Question about Protein-protein-DNA complex prediction

Question

[mickley413]

Dear All,

I am currently working on a project to optimize protein-protein-DNA interactions. The goal is to use AI/ML tools to facilitate protein design. Specifically, I aim to optimize the linker between two proteins to create a single fusion protein and would like to know if there are any tools capable of performing this task. The objective is to use these tools to predict the binding affinity of DNA and the fusion protein with different linkers, then select the top five designs for in vitro assays, such as EMSA, to evaluate protein-protein-DNA complex formation. If anyone has experience in this area and is willing to share or discuss, please feel free to reach out here or via my email: [e-mail]. Thank you for your attention!