1ZFC Dna date Apr 20, 2005
title Atc Duplex B-Dna
authors F.A.Hays, A.T.Teegarden, Z.J.R.Jones, M.Harms, D.Raup, J.Watson, E.Cavaliere, P.S.Ho
compound source
Molecule: 5'-D(Cpcpgpaptpaptpcpgpg)-3'
Chain: A, B
Engineered: Yes
 Synthetic: Yes
Other_details: Dna Was Synthesized On An Applied Biosystems Synthesizer Using Phosphoramidite Chemistry, With The Trity Protecting Group Left Intact At The 5'-Terminal Nucleotide Deprotected By Treatment With 3% Acetic Acid For Fifteen Mi Neutralized With Ammonium Hydroxide, And Desalted On A Sigm Sephadex Column.
symmetry Space Group: P 21 21 21
R_factor 0.264 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
35.151 39.130 32.971 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
Primary referenceHow sequence defines structure: a crystallographic map of DNA structure and conformation., Hays FA, Teegarden A, Jones ZJ, Harms M, Raup D, Watson J, Cavaliere E, Ho PS, Proc Natl Acad Sci U S A. 2005 May 17;102(20):7157-62. Epub 2005 May 3. PMID:15870206
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (14 Kb) [Save to disk]
  • Biological Unit Coordinates (1zfc.pdb1.gz) 9 Kb
  • CSU: Contacts of Structural Units for 1ZFC
  • Likely Quarternary Molecular Structure file(s) for 1ZFC
  • Structure Factors (19 Kb)
  • Retrieve 1ZFC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZFC from S2C, [Save to disk]
  • Re-refined 1zfc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1ZFC 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 1ZFC
  • 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 1ZFC, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zfc_A] [1zfc] [1zfc_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1ZFC
  • Community annotation for 1ZFC 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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