Yes, Autodock Vina can be used for antigen-antibody docking. In fact, it is a widely used software for protein-ligand docking, including docking of antibodies and their respective antigens.

However, it is important to keep in mind that antigen-antibody interactions are often more complex than protein-ligand interactions, and may involve conformational changes, flexibility, and multiple binding sites. Therefore, it is important to carefully prepare the structures for docking and validate the results using experimental data or other computational methods.

Additionally, there are other software options available that are specifically designed for antigen-antibody docking, such as ZDOCK, PatchDock, and HADDOCK, which may provide more accurate results.

Yes, AutoDock Vina can be used for antigen-antibody docking. However, there are some considerations and challenges to keep in mind when performing this type of docking.