- <p>
- <strong>Viewing PDB Structures</strong>
- </p>
- Jalview can be used to view protein structures by following the steps below:
- <ol>
- <li>Select the <strong>"3D Structure Data..."</strong> option from a
- sequence's <a href="../menus/popupMenu.html">pop-up menu</a> to open the <a href="structurechooser.html">Structure Chooser</a> dialog box.
- <ul>
- <li>If one or more structures exists for the given sequence, the <a href="structurechooser.html">Structure Chooser</a>
- dialog will open with them listed in the results pane.</li>
- <li>However, if no structure was found, the <a href="structurechooser.html">Structure Chooser</a> interface will present options for manual association of PDB structures.</li>
- </ul>
- </li>
- <li><strong>Selecting Structures</strong><br /> If structures
- have been discovered, then some will already be selected according
- to predefined selection criteria, such as structures with the
- highest resolution. Use the drop down menu to select structures
- according to different criteria, or, alternatively, choose
- structures manually by selecting with the keyboard and mouse.
+ <p>
+ <strong>Discovering and Viewing PDB Structures</strong>
+ </p>
+ Jalview can be used to explore the 3D structures of sequences in an
+ alignment by following the steps below:
+ <ol>
+ <li>Select the <strong>"3D Structure Data..."</strong> option
+ from a sequence's <a href="../menus/popupMenu.html">pop-up
+ menu</a> to open the <a href="structurechooser.html">Structure
+ Chooser</a> dialog box.
+ <ul>
+ <li>If one or more structures exists for the given
+ sequence, the <a href="structurechooser.html">Structure
+ Chooser</a> dialog will open with them listed in the results
+ pane.
+ </li>
+ <li>However, if no structure was found, the <a
+ href="structurechooser.html">Structure Chooser</a> interface
+ will present options for manual association of PDB structures.
+ </li>
+ </ul>
+ </li>
+ <li><strong>Selecting Structures</strong><br />You can select
+ the structures to you want to open and view by selecting them with
+ the mouse and keyboard.<br />By default, if structures were
+ discovered, then some will already be selected according to the
+ criteria shown in the drop-down menu. The default criteria is
+ 'highest resolution', simply choose another to pick structures in
+ a different way.<br />