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I am a newbie on this field and have a question on deformability.
Suppose I have a small DNA fragment, such as "ATTGCGGATATA", how to calculate the deformability of this motif, Any formula?
Should I use the table (Part A: Protein-DNA complexes) in the following page?
http://rutchem.rutgers.edu/~olson/ave_dpn.html (http://rutchem.rutgers.edu/~olson/ave_dpn.html)
Thank you!
HongLu
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3DNA does not perform energy calculations per se, but please have a look of the post "deformation energy calculation program (http://http://3dna.rutgers.edu:8080/forum/viewtopic.php?f=4&t=108)" by Dr. Thomas Gaillard at the Users' contributions section.
If you have further technical questions, you may want to post over there: I think Dr. Gaillard would follow up.
Xiang-Jun
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It's very helpful for me. Thank you.
Hong
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.