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added 3 letter IUB codes for ambiguous residues/bases
author
jprocter
<Jim Procter>
Fri, 18 Nov 2005 13:30:08 +0000
(13:30 +0000)
committer
jprocter
<Jim Procter>
Fri, 18 Nov 2005 13:30:08 +0000
(13:30 +0000)
src/jalview/schemes/ResidueProperties.java
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diff --git
a/src/jalview/schemes/ResidueProperties.java
b/src/jalview/schemes/ResidueProperties.java
index
fbaab81
..
4906eb7
100755
(executable)
--- a/
src/jalview/schemes/ResidueProperties.java
+++ b/
src/jalview/schemes/ResidueProperties.java
@@
-156,9
+156,10
@@
public class ResidueProperties
aa3Hash.put("TRP", new Integer(17));
\r
aa3Hash.put("TYR", new Integer(18));
\r
aa3Hash.put("VAL", new Integer(19));
\r
aa3Hash.put("TRP", new Integer(17));
\r
aa3Hash.put("TYR", new Integer(18));
\r
aa3Hash.put("VAL", new Integer(19));
\r
- aa3Hash.put("B", new Integer(20));
\r
- aa3Hash.put("Z", new Integer(21));
\r
- aa3Hash.put("X", new Integer(22));
\r
+ // IUB Nomenclature for ambiguous peptides
\r
+ aa3Hash.put("ASX", new Integer(20)); // "B";
\r
+ aa3Hash.put("GLX", new Integer(21)); // X
\r
+ aa3Hash.put("XAA", new Integer(22));// X unknown
\r
aa3Hash.put("-", new Integer(23));
\r
aa3Hash.put("*", new Integer(23));
\r
aa3Hash.put(".", new Integer(23));
\r
aa3Hash.put("-", new Integer(23));
\r
aa3Hash.put("*", new Integer(23));
\r
aa3Hash.put(".", new Integer(23));
\r