- #1
James D
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Hello,
I use some standard tables of amino acids pKa values, as the one here:
http://www.cem.msu.edu/~cem252/sp97/ch24/ch24aa.html
and I am especially interested in the pKr (i.e. pKa of the side chains).
Correct me if I'm wrong, but pKa values listed in such tables refer to a "free" peptide, as opposed to a peptide which is a part of a polypeptide.
What I am interested in is to get some intuition as to how might pKr values change when the peptide is a part of a polypeptide. For example, if the peptide in interest is X and its "standard" pKr value is Y, do you expect this pKr value to be higher or lower when X is found in a polypeptide next to some amino acid Z?
I am not looking for exact calculation, but just some thumb rules or intuition.
Thanks,
James
I use some standard tables of amino acids pKa values, as the one here:
http://www.cem.msu.edu/~cem252/sp97/ch24/ch24aa.html
and I am especially interested in the pKr (i.e. pKa of the side chains).
Correct me if I'm wrong, but pKa values listed in such tables refer to a "free" peptide, as opposed to a peptide which is a part of a polypeptide.
What I am interested in is to get some intuition as to how might pKr values change when the peptide is a part of a polypeptide. For example, if the peptide in interest is X and its "standard" pKr value is Y, do you expect this pKr value to be higher or lower when X is found in a polypeptide next to some amino acid Z?
I am not looking for exact calculation, but just some thumb rules or intuition.
Thanks,
James
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