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Questions and answers > General discussions (Q&As)

Threading DNA

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Dilip:
I wonder if it's possible using 3DNA to superpose a given(input) DNA sequence to the conformation of the DNA in the known protein-DNA complexes from the PDB database.

xiangjun:

--- Quote from: "Dilip" ---I wonder if it's possible using 3DNA to superpose a given(input) DNA sequence to the conformation of the DNA in the known protein-DNA complexes from the PDB database.
--- End quote ---

The short answer is no: 3DNA does not have such functionality built in. However, 3DNA is a tool set that could be used for such purpose. For an example, have a look http://www.ncbi.nlm.nih.gov/pubmed/19289051.

Xiang-Jun

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Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.