Hi Morten, I asked about this...and if your input model has Cys-Cys disulfides and the sequence file also has these cysteine residues, then the disulfides should be maintained by Rosetta. If that isn't happening, let me know! I hope that helps! All the best, Tom T ________________________________ From: [email protected] [[email protected]] on behalf of Morten Groftehauge [[email protected]] Sent: Wednesday, March 21, 2012 8:25 AM To: PHENIX user mailing list Subject: [phenixbb] Rosetta and disulphides Hi phenix-bb'ers, Is there anyway to make phenix.mr_rosetta take disulphide bridges into account? It's a rather enormous restraint on conformational space after all (wait is that a constraint or restraint? I get confused). Cheers, Morten -- Morten K Grøftehauge, PhD Pohl Group Durham University