- <p>Jalview 2.11.1.3 is the third patch release, fixing a bug
- introduced in last weeks Jalview 2.11.1.1 release affecting display
- of Jalview's example project for some users. Together, these
- releases include fixes for a number of critical bugs, and also contains a
- handful of new features suggested by the Jalview community.</p>
+ <p><em>19 April 2022</em></p>
+<p>Jalview 2.11.2.2 is the second patch release in the 2.11.2 series.</p>
+
+ <p>
+ This release series provides support for two popular 3D
+ structure visualisation tools, new features for discovery of 3D
+ structures, improved platform integration and a new command line
+ tool allowing Jalview to be more easily called from scripts.</p>
+
+ <p>
+ <strong>View predicted protein structures via 3D-Beacons</strong> <br>
+ Jalview 2.11.2's <a href="features/structurechooser.html">Structure
+ Chooser includes a client for the 3D-Beacons Network</a>. Launched in
+ 2021, the 3D-Beacons network (<a
+ href="https://www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/">www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/</a>)
+ provides a central point for the retrieval of predicted and observed
+ 3D structures for sequences in Uniprot, including homology models
+ from Swiss-model and deep learning based predictions from the EBI's
+ Alphafold database (Orengo et al. 2020, <a
+ href="https://doi.org/10.12688/f1000research.20559.1">doi:10.12688/f1000research.20559.1</a>).<br>
+ </p>
+
+ <p>
+ <strong>Support for viewing structures with ChimeraX and
+ Pymol</strong><br> Jalview's 3D structure viewer system has been
+ re-architected to allow easier integration of external structure
+ viewers, and takes advantage of the strucViz2 Chimera communications
+ library developed by Scooter Morris (<a
+ href="https://doi.org/10.1093/bioinformatics/btm329">doi:10.1093/bioinformatics/btm329</a>).<br /> <br />
+ The <a href="features/preferences.html#structure">Structures
+ Preferences tab</a> provides new options allowing ChimeraX and
+ Pymol to be used for visualising external 3D structures. Views
+ from all structure viewers are saved in Jalview Projects, allowing
+ them to be shared with others using Jalview 2.11.2 or later,
+ providing they have the same viewer installed and configured to be
+ used with Jalview.<br/><br/>Jalview
+ 2.11.2 has been tested with <strong>Pymol 2.5.0 (community)</strong> and <strong>2.5.2
+ (incentive)</strong>. For <strong>ChimeraX, we recommend using v1.3 or later</strong>.
+ </p>
+ <p>Other highlights include:</p>