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Questions and answers => General discussions (Q&As) => Topic started by: maryatx3dna on July 10, 2015, 05:40:19 am

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Title: base stacking
Post by: maryatx3dna on July 10, 2015, 05:40:19 am

sir,

Does any helical parameter is directly related to base stacking so that we can a give an account of relative base stacking strength other than visual observation with mstacking or base overlap?

Title: Re: base stacking
Post by: xiangjun on July 10, 2015, 07:51:52 am

The base-overlap area is an intuitive parameter to quantify stacking interactions that matches visual  observations. As regard to the correlation between base-stacking interactions and helical parameters, why not you have a try with some examples? I guess the correlation would depend on DNA conformations. Among other parameters, slide should be a related one.

HTH,

Xiang-Jun

Title: Re: base stacking
Post by: maryatx3dna on July 14, 2015, 03:03:23 am

ok sir, i wil try.

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The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.