Is there any way to ignore some loops on threading? I'm trying to build a model based in a template which is about 30% identical to the query sequence. The sequence has lots of loops ranging from few aa to 80 aa. I was wondering if would be possible to ignore the biggest loop(s) at first and loopmodel them in a separate protocol.
Looks like the some loops are not closing so as the program finishes without build any model.
Perhaps someone could suggest a better approach.
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ignore loops on threading