Re: [ccp4bb] Software for predicting potential disulfide cross-linking sites?

[Bart Hazes]

Peter is correct, SSBOND was written exactly for that purpose. You can use the form (http://129.128.75.76/forms/ssbond.html) to upload your PDB file and get the log file back as a webpage. For multi-chain PDBs it is best to upload a file with just one chain, unless you are interested inter-chain disulfide bonds. The form page also allows you to pick up the source code which should compile with default settings on standard fortran compilers. Bart Peter Zwart wrote: I remember this question (and the answer) from 11 years ago! http://www.ysbl.york.ac.uk/ccp4bb/1998/msg00051.html HTH Peter 2009/9/30 Jie Liu <j...@trimer.med.cornell.edu>: Dear All Does anyone know a software or web-server which can predict potential disulfide cross-linking sites? I have solved a crystal structure. Is there a software to read in the coordinates file and symmetry information and predict the potential contacting residues which I can then mutate to CYS in order to introduce an intermolecular disulfide bond to stabilize the biological assembly? Your input is greatly appreciated! Jie Liu -- ============================================================================ Bart Hazes (Associate Professor) Dept. of Medical Microbiology & Immunology University of Alberta 1-15 Medical Sciences Building Edmonton, Alberta Canada, T6G 2H7 phone: 1-780-492-0042 fax: 1-780-492-7521 ============================================================================