Unified Aedes aegypti Protein Resource Database (UAAPRD): An Integrated High-Throughput In Silico Platform for Comprehensive Protein Structure Modeling and Functional Target Analysis to Enhance Vector Control Strategies.

Autor: Setlur AS; Department of Biotechnology, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India., Niranjan V; Department of Biotechnology, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India. vidya.n@rvce.edu.in., Karunakaran C; Department of Biotechnology, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India., Sambanni VS; Department of Computer Science and Engineering, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India., Sharma D; Department of Information Science and Engineering, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India., Pai K; Department of Information Science and Engineering, RV College of Engineering affiliated to Visvesvaraya Technological University (VTU), Belagavi, 590018, India.
Jazyk: angličtina
Zdroj: Molecular biotechnology [Mol Biotechnol] 2024 Jul 24. Date of Electronic Publication: 2024 Jul 24.
DOI: 10.1007/s12033-024-01241-3
Abstrakt: A comprehensive examination of Aedes aegypti's proteome to detect key proteins that can be targeted with small molecules can disrupt blood feeding and disease transmission. However, research currently only focuses on finding repellent-like compounds, limiting studies on identifying unexplored proteins in its proteome. High-throughput analysis generates vast amounts of data, raising concerns about accessibility and usability. Establishing a dedicated database is a solution, centralizing information on identified proteins, functions, and modeled structures for easy access and research. This study focuses on scrutinizing key proteins in A. aegypti, modeling their structures using RaptorX standalone tool, identification of druggable binding sites using BiteNet, validating the models via Ramachandran plot studies and refining them via 50-ns molecular dynamic simulations using Schrodinger Maestro. By analyzing ~ 18 k proteins in the proteome of A. aegypti in our previous studies, all proteins involved in the light and dark circadian rhythm of the mosquito, inclusive of proteins in blood feeding, metabolism, etc. were chosen for the current study. The outcome is UAAPRD, a unique repository housing information on hundreds of previously unmodeled and un-simulated mosquito proteins. This robust MYSQL database ( https://uaaprd.onrender.com/user ) houses data on 309 modeled & simulated proteins of A. aegypti. It allows users to obtain protein data, view evolutionary analysis data of the protein categories, visualize proteins of interest, and send request to screen against the pharmacophore models present in UAAPRD against ligand of interest. This study offers crucial insights for developing targeted studies, which will ultimately contribute to more effective vector control strategies.
(© 2024. The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.)
Databáze: MEDLINE
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