VMD-L Mailing List
From: Kevin Lin (klin665_at_uchicago.edu)
Date: Tue Nov 21 2023 - 18:08:58 CST
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Hello,
I currently have a simulation of a protein in a waterbox. I'm looking to identify residues on the protein surface throughout the simulation using the measure sasa command. I am aware that the sasa command returns a surface area value for each selection I input it, which I'm currently giving residues. So far, I'm seeing values between 300 and up to over 1000. Is there a suggested threshold for a sasa cutoff value to identify which residues are on the surface, or is there a better way to do this?
Any tips would be greatly appreciated!
Thanks!
- Next message: Roni Saiba: "Re: SASA Cutoff Value for Residues on Protein Surface"
- Previous message: Vermaas, Josh: "Re: How to evaluate VMD performance properly?"
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- Reply: Roni Saiba: "Re: SASA Cutoff Value for Residues on Protein Surface"
- Reply: Josh: "Re: SASA Cutoff Value for Residues on Protein Surface"
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