Hi!!
I had been suscesfully using ROSIE to generate Fab models for a while and lately the server has not able to recognize the CDRL3 and CDRH3 in my antibody sequences. I also tried a sequence that was previously used and modeled but now the server gave an error
ERROR: CDR L3 cannot be recognized !!! L3 pattern: C[A-Z]{1,15}(L|F|V|S)G[A-Z](G|Y)
and I dont undestand why the CDR cant not be recognized now. The pattern of the input seqeunces looks correct.
I would really aprreacite some help in this matter
Thanks
Category:
Post Situation:
Thanks for bringing this to our attention, wildchipiron. In the last month, we added multi-template grafting to the server, and perhaps the regular expressions changed inadvertently. We will check it out.
wildchipiron,
I looked at the input to a failed run from ROSIE user chipiron (I'm assuming that's you); the input query_h and query_l have whitespace in the FASTA sequence line, which the regular expressions are trying to read as amino acids. If you remove the whitespace to leave a single FASTA line, the sequence should run properly.
Best,
Nick