Binding Affinity Determination in Drug Design: Insights from Lock and Key, Induced Fit, Conformational Selection, and Inhibitor Trapping Models

DS Spassov - International Journal of Molecular Sciences, 2024 - mdpi.com
Binding affinity is a fundamental parameter in drug design, describing the strength of the
interaction between a molecule and its target protein. Accurately predicting binding affinity is …

Exploring N-myristoyltransferase as a promising drug target against parasitic neglected tropical diseases

IJ dos Santos Nascimento, MAT Cavalcanti… - European Journal of …, 2023 - Elsevier
Neglected tropical diseases (NTDs) constitute a group of approximately 20 infectious
diseases that mainly affect the impoverished population without basic sanitation in tropical …

Protein-Based Virtual Screening Tools Applied for RNA–Ligand Docking Identify New Binders of the preQ1-Riboswitch

E Kallert, TR Fischer, S Schneider… - Journal of Chemical …, 2022 - ACS Publications
Targeting RNA with small molecules is an emerging field. While several ligands for different
RNA targets are reported, structure-based virtual screenings (VSs) against RNAs are still …

Identification of potent and selective N-myristoyltransferase inhibitors of Plasmodium vivax liver stage hypnozoites and schizonts

D Rodríguez-Hernández, K Vijayan, R Zigweid… - Nature …, 2023 - nature.com
Drugs targeting multiple stages of the Plasmodium vivax life cycle are needed to reduce the
health and economic burdens caused by malaria worldwide. N-myristoyltransferase (NMT) …

Inhibitor trapping in N-myristoyltransferases as a mechanism for drug potency

DS Spassov, M Atanasova, I Doytchinova - International Journal of …, 2023 - mdpi.com
Predicting inhibitor potency is critical in drug design and development, yet it has remained
one of computational biology's biggest unresolved challenges. Here, we show that in the …

Identification of and Structural Insights into Hit Compounds Targeting N-Myristoyltransferase for Cryptosporidium Drug Development

MK Fenwick, AR Reers, Y Liu, R Zigweid… - ACS Infectious …, 2023 - ACS Publications
Each year, approximately 50,000 children under 5 die as a result of diarrhea caused by
Cryptosporidium parvum, a protozoan parasite. There are currently no effective drugs or …

Experimental structure based drug design (SBDD) applications for anti‐leishmanial drugs: A paradigm shift?

M Marín, M López, L Gallego‐Yerga… - Medicinal Research …, 2024 - Wiley Online Library
Leishmaniasis is a group of neglected tropical diseases caused by at least 20 species of
Leishmania protozoa, which are spread by the bite of infected sandflies. There are three …

Molecular Dynamics Simulations of the Human Ecto-5′-Nucleotidase (h-Ecto-5′-NT, CD73): Insights into Protein Flexibility and Binding Site Dynamics

LG Viviani, DB Kokh, RC Wade… - Journal of Chemical …, 2023 - ACS Publications
Human ecto-5′-nucleotidase (h-ecto-5′-NT, CD73) is a homodimeric Zn2+-binding
metallophosphoesterase that hydrolyzes adenosine 5′-monophosphate (5′-AMP) to …

Inhibitor Trapping in Kinases

DS Spassov, M Atanasova, I Doytchinova - International Journal of …, 2024 - mdpi.com
Recently, we identified a novel mechanism of enzyme inhibition in N-myristoyltransferases
(NMTs), which we have named 'inhibitor trapping'. Inhibitor trapping occurs when the protein …

Exploring Subsite Selectivity within Plasmodium vivax N-Myristoyltransferase Using Pyrazole-Derived Inhibitors

D Rodríguez-Hernández, MK Fenwick… - Journal of Medicinal …, 2024 - ACS Publications
N-myristoyltransferase (NMT) is a promising antimalarial drug target. Despite biochemical
similarities between Plasmodium vivax and human NMTs, our recent research demonstrated …