Dear All, I cannot resist responding to this request that Lisa has made. I am very surprised that no one has mentioned Roman Laskowski's program PDBSUM. It does a great job applying secondary structure prediction by Lisa Holme and will mark the beginning and ending of strands and helices. Try it.
Michael James On Sat, Mar 9, 2013 at 1:02 PM, Edward A. Berry <ber...@upstate.edu> wrote: > Still, I would second Lisa's question. Your google search gives a lot of > false hits, and one doesn't want to download and install a dozen programs > (with license forms to fill out in some cases) to see which one works, when > Partha can tell us that Pro-origami will do it and provide a link to the > description. Seems to be just what I've been looking for. Thanks, Partha! > > Anastassis Perrakis wrote: > >> >> On 9 Mar 2013, at 12:11, Jon Agirre wrote: >> >> Espript will do. http://espript.ibcp.fr >>> >>> >>> >> Well, if you want a topology diagram, espipt will not do. Brilliant as it >> may be, it will annotate the topology linearly >> on top of a set of aligned sequences (and more!). >> >> As for a topology diagram, I could not resist pasting your question to >> google - its a good thing to do before pasting >> the question >> in your email client - it can give you a strange sense of satisfaction >> and us (or at least me) less Saturday morning fun. >> >> http://lmgtfy.com/?q=%5Bccp4%**5D+how+to+make+protein+** >> topology+figure+based+on+its+**structure<http://lmgtfy.com/?q=%5Bccp4%5D+how+to+make+protein+topology+figure+based+on+its+structure> >> >> A. >> >> >> Good luck, >>> >>> Jon >>> >>> On 9 Mar 2013 11:52, "LISA" <science...@gmail.com <mailto: >>> science...@gmail.com>> wrote: >>> >>> Hi all, >>> I want to make a topological figure of my protein with a b-sheet and >>> helix based on its crystal structure. Please >>> recommend some online sever of software? >>> Thank you. >>> >>> lisa >>> >>> >> >
