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Related Experiment Videos

DSHIFT: a web server for predicting DNA chemical shifts.

Sik Lok Lam1

  • 1Department of Chemistry, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong. lams@cuhk.edu.hk

Nucleic Acids Research
|May 23, 2007
PubMed
Summary
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DSHIFT predicts DNA chemical shifts for random coil and B-DNA forms using published data and correction factors. This aids in NMR assignments and understanding DNA structures in solution.

Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Nuclear Magnetic Resonance (NMR) spectroscopy is crucial for determining DNA structure in solution.
  • Accurate prediction of chemical shifts can significantly aid in the assignment of NMR resonances.
  • Existing methods may not fully account for the nuances of DNA chemical shift variations.

Purpose of the Study:

  • To develop and present DSHIFT, a web server for predicting DNA chemical shifts.
  • To provide predictions for both random coil and double helical B-DNA forms.
  • To facilitate NMR resonance assignment and structural investigation of DNA molecules.

Main Methods:

  • Utilizes published reference chemical shift values.
  • Incorporates correction factors for nucleotide shielding/deshielding effects.

Related Experiment Videos

  • Web server implementation for accessibility.

    • Main Results:

    • Predicts proton, carbon, and phosphorus chemical shifts for random coil DNA.
    • Predicts proton chemical shifts for double helical B-DNA.
    • Provides a tool for researchers to input DNA sequences and obtain predicted shifts.

    Conclusions:

    • DSHIFT offers a valuable resource for NMR spectroscopists and structural biologists.
    • The predictions can expedite the process of NMR resonance assignment.
    • The tool aids in the detailed investigation of DNA structural features in solution.