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Targeting the microRNA binding domain of argonaute 2: rational inhibitor design and study of mutation effects on protein-ligand interaction.

Authors
  • Mahernia, Shabnam1
  • Hassanzadeh, Malihe2
  • Sarvari, Sajad3
  • Amanlou, Massoud1, 2, 4
  • 1 The Institute of Pharmaceutical Sciences (TIPS), Tehran University of Medical Sciences, Tehran, Iran. , (Iran)
  • 2 Department of Medicinal Chemistry, Faculty of Pharmacy, Tehran University of Medical Sciences, Tehran, Iran. , (Iran)
  • 3 Institute of Biochemistry and Biophysics, University of Tehran, Tehran, Iran. , (Iran)
  • 4 Experimental Medicine Research Center, Tehran University of Medical Sciences, Tehran, Iran. , (Iran)
Type
Published Article
Journal
Journal of biomolecular structure & dynamics
Publication Date
Oct 01, 2020
Volume
38
Issue
16
Pages
4710–4717
Identifiers
DOI: 10.1080/07391102.2019.1688688
PMID: 31684811
Source
Medline
Keywords
Language
English
License
Unknown

Abstract

Based on the accumulative evidences during recent decades, miRNAs have been found overexpressed in several human cancer types and also in Down syndrome patients, contributing to the neuropathology of Down syndrome. From this point of view, investigations on the structure and dynamic mechanisms related to the Argonaute 2 miRNAs binding in which silencing of the mRNA occurs, have inspired many clinical researchers to target this complex to inhibit the silencing process. In the current research, we have virtually screened the OTAVA_CNS_library to introduce new inhibitor compounds for the Ago2/miRNA complex. Ten hit compounds were obtained, with just one of them nominated as the best compound. Following the interaction analysis, by utilizing molecular dynamics (MD) simulations, effects of two mutations (Thr526 to isoleucine and Gln545 to alanine) on the dynamic properties of Ago2 in the complex with the best inhibitor compound were investigated. RMSD, RMSF and h-bond number beside other analyses, highlighted the importance of the Thr526 and Gln545 mutations for the stability and flexibility of the (Ago2)/ligand complex.[Formula: see text]Communicated by Ramaswamy H. Sarma.

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