Literature DB >> 33289523

The VEGA suite of programs: an versatile platform for cheminformatics and drug design projects.

Alessandro Pedretti1, Angelica Mazzolari1, Silvia Gervasoni1, Laura Fumagalli1, Giulio Vistoli1.   

Abstract

 : The purpose of the article is to offer an overview of the latest release of the VEGA suite of programs. This software has been constantly developed and freely released during the last 20 years and has now reached a significant diffusion and technology level as confirmed by the about 22 500 registered users. While being primarily developed for drug design studies, the VEGA package includes cheminformatics and modeling features, which can be fruitfully utilized in various contexts of the computational chemistry. To offer a glimpse of the remarkable potentials of the software, some examples of the implemented features in the cheminformatics field and for structure-based studies are discussed. Finally, the flexible architecture of the VEGA program which can be expanded and customized by plug-in technology or scripting languages will be described focusing attention on the HyperDrive library including highly optimized functions.
AVAILABILITY AND IMPLEMENTATION: The VEGA suite of programs and the source code of the VEGA command-line version are available free of charge for non-profit organizations at http://www.vegazz.net.
© The Author(s) 2020. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Year:  2021        PMID: 33289523     DOI: 10.1093/bioinformatics/btaa774

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  16 in total

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Journal:  Molecules       Date:  2022-05-06       Impact factor: 4.927

3.  Hempseed (Cannabis sativa) Peptide H3 (IGFLIIWV) Exerts Cholesterol-Lowering Effects in Human Hepatic Cell Line.

Authors:  Jianqiang Li; Carlotta Bollati; Martina Bartolomei; Angelica Mazzolari; Anna Arnoldi; Giulio Vistoli; Carmen Lammi
Journal:  Nutrients       Date:  2022-04-26       Impact factor: 6.706

4.  Are vanadium complexes druggable against the main protease Mpro of SARS-CoV-2? - A computational approach.

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Journal:  Molecules       Date:  2021-02-04       Impact factor: 4.411

6.  Anosmin-1-Like Effect of UMODL1/Olfactorin on the Chemomigration of Mouse GnRH Neurons and Zebrafish Olfactory Axons Development.

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Journal:  Front Cell Dev Biol       Date:  2022-02-11

7.  Natural Compounds Inhibit SARS-CoV-2 nsp13 Unwinding and ATPase Enzyme Activities.

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Journal:  ACS Pharmacol Transl Sci       Date:  2022-04-01

8.  Extensive Sampling of Molecular Dynamics Simulations to Identify Reliable Protein Structures for Optimized Virtual Screening Studies: The Case of the hTRPM8 Channel.

Authors:  Silvia Gervasoni; Carmine Talarico; Candida Manelfi; Alessandro Pedretti; Giulio Vistoli; Andrea R Beccari
Journal:  Int J Mol Sci       Date:  2022-07-08       Impact factor: 6.208

9.  Interaction between a Novel Oligopeptide Fragment of the Human Neurotrophin Receptor TrkB Ectodomain D5 and the C-Terminal Fragment of Tetanus Neurotoxin.

Authors:  Ana Candalija; Thomas Scior; Hans-Richard Rackwitz; Jordan E Ruiz-Castelan; Ygnacio Martinez-Laguna; José Aguilera
Journal:  Molecules       Date:  2021-06-30       Impact factor: 4.411

10.  Highly Hydrophilic and Lipophilic Derivatives of Bile Salts.

Authors:  M Pilar Vázquez-Tato; Julio A Seijas; Francisco Meijide; Francisco Fraga; Santiago de Frutos; Javier Miragaya; Juan Ventura Trillo; Aida Jover; Victor H Soto; José Vázquez Tato
Journal:  Int J Mol Sci       Date:  2021-06-22       Impact factor: 5.923

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