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steineggerlab
Compressing protein structures effectively with torsion angles
Hi, Thank you for the great resource! I am having trouble subsetting databases and decompressing subsets of the databases you provide here: https://foldcomp.steineggerlab.workers.dev According to the instructions, I should be...
I'm trying to use a foldcomp database (esmatlas_v2023_02) for a foldseek search. I downloaded following the instructions, when I try to use easy-search though I get this error: Input database...
Hello! I use Python `foldcomp` interface. Sometimes I need to retrieve 10k structures from a DB. As for now, I can only do it one by one in a for...
Hello, I was trying to compress PDB and I constantly get the same error. I tried changing all extensions from `.ent` to `.pdb` and rewriting pdb's using `ProDy`, so that...
Hello, I was wondering if it would be possible to include alternative scores such as [M-score](https://doi.org/10.1093/bioinformatics/btw300) and [TM-score](https://seq2fun.dcmb.med.umich.edu//TM-score/TM-score.pdf) alongside RMSD. This would provide more details on the structural similarity.
Hi again, I'm advocating for fcz/foldcomp db support in Mol*. See: https://github.com/molstar/molstar/issues/770 Would it be possible to support decompression in JS?
Is it possible for https://foldcomp.steineggerlab.workers.dev/ to distribute the subset of AlphaFold database corresponding to the "Model organism proteomes" and "Global health proteomes" listed by https://alphafold.ebi.ac.uk/download? Many of these proteins are...
Hi again, I was wondering why you use the classical NeRF (as far as I can tell from the notes in the code) instead of faster alternatives like [pNeRF](https://onlinelibrary.wiley.com/doi/full/10.1002/jcc.25772) and...
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Compressing protein structures effectively with torsion angles