[gmx-users] Volume of peripheral protein

Pallavi Banerjee pallavisept at students.iiserpune.ac.in
Wed Mar 14 16:02:29 CET 2018

Hello gromacs users,

My system comprises the GFP (protein) anchored to a lipid membrane via a
polysaccharide. I need to calculate the volume of this peripheral protein
throughout the simulation. Calculating the volume from the solvent
accessible surface area is probably not a good idea because the protein
sleeps on the membrane for a significant part of the trajectory. Could you
suggest other ways?

Thanks in advance.


Pallavi Banerjee


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