I want to refold some designed VHH-antigen complexes using the original structure from the design as a template and no MSA. However, when I do, the iRMSD between the original structure and the refolded one is veyr high (8-20 Å). I am using 5 diffusion samples, 10 recycling steps, template force = true and template threshold = 4 Å.
Has anyone encountered this issue and managed to solve it?
Would appreciate any hints on what could be going on.
Thank you very much in advance.
I want to refold some designed VHH-antigen complexes using the original structure from the design as a template and no MSA. However, when I do, the iRMSD between the original structure and the refolded one is veyr high (8-20 Å). I am using 5 diffusion samples, 10 recycling steps, template force = true and template threshold = 4 Å.
Has anyone encountered this issue and managed to solve it?
Would appreciate any hints on what could be going on.
Thank you very much in advance.