Ponencia
Prediction of protein distance maps by assembling fragments according to physicochemical similarities
Autor/es | Asencio Cortés, Gualberto
Aguilar Ruiz, Jesús Salvador Márquez Chamorro, Alfonso Eduardo |
Departamento | Universidad de Sevilla. Departamento de Lenguajes y Sistemas Informáticos |
Fecha de publicación | 2011 |
Fecha de depósito | 2022-05-23 |
Publicado en |
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ISBN/ISSN | 978-3-642-19913-4 1867-5662 |
Resumen | The prediction of protein structures is a current issue of great significance
in structural bioinformatics. More specifically, the prediction of the tertiary structure
of a protein consists of determining its three-dimensional ... The prediction of protein structures is a current issue of great significance in structural bioinformatics. More specifically, the prediction of the tertiary structure of a protein consists of determining its three-dimensional conformation based solely on its amino acid sequence. This study proposes a method in which protein fragments are assembled according to their physicochemical similarities, using information extracted from known protein structures. Many approaches cited in the literature use the physicochemical properties of amino acids, generally hydrophobicity, polarity and charge, to predict structure. In our method, implemented with parallel multithreading, a set of 30 physicochemical amino acid properties selected from the AAindex database were used. Several protein tertiary structure prediction methods produce a contact map. Our proposed method produces a distance map, which provides more information about the structure of a protein than a contact map. The results of experiments with several non-homologous protein sets demonstrate the generality of this method and its prediction quality using the amino acid properties considered. |
Cita | Asencio Cortés, G., Aguilar Ruiz, J.S. y Márquez Chamorro, A.E. (2011). Prediction of protein distance maps by assembling fragments according to physicochemical similarities. En PACBB 2011: 5th International Conference on Practical Applications of Computational Biology and Bioinformatics (271-277), Salamanca, España: Springer. |
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