[IMP-users] crosslinking with multiple copies of subunits

Hello IMP Users,

I was wondering, how does IMP handle crosslinks when there are multiple copies of the same subunit (created in IMP using the create_clone() function) ? If an inter-subunit crosslink is satisfied in IMP with an intra-crosslink, does this stop the crosslink from contributing to the scoring ?

Also, experimentally it is possible to clarify which crosslinks are definitely intra-subunit (via SDS-PAGE). However there doesn't seem to be any way to flag this on a crosslink in IMP, unless I'm missing something ... ?

Thanks,

Josh