The CD19, CD28, and TYRP proteins were obtained by AlphaFold 3 . An advanced version of the AI system developed by DeepMind, AlphaFold 3, is used to predict protein structures accurately. It builds upon the success of AlphaFold 2, further improving its capabilities in understanding protein folding. Using a graph neural network (GNN) called GrASP, the druggable binding site of the protein was predicted . The aptamers bind to a positively charged area on the protein because they are highly negatively charged. The potential use of the aptamers is majorly affected by whether the predicted binding site of the protein is positive or negative. Docking simulations were performed using the HDOCK software . For each simulation, one of the tertiary structures and the protein were inserted into the software so that it could predict the docking results of each aptamer-protein complex. The preset settings of the software were maintained so that the aptamers would each be docked in a habitat similar to that of the human body. Each aptamer had several possible configurations for their docking simulations, so the configuration with the most outstanding stability was chosen. Visualizing the complexes helps to comprehend the effect of the varying shapes of the aptamers on their binding patterns to the protein. Molecular dynamics is a computer-based technique that highlights complex systems' dynamics, thermodynamics, and framework by stimulating the actual activities of atoms and molecules over time. This technique entails deciphering Newton's equations of motion for a particle system that communicates within itself. GROMACS software was used to perform molecular dynamics simulations . The protein, loaded with TIP3P water molecules, was placed in the protein-ligand complex within a box with a 1 Å surface. To stabilize physiological ion concentrations, sodium (Na+) and chloride (Cl-) ions were added. Cluster analysis was applied to find representative structures.