# core.pose.util: (0) {0} [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard

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core.pose.util: (0) {0} [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
#1

Hello there,

I am trying to run a protocol published on nature protocols about "Modeling and docking of antibody structures with Rosetta".But when I run the application using the fasta sequence (shown as follows) provided in the article antibody,

>heavy
>light


the following error occurs:

protocols.antibody.grafting: (0) {0} Sequence before: EVKLEESGGGLVQPGGSMKLSCATSGFTFSDAWMDWVRQSPEKGLEWVAEIRNKANNHATYYAESVKGRFTISRDDSKRRVYLQMNTLRAEDTGIYYCTGIYYHYPWFAYWGQGTLVTVS
core.pose.util: (0) {0} [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard

I've seen a friend came up with the option of using "-ignore_unrecognized_res" on the forums, but it still doesn't work.The command I used is that :

antibody.cxx11threadmpi.linuxgccrelease -fasta antibody.fasta -ignore_unrecognized_res true | tee grafting.log


I also can't believe that there are non-standard residues in fasta sequences, so what can I do about it?

Any advice would be sincerely appreciated!

Lu

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Thu, 2023-03-16 04:13
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