481D Dna date Jul 23, 1999
title Crystal Structure Of A Hexitol Nucleic Acid (Hna) Duplex At Resolution
authors R.Declercq, L.Van Meervelt
compound source
Molecule: 5'-H((6hg)P(6ht)P(6hg)P(6ht)P(6ha)P(6hc)P( P(6hc))-3';
Chain: A
Engineered: Yes
Other_details: The Sugar Moieties Are Not Deoxyribose But D Hexitol
 Synthetic: Yes
symmetry Space Group: P 32 1 2
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
33.041 33.041 38.924 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.60 Å
ligand 6HA, 6HC, 6HG, 6HT enzyme
Primary referenceCrystal structure of double helical hexitol nucleic acids., Declercq R, Van Aerschot A, Read RJ, Herdewijn P, Van Meervelt L, J Am Chem Soc 2002 Feb 13;124(6):928-33. PMID:11829600
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (9 Kb) [Save to disk]
  • Biological Unit Coordinates (481d.pdb1.gz) 7 Kb
  • LPC: Ligand-Protein Contacts for 481D
  • CSU: Contacts of Structural Units for 481D
  • Likely Quarternary Molecular Structure file(s) for 481D
  • Structure Factors (54 Kb)
  • Retrieve 481D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 481D from S2C, [Save to disk]
  • Re-refined 481d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 481D 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 481D
  • 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
  • 3D motif for 481D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [481d_A] [481d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 481D
  • Community annotation for 481D 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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