Artículo

Espada, R.; Parra, R.G.; Mora, T.; Walczak, A.M.; Ferreiro, D.U. "Inferring repeat-protein energetics from evolutionary information" (2017) PLoS Computational Biology. 13(6)
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Abstract:

Natural protein sequences contain a record of their history. A common constraint in a given protein family is the ability to fold to specific structures, and it has been shown possible to infer the main native ensemble by analyzing covariations in extant sequences. Still, many natural proteins that fold into the same structural topology show different stabilization energies, and these are often related to their physiological behavior. We propose a description for the energetic variation given by sequence modifications in repeat proteins, systems for which the overall problem is simplified by their inherent symmetry. We explicitly account for single amino acid and pair-wise interactions and treat higher order correlations with a single term. We show that the resulting evolutionary field can be interpreted with structural detail. We trace the variations in the energetic scores of natural proteins and relate them to their experimental characterization. The resulting energetic evolutionary field allows the prediction of the folding free energy change for several mutants, and can be used to generate synthetic sequences that are statistically indistinguishable from the natural counterparts. © 2017 Espada et al.

Registro:

Documento: Artículo
Título:Inferring repeat-protein energetics from evolutionary information
Autor:Espada, R.; Parra, R.G.; Mora, T.; Walczak, A.M.; Ferreiro, D.U.
Filiación:Protein Physiology Lab, Universidad de Buenos Aires, Facultad de Ciencias Exactas y Naturales, Departamento de Química Biológica. Buenos Aires. / CONICET - Universidad de Buenos Aires, Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales (IQUIBICEN), Buenos Aires, Argentina
Quantitative and Computational Biology Group, Max Planck Institute for Biophysical Chemistry, Goettingen, Germany
Laboratoire de physique statistique, Ecole Normale Supérieure, CNRS and UPMC, Paris, 75005, France
CNRS and Laboratoire de Physique Théorique, Ecole Normale Supérieure, Paris, France
Palabras clave:ankyrin; leucine rich repeat protein; polypeptide; protein; repeat protein; tetratricopeptide repeat protein; unclassified drug; protein; amino acid sequence; Article; energy transfer; evolution; Monte Carlo method; point mutation; protein folding; protein stability; sequence alignment; statistical model; amino acid repeat; astronomy; chemical model; chemistry; energy transfer; genetics; molecular model; procedures; protein conformation; sequence analysis; structure activity relation; ultrastructure; Energy Transfer; Evolution, Chemical; Models, Chemical; Models, Molecular; Point Mutation; Protein Conformation; Protein Folding; Proteins; Repetitive Sequences, Amino Acid; Sequence Analysis, Protein; Structure-Activity Relationship
Año:2017
Volumen:13
Número:6
DOI: http://dx.doi.org/10.1371/journal.pcbi.1005584
Título revista:PLoS Computational Biology
Título revista abreviado:PLoS Comput. Biol.
ISSN:1553734X
CAS:protein, 67254-75-5; Proteins
Registro:http://digital.bl.fcen.uba.ar/collection/paper/document/paper_1553734X_v13_n6_p_Espada

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Citas:

---------- APA ----------
Espada, R., Parra, R.G., Mora, T., Walczak, A.M. & Ferreiro, D.U. (2017) . Inferring repeat-protein energetics from evolutionary information. PLoS Computational Biology, 13(6).
http://dx.doi.org/10.1371/journal.pcbi.1005584
---------- CHICAGO ----------
Espada, R., Parra, R.G., Mora, T., Walczak, A.M., Ferreiro, D.U. "Inferring repeat-protein energetics from evolutionary information" . PLoS Computational Biology 13, no. 6 (2017).
http://dx.doi.org/10.1371/journal.pcbi.1005584
---------- MLA ----------
Espada, R., Parra, R.G., Mora, T., Walczak, A.M., Ferreiro, D.U. "Inferring repeat-protein energetics from evolutionary information" . PLoS Computational Biology, vol. 13, no. 6, 2017.
http://dx.doi.org/10.1371/journal.pcbi.1005584
---------- VANCOUVER ----------
Espada, R., Parra, R.G., Mora, T., Walczak, A.M., Ferreiro, D.U. Inferring repeat-protein energetics from evolutionary information. PLoS Comput. Biol. 2017;13(6).
http://dx.doi.org/10.1371/journal.pcbi.1005584