-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Dear Tony, dear Tongqing,
the way I understand the working mechanism of arp/warp works I do not see the point introducing the polyALA spacer into the sequence. Just concatenate all sequences into one file as though it was one molecule. Cheers, Tim On 04/19/12 08:51, Antony Oliver wrote: > 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 > - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFPj8ZVUxlJ7aRr7hoRAqu6AKDff8lY6Ehj2A8u76UfTgiIcNoqMACfd7Wr 3cDlEfHVVWxASrw9qxMTwMY= =sFT8 -----END PGP SIGNATURE-----
