Phil, If (and only if) your sequence has substantial similarity to that of a previously described protein whose three-dimensional structure has been determined by X-ray crystallography or NMR, you can use MODELLER <http://salilab.org/modeller/> to make a three-dimensional model of your sequence as a .pdb file which you can visualize with many of the pieces of software mentioned regularly in this forum. We have used MODELLER successfully in our lab, but the initial learning curve is pretty steep. Comprehensive documentation is provided, however, and I recommend it. John ************************************************ John B. Ferguson Biology Program Bard College Post Office Box 5000 Annandale-on-Hudson NY 12504-5000 USA INTERNET: ferguson at bard.edu TELEPHONE: 845-758-7300 (OFFICE) 845-758-7233 (LAB) 845-758-3032 (HOME) 845-758-7628 (FAX) Professor, Biology Health Professions Advisor ************************************************ Quoting Phil Princely <phil.princely at gmail.com>: > hi all > > I'm new to this list, and a complete newbie when it comes to protein > visualisation, so I hope this question is ok. > > I'm looking for a way to convert a fasta sequence of amino acids into a > picture of a protein. I've used various sites on thei web, but all of them > used a blast like search to tell my proteins which were similar to my fasta > sequence, and gave me their structure. > > I don't mind if the representation isn't accurate, because I'm more > interested in whether a change in part of the sequence will have an effect > on the final shape. So I don't need great accuracy, just a rough shape. > > I'm pretty sure that this ab-initio kind of protein visualisation isn't yet > possible with just one computer, but maybe somebody could point me in the > right direction. > > thanks > > Phil P. > _______________________________________________ > Molvis-list mailing list > Molvis-list at bioinformatics.org > https://bioinformatics.org/mailman/listinfo/molvis-list >