PVS -- Protein Variability Server
What you can do:
A web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery.
- PVS is a web-based tool that uses several variability metrics to compute the absolute site variability in multiple protein-sequence alignments (MSAs).
- The variability is then assigned to a user-selected reference sequence consisting of either the first sequence in the alignment or a consensus sequence.
- Subsequently, PVS performs tasks that are relevant for structure-function studies, such as plotting and visualizing the variability in a relevant 3D-structure.
- Neatly, PVS also implements some other tasks that are thought to facilitate the design of epitope discovery-driven vaccines against pathogens where sequence variability largely contributes to immune evasion.
- Thus, PVS can return the conserved fragments in the MSA-as defined by a user-provided variability threshold-and locate them in a relevant 3D-structure.
- Furthermore, PVS can return a variability-masked sequence, which can be directly submitted to the RANKPEP server for the prediction of conserved T-cell epitopes.
- multiple sequence alignment
- protein sequence alignment
- protein sequence variability
- structure-function studies
Literature & Tutorials:
This record last updated: 07-18-2008
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