How to Run Large-Scale Foldseek Comparisons (Human vs. C. elegans)

Question

[bioinformatics_rk]

Hi all,

I’m working with a list of ~3,000 human proteins and would like to compare them against all C. elegans proteins using Foldseek to obtain structural similarity scores.

I couldn’t find a precomputed human vs. C. elegans dataset, so I’m looking for advice on:

1.  The best way to run an all-vs-all Foldseek search for this scale.
2.  Whether there are any existing precomputed databases that cover this comparison.

Would appreciate any guidance on setting this up!

Thanks in advance.

Homologs, Orthologs, C. elegans, Genes, Genomics, Foldseek