Protein pKa calculations are sometimes used to calculate the change in the pKa value of an amino-acid residue in this situation. * UAG is normally the amber stop codon, but in organisms containing the biological machinery encoded by the pylTSBCD cluster of genes the amino acid pyrrolysine will be incorporated. ** UGA is normally the opal (or umber) stop codon, but encodes selenocysteine if a SECIS element is present. † The stop codon is not an amino acid, but is included for completeness. †† UAG and UGA do not always act as stop codons (see above). ‡ An essential amino acid cannot be synthesized in humans and must, therefore, be supplied in the diet.
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