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Topics - spoblete

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RNA structures (DSSR) / Stacking parameters (again)
« on: August 27, 2019, 07:56:01 pm »
Dear Dr. Lu,
long time ago, I asked about some specifications about the criteria for defining two bases as stacked. In that time, it was enough with the answer you kindly provided me. However, now I need to know more specifically about the parameters used for that. Is it possible to obtain them?

Best wishes,

Simón Poblete.

RNA structures (DSSR) / Stacking parameters
« on: December 27, 2018, 01:54:48 pm »

I would like to know more specifically the parameters used in the base-stacking classification. I have seen that some almost-perpendicular pairs of bases are annotated as stacked, so I would like to know if the criteria is based uniquely on the hull overlap or if they belong to a more specific perpendicular stacking interaction set.

Many thanks in advance.


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