From 81236bc31ea04d78abb90d5f66e250491c2bbf83 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Wed, 2 Mar 2022 15:11:20 +0000 Subject: [PATCH] =?utf8?q?JAL-3746=20more=20what=E2=80=99s=20new?= MIME-Version: 1.0 Content-Type: text/plain; charset=utf8 Content-Transfer-Encoding: 8bit --- help/help/html/whatsNew.html | 90 +++++++++++++++++++++--------------------- 1 file changed, 46 insertions(+), 44 deletions(-) diff --git a/help/help/html/whatsNew.html b/help/help/html/whatsNew.html index 9ee2ab0..4865615 100755 --- a/help/help/html/whatsNew.html +++ b/help/help/html/whatsNew.html @@ -24,9 +24,8 @@

- Welcome to Jalview Version $$Version-Rel$$ !! -
Please take a - look at the release + Welcome to Jalview Version $$Version-Rel$$ !!
Please + take a look at the release notes for this build. Read on for the highlights.

@@ -34,48 +33,51 @@

New features for working with 3D Structure
- Jalview 2.11.2 features a number of new capabilities: - + Jalview 2.11.2 features a number of new capabilities described + below. +

+ +

+ View predicted protein structures via 3D-Beacons
+ Jalview 2.11.2's Structure + Chooser includes a client for the 3D-Beacons Network. Launched in + 2021, 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).
+

+ +

+ Support for viewing structures with ChimeraX and + Pymol
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).

+ The 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.
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. +

+

Other highlights include: