Class ExtendedIUPACProtein

source code

      object --+            
               |            
        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).