3REL 2.7 Angstrom Crystal Structure of the Nucleosome Core Particle Assembled with a 146 bp Alpha-Satellite DNA (NCP146b) Derivatized with Triamminechloroplatinum(II) Chloride date
authors Wu, B., Davey, C.A.
compound source
symmetry
R_factor
R_Free 0.30162
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.70
ligand MN, PT, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceSpecific DNA structural attributes modulate platinum anticancer drug site selection and cross-link generation., Wu B, Davey GE, Nazarov AA, Dyson PJ, Davey CA, Nucleic Acids Res. 2011 Oct;39(18):8200-12. Epub 2011 Jun 30. PMID:21724603
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (248 Kb) [Save to disk]
  • Biological Unit Coordinates (3rel.pdb1.gz) 240 Kb
  • LPC: Ligand-Protein Contacts for 3REL
  • CSU: Contacts of Structural Units for 3REL
  • Structure Factors (2988 Kb)
  • Retrieve 3REL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3REL from S2C, [Save to disk]
  • Re-refined 3rel structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3REL 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 3REL
  • 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 3REL, from MSDmotif at EBI
  • Fold representative 3rel from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rel_J] [3rel_H] [3rel] [3rel_D] [3rel_C] [3rel_B] [3rel_A] [3rel_E] [3rel_I] [3rel_F] [3rel_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3REL: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 3REL
  • Community annotation for 3REL at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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