PVS: A Web Server for Protein Sequence Variability Analysis Tuned to Facilitate Conserved Epitope Discovery

DSpace/Manakin Repository

PVS: A Web Server for Protein Sequence Variability Analysis Tuned to Facilitate Conserved Epitope Discovery

Citable link to this page

. . . . . .

Title: PVS: A Web Server for Protein Sequence Variability Analysis Tuned to Facilitate Conserved Epitope Discovery
Author: Garcia-Boronat, Maria; Diez-Rivero, Carmen M.; Reche, Pedro A.; Reinherz, Ellis Leonard

Note: Order does not necessarily reflect citation order of authors.

Citation: Garcia-Boronat, Maria, Carmen M. Diez-Rivero, Ellis L. Reinherz, and Pedro A. Reche. 2008. PVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery. Nucleic Acids Research 36(Web Server issue): W35-W41.
Full Text & Related Files:
Abstract: We have developed PVS (Protein Variability Server), 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. PVS is freely available at: http://imed.med.ucm.es/PVS/.
Published Version: doi:10.1093/nar/gkn211
Other Sources: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447719/pdf/
Terms of Use: This article is made available under the terms and conditions applicable to Other Posted Material, as set forth at http://nrs.harvard.edu/urn-3:HUL.InstRepos:dash.current.terms-of-use#LAA
Citable link to this page: http://nrs.harvard.edu/urn-3:HUL.InstRepos:4875894

Show full Dublin Core record

This item appears in the following Collection(s)

 
 

Search DASH


Advanced Search
 
 

Submitters