UNLABELLED: We have implemented in a single package all the features required for extracting, visualizing and manipulating fully conserved positions as well as those with a family-dependent conservation pattern in multiple sequence alignments. The program allows, among other things, to run different methods for extracting these positions, combine the results and visualize them in protein 3D structures and sequence spaces. AVAILABILITY AND IMPLEMENTATION: JDet is a multiplatform application written in Java. It is freely available, including the source code, at http://csbg.cnb.csic.es/JDet. The package includes two of our recently developed programs for detecting functional positions in protein alignments (Xdet and S3Det), and support for other methods can be added as plug-ins. A help file and a guided tutorial for JDet are also available.
UNLABELLED: We have implemented in a single package all the features required for extracting, visualizing and manipulating fully conserved positions as well as those with a family-dependent conservation pattern in multiple sequence alignments. The program allows, among other things, to run different methods for extracting these positions, combine the results and visualize them in protein 3D structures and sequence spaces. AVAILABILITY AND IMPLEMENTATION: JDet is a multiplatform application written in Java. It is freely available, including the source code, at http://csbg.cnb.csic.es/JDet. The package includes two of our recently developed programs for detecting functional positions in protein alignments (Xdet and S3Det), and support for other methods can be added as plug-ins. A help file and a guided tutorial for JDet are also available.
Authors: Margot J Lautens; June H Tan; Xènia Serrat; Samantha Del Borrello; Michael R Schertzberg; Andrew G Fraser Journal: PLoS Negl Trop Dis Date: 2021-11-29
Authors: Rubén M Buey; Rodrigo Ledesma-Amaro; Adrián Velázquez-Campoy; Mónica Balsera; Mónica Chagoyen; José M de Pereda; José L Revuelta Journal: Nat Commun Date: 2015-11-12 Impact factor: 14.919
Authors: Sergey Ovchinnikov; Lisa Kinch; Hahnbeom Park; Yuxing Liao; Jimin Pei; David E Kim; Hetunandan Kamisetty; Nick V Grishin; David Baker Journal: Elife Date: 2015-09-03 Impact factor: 8.140