[gmx-users] calculation of cross sectional area of protein on lipid

[Justin Lemkul]

On 11/6/19 8:03 AM, SHAHEE ISLAM wrote:
> hi,
> i want to calculate the cross sectional area of protein on the lipid layer.
> Can anyone please guide me how can i do that. By using gmx sasa i can
> calculate the surface area of protein. What should i choose so that i can
> calculate cross section area of protein on lipid bilayer.

There is no GROMACS program that will do this. However, you can get this 
quantity with GridMat-MD: https://github.com/jalemkul/gridmat-md

-Justin

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Justin A. Lemkul, Ph.D.
Assistant Professor
Office: 301 Fralin Hall
Lab: 303 Engel Hall

Virginia Tech Department of Biochemistry
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jalemkul at vt.edu | (540) 231-3129
http://www.thelemkullab.com

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