multichain protein structure predicrion

Open InvincibleZZH opened this issue 1 year ago • 5 comments

How can i input 2 chains into ESM3 to predict structure? I tried ":" in the sequence like esm2, but returned an error

Nov 04 '24 05:11 InvincibleZZH

see sequence_tokenizer.py

Nov 04 '24 14:11 QuasiLegendre

see sequence_tokenizer.py

Brief look into it suggests that there might be a way for multi-chain support, but can you provide an example where it works? I'm interested in multimeric structures like ion channels and protein/protein complexes

Nov 13 '24 11:11 batch2k

I tried but I don't believe the "|" token actually works.

Nov 14 '24 05:11 QuasiLegendre

I'm also interested in whether multiple protein-protein structures can be produced.

Dec 02 '24 01:12 damian238

https://github.com/evolutionaryscale/esm/blob/41af605958e79daea9d7e9b7512503a1f23b36b1/esm/models/vqvae.py#L422C1-L427C10

Dec 11 '24 17:12 lee-t