3P4J Dna date Oct 06, 2010
title Ultra-High Resolution Structure Of D(Cgcgcg)2 Z-Dna
authors K.Brzezinski, A.Brzuszkiewicz, M.Dauter, M.Kubicki, M.Jaskolski,
compound source
Molecule: Dna (5'-D(Cpgpcpgpcpg)-3')
Chain: A, B
Engineered: Yes
 Synthetic: Yes
Other_details: Synthetic Construct
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
17.880 31.420 43.900 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.55 Å
ligand SPM enzyme
Primary referenceHigh regularity of Z-DNA revealed by ultra high-resolution crystal structure at 0.55 A., Brzezinski K, Brzuszkiewicz A, Dauter M, Kubicki M, Jaskolski M, Dauter Z, Nucleic Acids Res. 2011 Aug 1;39(14):6238-48. Epub 2011 Apr 1. PMID:21459852
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (19 Kb) [Save to disk]
  • Biological Unit Coordinates (3p4j.pdb1.gz) 15 Kb
  • LPC: Ligand-Protein Contacts for 3P4J
  • CSU: Contacts of Structural Units for 3P4J
  • Structure Factors (1175 Kb)
  • Retrieve 3P4J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3P4J from S2C, [Save to disk]
  • Re-refined 3p4j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3P4J 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 3P4J
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3P4J, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3p4j_B] [3p4j_A] [3p4j]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3P4J
  • Community annotation for 3P4J at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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