Welcome to Jalview Version $$Version-Rel$$ !!
Please take a
look at the release
notes for this build. Read on for the highlights.
Highlights in 2.11.2
New features for working with 3D Structure
Jalview 2.11.2 features a number of new capabilities:
Retrieval of 3D models via 3D-Beacons
The
3D-Beacons network (www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/)
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,
doi:10.12688/f1000research.20559.1).
See the Structure
Chooser's documentation.
Support for viewing structures with ChimeraX and
Pymol
Structures Preferences tab provides new options
allowing ChimeraX and Pymol to be used for visualising external 3D
structures. Jalview 2.11.2 has been tested with Pymol 2.5.0
(community) and 2.5.2 (incentive). For ChimeraX, we recommend
using v1.3 or later. 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 (doi:10.1093/bioinformatics/btm329).
For the full release notes, see the Jalview 2.11.1.4 release notes.
Known Issues
New known issues in this release affect recovery of CDS/Protein relationships from project files, and interactive selection of protein sequences from a tree built on linked nucleotide sequences. We will provide patches for these issues as soon as possible.