X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fstructures%2Fmodels%2FAAStructureBindingModel.java;fp=src%2Fjalview%2Fstructures%2Fmodels%2FAAStructureBindingModel.java;h=f172490f52b5c57458d5e90e1f2b7400ee822885;hb=3ed1950a0283cbf7f312f58d9aabbbd21abfa4a8;hp=a53674f377b4e6aef9595092904d7523f49762b5;hpb=d33b11cc597fdc17a49c0843d92894da5301ead1;p=jalview.git

diff --git a/src/jalview/structures/models/AAStructureBindingModel.java b/src/jalview/structures/models/AAStructureBindingModel.java
index a53674f..f172490 100644
--- a/src/jalview/structures/models/AAStructureBindingModel.java
+++ b/src/jalview/structures/models/AAStructureBindingModel.java
@@ -844,8 +844,15 @@ public abstract class AAStructureBindingModel
     colourBy = ColourBy.ChargeAndCysteine;
   }
 
+  /**
+   * Colour the structure as per the sequence alignment
+   * 
+   * @param alignmentv
+   * @param showFeatures
+   */
   public void colourBySequence(AlignmentViewPanel alignmentv, boolean showFeatures)
   {
+    colourBy = ColourBy.Sequence;
     colourBySequence(alignmentv, alignmentv.getSequenceRenderer(), showFeatures);
   }
 
@@ -856,7 +863,6 @@ public abstract class AAStructureBindingModel
   public void colourBySequence(AlignmentViewPanel alignmentv, SequenceRendererI sr, boolean showFeats)
   {
     showFeatures = showFeats;
-    colourBy = ColourBy.Sequence;
     
     if (!isLoadingFinished())
     {