alphafill
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PDB-REDO
AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models...
Hi, the tool works well with structures downloaded from the alphafold database, but I'm having trouble making it accept cif files that come out of other programs, and especially custom...
First of all, thanks for releasing a great tool. This seems to be useful not only for Alphafold structures or homology models, but also for transferring ligands across PDB structures...
Hello, I am testing the alphafill software installed locally and I have some issue running it on a cif file. I've tried to run it on a mmCIF file downloaded...
Hi @mhekkel I just want to let you know that Mol* has a native ability to color AlphaFold cif files by pLDDT score. The example app demonstrates how to activate...
I encountered a problem when using YASARA to calculate hydrogen bonds, PIPI bonds, ca-pi bonds and saltbrige between proteins and small molecules. My yasara version is: 22.5.22. The command I...
