I designed a peptide to inhibit angiogenesis, I want to know if it interacts with itself and forms a complex?
If you find one, are you going to believe it? I think you should test it experimentally. Run it on size exclusion or native page. Takes like 2 hours, and you'll get the truth straight from nature's mouth!
Dear Ali Salehi ,
Not entirely sure what you are looking for but in the following review you can find lists of potentially interesting programs/software: Article Evolution of In Silico Strategies for Protein-Protein Intera...
If you really mean prediction of peptide dimer formation then I am not sure whether such a program exists, since for example in the search for potential AMP’s dimers are promoted by inclusion of cysteines or some kind of linker. Amphipathic peptides can form dimers but often form aggregated/multicomplex structures.Perhaps PepSite 2 might be of interest: PepSite: prediction of peptide-binding sites from protein surfaces. Trabuco LG, Lise S, Petsalaki E, and Russell RB. Nucleic Acids Res. 2012; 40(Web Server issue): W423-426. http://pepsite2.russelllab.org
Best regards.
I agree with John Schloendorn. It takes a very short amount of time and you get much better results than softwares.
I want something like a primer dimer not to form so as not to reduce the effectiveness of the peptide as a drug@ROB KELLER
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