Hello All,
I'm trying to use Avogadro's peptide building capabilities to build a peptide
system to be used with CHARMM19. CHARMM19 is a united atom model but still has
polar hydrogens (hydrogens attached to N and O). Avogadro will allow me to
remove "all" hydrogens, this inherently removes polar hydrogens. Is it
possible to remove all hydrogens except polar, while also keeping the atoms
correctly labeled, as in CA for alpha carbon?
Thanks,
John
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