X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FSeqPanel.java;h=3209960d6f183e9a9901884df259378a40a9f61a;hb=eacce9627f059fc2f9e880c81d8d1bdfbe7fe5b3;hp=600da64e3ca689d29c34fba93e7cf33bd522475a;hpb=5a6006d91dab2244638eba92fd59e1b4c4359443;p=jalview.git

diff --git a/src/jalview/gui/SeqPanel.java b/src/jalview/gui/SeqPanel.java
index 600da64..3209960 100755
--- a/src/jalview/gui/SeqPanel.java
+++ b/src/jalview/gui/SeqPanel.java
@@ -357,6 +357,12 @@ public class SeqPanel extends JPanel
         return;
       }
 
+      if(seqCanvas.pdbCanvas!=null && sequence==seqCanvas.pdbCanvas.sequence)
+      {
+        seqCanvas.pdbCanvas.highlightRes(sequence.findPosition(res));
+      }
+
+
         StringBuffer text = new StringBuffer("Sequence " + (seq + 1) + " ID: " +
                 sequence.getName());
 
@@ -402,16 +408,29 @@ public class SeqPanel extends JPanel
                 if ( (sf.getBegin() <= sequence.findPosition(res)) &&
                     (sf.getEnd() >= sequence.findPosition(res)))
                 {
-                  if (sbuffer.length() > 6)
-                    sbuffer.append("<br>");
-
-                  sbuffer.append(sf.getType());
-                  if (sf.getDescription() != null)
-                    sbuffer.append(" " + sf.getDescription());
-
-                  if (sf.getStatus() != null)
+                  if (sf.getType().equals("disulfide bond"))
                   {
-                    sbuffer.append(" (" + sf.getStatus() + ")");
+                    if (sf.getBegin() == sequence.findPosition(res)
+                        || sf.getEnd() == sequence.findPosition(res))
+                    {
+                      if (sbuffer.length() > 6)
+                        sbuffer.append("<br>");
+                      sbuffer.append("disulfide bond " + sf.getBegin() + ":" +
+                                     sf.getEnd());
+                    }
+                  }
+                  else
+                  {
+                    if (sbuffer.length() > 6)
+                      sbuffer.append("<br>");
+                    sbuffer.append(sf.getType());
+                    if (sf.getDescription() != null)
+                      sbuffer.append(" " + sf.getDescription());
+
+                    if (sf.getStatus() != null)
+                    {
+                      sbuffer.append(" (" + sf.getStatus() + ")");
+                    }
                   }
                 }
 
@@ -990,7 +1009,7 @@ public class SeqPanel extends JPanel
 
                 try
                 {
-                    Thread.sleep(75);
+                    Thread.sleep(20);
                 }
                 catch (Exception ex)
                 {