resumo
A new model to obtain fast prediction of partition coefficients in polymer/polymer aqueous two phase systems (ATPSs) is presented, using amino acids as test systems. In particular, the partitioning behavior of eleven amino acids (glycine, alanine, leucine, phenylalanine, lysine, arginine, histidine, aspartic acid, glutamic acid, glutamine and serine) has been studied in 6 polymer/polymer ATPSs, formed by different pairs of nonionic polymers, including polyethylene glycol (PEG), Dextran, Ucon and Ficoll at 0.15 M NaCl in 0.01 M sodium phosphate buffer. The partition coefficients of the amino acids in the different ATPSs under study showed linear correlations as described by the Collander equation. Based on continuum electrostatics (CE), a semi-empirical model was developed to study the partitioning behavior in ATPSs. The approach employs a thermodynamic cycle where the electrostatic and nonpolar contributions to the free energy of partition are assumed to be additive. Three systems were chosen for the modeling studies: PEG-Dextran, PEG-Ficoll and Ficoll-Dextran. In general, the model was found to correctly predict the preferred phase for the studied amino acids, and, except for the charged ones, a good quantitative correlation of the calculated and experimental partition free energies was also obtained (e.g., with RMSE values of 150 J mol(-1) for PEG-Ficoll). The model performance could be improved by grouping amino acids according to their electrostatic properties, resulting in very good quantitative partition coefficient predictions (e.g., RMSE values for nonpolar amino acids of 29, 16 and 0.4 J mol(-1) for PEG-Dextran, PEG-Ficoll and Ficoll-Dextran system, respectively). The good performance of the proposed model in predicting partition coefficients of amino acids, the building blocks of proteins, offers a good prospect to its application to protein molecules and complexes. (C) 2013 Elsevier B.V. All rights reserved.
palavras-chave
POLYETHYLENE-GLYCOL; MOLECULAR SIMULATION; COLLANDER EQUATION; POISSON-BOLTZMANN; PHASE-SEPARATION; BIOMOLECULES; PROTEINS; ELECTROSTATICS; EQUILIBRIUM; PREDICTION
categoria
Biochemistry & Molecular Biology; Chemistry
autores
de Barros, DPC; Campos, SRR; Madeira, PP; Azevedo, AM; Baptista, AM; Aires-Barros, MR
nossos autores
Pedro António Palma Madeira
Investigador Júnioragradecimentos
Dragana P.C. de Barros acknowledges Fundacao para a Ciencia e Tecnologia (FCT), for post doctoral fellowship SFRH/BPD/70409/2010. This work was supported by FCT through grants PTDC/EQU-EQU/112812/2009 and PEst-OE/EQB/LA0004/2011.