LocaPep: Localization of epitopes on protein surfaces using peptides from phage display libraries

Luis F. Pacios; Leticia Tordesillas; Arantxa Palacín; Rosa Sánchez-Monge; Gabriel Salcedo; Araceli Díaz-Perales

doi:10.1021/ci200059c

LocaPep: Localization of epitopes on protein surfaces using peptides from phage display libraries

Luis F. Pacios, Leticia Tordesillas, Arantxa Palacín, Rosa Sánchez-Monge, Gabriel Salcedo, Araceli Díaz-Perales

Research output: Contribution to journal › Article › peer-review

15 Scopus citations

Abstract

The use of peptides from a phage display library selected by binding to a given antibody is a widespread technique to probe epitopes of antigenic proteins. However, the identification of interaction sites mimicked by these peptides on the antigen surface is a difficult task. LocaPep is a computer program developed to localize epitopes using a new clusters algorithm that focuses on protein surface properties. The program is constructed with the aim of providing a flexible computational tool for predicting the location of epitopes on protein structures. As a first set of testing results, the localization of epitope regions in eight different antigenic proteins for which experimental data on their antibody interactions exist is correctly identified by LocaPep. These results represent a disparate sample of biologically different systems. The program is freely available at http://atenea.montes.upm.es

Original language	English
Pages (from-to)	1465-1473
Number of pages	9
Journal	Journal of Chemical Information and Modeling
Volume	51
Issue number	6
DOIs	https://doi.org/10.1021/ci200059c
State	Published - 27 Jun 2011
Externally published	Yes

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title = "LocaPep: Localization of epitopes on protein surfaces using peptides from phage display libraries",

abstract = "The use of peptides from a phage display library selected by binding to a given antibody is a widespread technique to probe epitopes of antigenic proteins. However, the identification of interaction sites mimicked by these peptides on the antigen surface is a difficult task. LocaPep is a computer program developed to localize epitopes using a new clusters algorithm that focuses on protein surface properties. The program is constructed with the aim of providing a flexible computational tool for predicting the location of epitopes on protein structures. As a first set of testing results, the localization of epitope regions in eight different antigenic proteins for which experimental data on their antibody interactions exist is correctly identified by LocaPep. These results represent a disparate sample of biologically different systems. The program is freely available at http://atenea.montes.upm.es",

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doi = "10.1021/ci200059c",

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T2 - Localization of epitopes on protein surfaces using peptides from phage display libraries

AU - Pacios, Luis F.

AU - Tordesillas, Leticia

AU - Palacín, Arantxa

AU - Sánchez-Monge, Rosa

AU - Salcedo, Gabriel

AU - Díaz-Perales, Araceli

PY - 2011/6/27

Y1 - 2011/6/27

N2 - The use of peptides from a phage display library selected by binding to a given antibody is a widespread technique to probe epitopes of antigenic proteins. However, the identification of interaction sites mimicked by these peptides on the antigen surface is a difficult task. LocaPep is a computer program developed to localize epitopes using a new clusters algorithm that focuses on protein surface properties. The program is constructed with the aim of providing a flexible computational tool for predicting the location of epitopes on protein structures. As a first set of testing results, the localization of epitope regions in eight different antigenic proteins for which experimental data on their antibody interactions exist is correctly identified by LocaPep. These results represent a disparate sample of biologically different systems. The program is freely available at http://atenea.montes.upm.es

AB - The use of peptides from a phage display library selected by binding to a given antibody is a widespread technique to probe epitopes of antigenic proteins. However, the identification of interaction sites mimicked by these peptides on the antigen surface is a difficult task. LocaPep is a computer program developed to localize epitopes using a new clusters algorithm that focuses on protein surface properties. The program is constructed with the aim of providing a flexible computational tool for predicting the location of epitopes on protein structures. As a first set of testing results, the localization of epitope regions in eight different antigenic proteins for which experimental data on their antibody interactions exist is correctly identified by LocaPep. These results represent a disparate sample of biologically different systems. The program is freely available at http://atenea.montes.upm.es

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LocaPep: Localization of epitopes on protein surfaces using peptides from phage display libraries

Abstract

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