5WSP Dna date Dec 08, 2016
title Crystal Structure Of Dna3 Duplex
authors J.H.Gan, H.H.Liu
compound source
Molecule: Dna (5'-D(Gpgptpcpgptpcpc)-3')
Chain: A
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644
symmetry Space Group: P 43 21 2
R_factor 0.185 R_Free 0.197
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.471 42.471 25.147 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand SR enzyme
Primary referenceFlexibility and stabilization of HgII-mediated C:T and T:T base pairs in DNA duplex., Liu H, Cai C, Haruehanroengra P, Yao Q, Chen Y, Yang C, Luo Q, Wu B, Li J, Ma J, Sheng J, Gan J, Nucleic Acids Res. 2016 Dec 19. pii: gkw1296. doi: 10.1093/nar/gkw1296. PMID:27998930
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (8 Kb) [Save to disk]
  • Biological Unit Coordinates (5wsp.pdb1.gz) 7 Kb
  • LPC: Ligand-Protein Contacts for 5WSP
  • CSU: Contacts of Structural Units for 5WSP
  • Structure Factors (100 Kb)
  • Retrieve 5WSP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WSP from S2C, [Save to disk]
  • Re-refined 5wsp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5WSP 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 5WSP
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5wsp] [5wsp_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5WSP
  • Community annotation for 5WSP at PDBWiki (http://pdbwiki.org)

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