3QBA Dna date Jan 12, 2011
title Reintroducing Electrostatics Into Macromolecular Crystallogr Refinement: Z-Dna (X-Ray)
authors T.D.Fenn, M.J.Schnieders, M.Mustyakimov, C.Wu, P.Langan, V.S.Pand A.T.Brunger
compound source
Molecule: Z-Dna
Chain: A, B
Engineered: Yes
 Synthetic: Yes
Other_details: Solid State Synthesis Using A Phosphoramidit Approach
symmetry Space Group: P 21 21 21
R_factor 0.301 R_Free 0.315
crystal
cell
length a length b length c angle alpha angle beta angle gamma
17.900 30.590 44.610 90.00 90.00 90.00
method X-Ray Diffraction; Neutron Diffractionresolution 1.53 Å
ligand DCZ enzyme
Primary referenceReintroducing electrostatics into macromolecular crystallographic refinement: application to neutron crystallography and DNA hydration., Fenn TD, Schnieders MJ, Mustyakimov M, Wu C, Langan P, Pande VS, Brunger AT, Structure. 2011 Apr 13;19(4):523-33. PMID:21481775
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (15 Kb) [Save to disk]
  • Biological Unit Coordinates (3qba.pdb1.gz) 11 Kb
  • LPC: Ligand-Protein Contacts for 3QBA
  • CSU: Contacts of Structural Units for 3QBA
  • Structure Factors (68 Kb)
  • Retrieve 3QBA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3QBA from S2C, [Save to disk]
  • Re-refined 3qba structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3QBA 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 3QBA
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3QBA, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3qba] [3qba_B] [3qba_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3QBA
  • Community annotation for 3QBA at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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