compound source
symmetry
R_factor
R_Free 0.2452
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.28
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


N, L


Primary referenceCrystal structure of the PRC1 ubiquitylation module bound to the nucleosome., McGinty RK, Henrici RC, Tan S, Nature. 2014 Oct 30;514(7524):591-6. doi: 10.1038/nature13890. PMID:25355358
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (753 Kb) [Save to disk]
  • Biological Unit Coordinates (4r8p.pdb1.gz) 744 Kb
  • LPC: Ligand-Protein Contacts for 4R8P
  • CSU: Contacts of Structural Units for 4R8P
  • Structure Factors (1617 Kb)
  • Retrieve 4R8P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4R8P from S2C, [Save to disk]
  • Re-refined 4r8p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4R8P 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 4R8P
  • 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
  • 3D motif for 4R8P, from MSDmotif at EBI
  • Fold representative 4r8p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4r8p_J] [4r8p_A] [4r8p_G] [4r8p_D] [4r8p] [4r8p_B] [4r8p_L] [4r8p_F] [4r8p_C] [4r8p_N] [4r8p_H] [4r8p_I] [4r8p_E] [4r8p_M] [4r8p_K]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4R8P: [H2A] [H2B] [H3] [H4] [RING] [UBCc ] by SMART
  • Other resources with information on 4R8P
  • Community annotation for 4R8P at PDBWiki (http://pdbwiki.org)

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