1P1Y Dna date Apr 14, 2003
title Crystal Structure Of A Continuous Three-Dimensional Dna Latt D(Ggacagatgggag)
authors P.J.Paukstelis, J.Nowakowski, J.J.Birktoft, N.C.Seeman
compound source
Molecule: 5'-D(Gpgpap(Cbr)Papgpap(Bru)Pgpgpgpap
Chain: X
Engineered: Yes
 Synthetic: Yes
symmetry Space Group: P 64
R_factor 0.203 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
40.630 40.630 55.270 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand BRU, CBR, MG enzyme
Primary referenceCrystal structure of a continuous three-dimensional DNA lattice., Paukstelis PJ, Nowakowski J, Birktoft JJ, Seeman NC, Chem Biol 2004 Aug;11(8):1119-26. PMID:15324813
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (17 Kb) [Save to disk]
  • Biological Unit Coordinates (1p1y.pdb1.gz) 23 Kb
  • LPC: Ligand-Protein Contacts for 1P1Y
  • CSU: Contacts of Structural Units for 1P1Y
  • Likely Quarternary Molecular Structure file(s) for 1P1Y
  • Structure Factors (20 Kb)
  • Retrieve 1P1Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P1Y from S2C, [Save to disk]
  • Re-refined 1p1y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1P1Y 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 1P1Y
  • 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 1P1Y, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1p1y_X] [1p1y]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1P1Y
  • Community annotation for 1P1Y 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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