Conformational variability and heterogeneity are crucial determinants of the function of biological macromolecules. The possibility of accessing this information experimentally suffers from severe under-determination of the problem, since there are a few experimental observables to be accounted for by a (potentially) infinite number of available conformational states. Several computational methods have been proposed over the years in order to circumvent this theoretically insurmountable obstacle. A large share of these strategies is based on reweighting an initial conformational ensemble which arises from, for example, molecular simulations of different qualities and levels of theory. In this work, we compare the outcome of three reweighting approaches based on radically different views of the conformational heterogeneity problem, namely Maximum Entropy, Maximum Parsimony and Maximum Occurrence, and we do so using the same experimental data. In this comparison we find both expected as well as unexpected similarities.

Comparison of Different Reweighting Approaches for the Calculation of Conformational Variability of Macromolecules from Molecular Simulations / Medeiros Selegato D.; Bracco C.; Giannelli C.; Parigi G.; Luchinat C.; Sgheri L.; Ravera E.. - In: CHEMPHYSCHEM. - ISSN 1439-4235. - STAMPA. - 22:(2021), pp. 127-138. [10.1002/cphc.202000714]

Comparison of Different Reweighting Approaches for the Calculation of Conformational Variability of Macromolecules from Molecular Simulations

Medeiros Selegato D.;Bracco C.;Giannelli C.;Parigi G.;Luchinat C.;Ravera E.
2021

Abstract

Conformational variability and heterogeneity are crucial determinants of the function of biological macromolecules. The possibility of accessing this information experimentally suffers from severe under-determination of the problem, since there are a few experimental observables to be accounted for by a (potentially) infinite number of available conformational states. Several computational methods have been proposed over the years in order to circumvent this theoretically insurmountable obstacle. A large share of these strategies is based on reweighting an initial conformational ensemble which arises from, for example, molecular simulations of different qualities and levels of theory. In this work, we compare the outcome of three reweighting approaches based on radically different views of the conformational heterogeneity problem, namely Maximum Entropy, Maximum Parsimony and Maximum Occurrence, and we do so using the same experimental data. In this comparison we find both expected as well as unexpected similarities.
22
127
138
Medeiros Selegato D.; Bracco C.; Giannelli C.; Parigi G.; Luchinat C.; Sgheri L.; Ravera E.
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2158/1220279
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