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Computational prediction of bioactivity scores and chemical reactivity properties of the Parasin I therapeutic peptide of marine origin through the calculation of global and local conceptual DFT descriptors

  • Norma Flores-Holguín
  • Juan Frau
  • Daniel Glossman-MitnikEmail author
Regular Article
  • 42 Downloads
Part of the following topical collections:
  1. 11th Congress on Electronic Structure: Principles and Applications (ESPA-2018)

Abstract

Eight density functionals, CAM-B3LYP, \(\hbox {LC-}\omega \hbox {PBE}\), M11, MN12SX, N12SX, \(\omega \hbox {B97}\), \(\omega \hbox {B97X}\), and \(\omega \hbox {B97XD}\), related to the Def2TZVP basis sets, were assessed together with the SMD solvation model for the calculation of the molecular properties and structure of the therapeutic peptide of marine origin Parasin I. All the chemical reactivity descriptors for the system are calculated via conceptual density functional theory (CDFT). The active sites suitable for nucleophilic, electrophilic, and radical attacks are selected by linking them with the Fukui function indices, nucleophilic and electrophilic Parr functions, and condensed dual descriptor \(\Delta {f(r)}\), respectively. The study reveals that the MN12SX and N12SX density functionals are the most appropriate ones for predicting the chemical reactivity of the molecule under study. Additionally, the pKa value for the peptide is predicted with great accuracy based on our previously published methodology. Moreover, the ability of the studied molecule in acting as an efficient inhibitor of the formation of advanced glycation endproducts (AGEs), which constitutes a useful knowledge for the development of drugs for fighting diabetes, Alzheimer and Parkinson diseases is also presented. Finally, the bioactivity scores for Parasin I are predicted through different methodologies.

Keywords

Parasin I Conceptual DFT pKa AGEs inhibition ability Bioactivity scores 

Notes

Acknowledgements

This work has been partially supported by CIMAV, SC, and Consejo Nacional de Ciencia y Tecnología (CONACYT, Mexico) through Grant 219566-2014 for Basic Science Research. Daniel Glossman-Mitnik conducted this work, while a Visiting Lecturer at the University of the Balearic Islands from which support is gratefully acknowledged. Norma Flores-Holguín and Daniel Glossman-Mitnik are researchers of CIMAV and CONACYT. This work was cofunded by the Ministerio de Economía y Competitividad (MINECO) and the European Fund for Regional Development (FEDER) (CTQ2014-55835-R).

Compliance with ethical standards

Conflicts of interest

The authors declare no conflict of interest regarding the publication of this paper.

Supplementary material

214_2019_2469_MOESM1_ESM.pdf (244 kb)
Supplementary material 1 (pdf 243 KB)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Laboratorio Virtual NANOCOSMOS, Departamento de Medio Ambiente y EnergíaCentro de Investigación en Materiales AvanzadosChihuahuaMexico
  2. 2.Departament de QuímicaUniversitat de les Illes BalearsPalma de MallorcaSpain

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