Jola Kopec
Jola Kopec
gemmi might be useful for such conversion https://gemmi.readthedocs.io/en/latest/utils.html?highlight=pdb%20to%20mmcif#convert
you can prepare the plots (PAE and pLDDT) using https://github.com/mattarnoldbio/alphapickle - you need to run AF with --model_preset=monomer_ptm. If you want to add colours onto your structures, you can do...
I thought, that the --max_template_date corresponds to the deposition date in the pdb. And the local copy of the pdb database is used for compiling MSA, so maybe it would...