small molecules to destabilize the ace2 rbd complex a molecular dynamics study for CORD-Papers-2022-06-02 (Version 1)

Title: Small Molecules to Destabilize the ACE2-RBD Complex: A Molecular Dynamics Study for Potential COVID-19 Therapeutics
Abstract: The ongoing COVID-19 pandemic has infected millions of people claimed hundreds of thousands of lives and made a worldwide health emergency Understanding the SARS-CoV-2 mechanism of infection is crucial in the development of potential therapeutics and vaccines The infection process is triggered by direct binding of the SARS-CoV-2 receptor-binding domain (RBD) to the host cell receptor Angiotensin-converting enzyme 2 (ACE2) Many efforts have been made to design or repurpose therapeutics to deactivate RBD or ACE2 and prevent the initial binding In addition to direct inhibition strategies small chemical compounds might be able to interfere and destabilize the meta-stable pre-fusion complex of ACE2-RBD This approach can be employed to prevent the further progress of virus infection at its early stages In this study Molecular docking is employed to analyze the binding of two chemical compounds SSAA09E2 and Nilotinib with the druggable pocket of the ACE2-RBD complex The structural changes as a result of the interference with the ACE2-RBD complex are analyzed by molecular dynamics simulations Results show that both Nilotinib and SSAA09E2 can induce significant conformational changes in the ACE2-RBD complex intervene with the hydrogen bonds and influence the flexibility of proteins Moreover essential dynamics analysis suggests that the presence of small molecules can trigger large-scale conformational changes that may destabilize the ACE2-RBD complex
Published: 2020
Author Name: Razizadeh M
Author link: https://covid19-data.nist.gov/pid/rest/local/author/razizadeh_m
Author Name: Nikfar M
Author link: https://covid19-data.nist.gov/pid/rest/local/author/nikfar_m
Author Name: Liu Y
Author link: https://covid19-data.nist.gov/pid/rest/local/author/liu_y
license: unk
license_url: [unknown license]
source_x: WHO
source_x_url: https://www.who.int/
who_covidence_id: #6301
has_full_text: FALSE
G_ID: small_molecules_to_destabilize_the_ace2_rbd_complex_a_molecular_dynamics_study_for