Related Experiment Video
Updated: May 22, 2026

Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
Comprehensive Multispectroscopic and Molecular Docking Investigation of the Anticancer Drug Idarubicin-Bovine Serum
Mehmetcan Bilkay1, Aytekin Gharanjik1, Ahmad Fadhlurrahman Ahmad Hidayat2,3
1Department of Analytical Chemistry, Faculty of Pharmacy, Gazi University, Ankara, Türkiye.
Abstract:
Understanding the binding mechanism of idarubicin (IDA), a chemotherapeutic agent used in the treatment of acute myeloid leukemia (AML), with bovine serum albumin (BSA) is essential for elucidating its toxicity and pharmacodynamic and pharmacokinetic behavior and for supporting the development of novel drugs. In this study, the interaction between IDA and BSA was comprehensively investigated using spectroscopic techniques, including steady-state fluorescence, 3D fluorescence, synchronous fluorescence, competitive displacement assays, UV-Vis absorption spectroscopy, and Fourier transform infrared (FT-IR) spectroscopy, along with dynamic light scattering (DLS) and molecular docking analysis. The interaction was confirmed by fluorescence and UV-Vis spectra, and the binding constant was determined as Ka = 1.74 × 104 M-1. Fluorescence quenching analysis indicated a predominantly static quenching mechanism, suggesting the formation of a ground-state complex. Thermodynamic results revealed that hydrogen bonding, hydrophobic interactions, and van der Waals forces play dominant roles in the binding process. Furthermore, 3D and synchronous fluorescence studies demonstrated that IDA alters the polarity of the BSA microenvironment. Molecular docking and displacement studies showed that IDA binds to all three BSA sites, with a significantly higher affinity for Site III compared to Site I and Site II. These findings provide valuable insight into the IDA-BSA interaction mechanism.
Related Concept Videos
Protein-Drug Binding: Mechanism and Kinetics
Various forces drive these interactions, including hydrogen bonds, hydrophobic interactions, ionic bonds, electrostatic interactions, and van der Waals forces. These bonds enable drugs to bind to specific sites on proteins,...
Protein-Drug Binding: Determination Methods
Indirect methods involve isolating the bound drug from its free form in biological samples such as blood, serum, or plasma. These techniques aim to measure the percentage of drugs bound to proteins. Equilibrium dialysis is a commonly used method where the free drug concentration at equilibrium is measured by separating the bound...