I am trying to build a model for my protein and I have a medium resolution map (~5-6 A). I tried backbone tracing manually, but many regions are dubious. This protein does not have any homologous protein either, so I am looking for tools to do denovo model building with guided electron density. Is there any available protocol to achieve this?
As with most things in cryo-EM it's hard to say without seeing the map. however you're possibly in the range of our capabilities.
you could try the de-novo protocols we have described at https://dimaiolab.ipd.uw.edu/software/
if that doesn't work, you can email me at email@example.com or Dr. DiMaio and we could discuss this further.
Thank you! I will try it!