VMD-L Mailing List

From: Daniel Marin (gethingdone_at_gmail.com)
Date: Tue May 24 2022 - 04:28:35 CDT

Hi all
As of my understanding Gly is considered as non-polar amino acid in protein
(at neutral pH).
Why, in VMD, its restype color is green (representing it as polar amino
acid)?

I am asking because I need to divide amino acids in protein into two
groups: hydrophilic and hydrophobic. If Gly is polar, it should be
considered as hydrophilic, but, according to literature it should be
hydrophobic.

Thanks