TUTCRIS - Tampereen teknillinen yliopisto

TUTCRIS

Importance of the ion-pair interactions in the OPEP coarse-grained force field: Parametrization and validation

Tutkimustuotosvertaisarvioitu

Yksityiskohdat

AlkuperäiskieliEnglanti
Sivut4574-4584
Sivumäärä11
JulkaisuJournal of Chemical Theory and Computation
Vuosikerta9
Numero10
DOI - pysyväislinkit
TilaJulkaistu - 8 lokakuuta 2013
OKM-julkaisutyyppiA1 Alkuperäisartikkeli

Tiivistelmä

We have derived new effective interactions that improve the description of ion pairs in the Optimized Potential for Efficient protein structure Prediction (OPEP) coarse-grained force field without introducing explicit electrostatic terms. The iterative Boltzmann inversion method was used to extract these potentials from all-atom simulations by targeting the radial distribution function of the distance between the center of mass of the side chains. The new potentials have stabilities, and number of ion pairs. Our modeling, by refining the packing of the charged amino acids, impacts the stability of secondary structure motifs and the population of intermediate states during temperature folding/unfolding; it also improves the aggregation propensity of peptides. The new version of the OPEP force field has the potentiality to describe more realistically a large spectrum of situations where salt-bridges are key interactions. (Figure Presented)