X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2Fviewingpdbs.html;h=048f0efd41d7ffc0d9a8b48da56e28d83712001f;hb=b2f9a8d7bce642ff4011bc6d49e02bb0569fbb11;hp=4904856d1fd311df7aa55befe18eeedad3c17fb6;hpb=59d682209891099d46b960509907c79e3fb276fe;p=jalview.git
diff --git a/help/html/features/viewingpdbs.html b/help/html/features/viewingpdbs.html
index 4904856..048f0ef 100755
--- a/help/html/features/viewingpdbs.html
+++ b/help/html/features/viewingpdbs.html
@@ -1,7 +1,7 @@
PDB Viewing
@@ -23,8 +24,31 @@
Viewing PDB Structures
Jalview can view protein structures associated with a sequence
-via the "Structure→View PDB entry:" entries from a
-sequence's pop-up menu. Once a pdb
+via the "Structure→" submenu from a
+sequence's pop-up menu.
+The following menu entries are provided for viewing structure data
+
+ - The "Structure→View
+ Structure→ submenu allows a single PDB structure to be chosen
+ for display from the available structures for a sequence.
+
+ - The "Structure→View all N
+ structures
+ option will open a new window containing all structures associated
+ with the current selection, superposed according to the currently selected region of the alignment.
This
+ capability was added in Jalview 2.7
+
+ - The "Structure→View all N
+ representative structures
+ option will open a new window containing exactly one structure per
+ currently selected sequence.
+ The View representative structures option was introduced in
+ Jalview 2.8.1
+
+
+
+
+If a single pdb
structure is selected, one of the following will happen:
@@ -43,17 +67,6 @@ structure is selected, one of the following will happen:
- See the Jmol
PDB viewer help page for more information about the display.
-
- Opening structures associated with the current selection
- If one or more of the sequences in the alignment are selected, then
- the Structure submenu of the Sequence
- ID popup menu will contain will include either a 'View all X
- structures' entry in the submenu or a 'View structure for Sequence'
- entry. Both these options will open a new Jmol view containing one, or
- all the structures available for all selected sequences, superimposed
- using the currently selected region of the alignment. (This
- capability was added in Jalview 2.7)
-
Associating PDB files with Sequences
To associate PDB files with a sequence, right click on a sequence
ID and select "Structure→ Associate Structure with