Class ExtendedIUPACProtein

source code

        Alphabet --+        
                   |        
SingleLetterAlphabet --+    
                       |    
         ProteinAlphabet --+
                           |
                          ExtendedIUPACProtein

Known Subclasses:

• IUPACProtein

Extended uppercase IUPAC protein single letter alphabet including X etc.

In addition to the standard 20 single letter protein codes, this includes:

B = "Asx";  Aspartic acid (R) or Asparagine (N)
X = "Xxx";  Unknown or 'other' amino acid
Z = "Glx";  Glutamic acid (E) or Glutamine (Q)
J = "Xle";  Leucine (L) or Isoleucine (I), used in mass-spec (NMR)
U = "Sec";  Selenocysteine
O = "Pyl";  Pyrrolysine

This alphabet is not intended to be used with X for Selenocysteine
(an ad-hoc standard prior to the IUPAC adoption of U instead).