In the absence of a likely, more sensible, answer - I think the trick is/was to simply put everything in one pir file, but "link" each sequence with a run of 20 or so alanines i.e. sequence A followed by AAAA ... AAAA sequence B AAAA .... AAAA .... AAAA sequence C.
There may well be a more elegant solution - but I'm fairly sure this worked previously for us. With regards, Tony. On 19 Apr 2012, at 04:26, "Zhou, Tongqing (NIH/VRC) [E]" <tz...@mail.nih.gov> wrote: > Dear All, > > I am trying to use Arp/wArp to build an antibody-antigen complex with 1.65 A > data, there are three chains (heavy, light chains of antibody and the > antigen) in the complex, my question is how to put the sequences in the *.pir > file so that it still identifies different chains. It looks like Arp/wArp > only accepts *.pir file with one sequence id. > > Thanks, > > > Tongqing
