& Robbie Joosten
> Date: Fri, 15 Jan 2010 14:51:45 +0100
> From: daniel.schlie...@tuxomania.net
> Subject: Re: [ccp4bb] DSSP server
> To: CCP4BB@JISCMAIL.AC.UK
>
> Hi Jane,
>
> the Whatif server lists the secondary structure
Hi Jane,
the Whatif server lists the secondary structure according to DSSP.
http://swift.cmbi.ru.nl/servers/html/index.html
-> Protein analysis -> Secondary Structure, symmetry and accessibility
Best regards, Daniel
--
Daniel Schlieper email: daniel.schlie...@tuxomania.net
B
On Thu, Jan 14, 2010 at 7:02 AM, Schubert, Carsten [PRDUS] <
cschu...@its.jnj.com> wrote:
> you could use ksDSSP, which is an OpenSource implementation of DSSP.
> Requires some compiling though and I am not sure if OSX is supported.
> You also need to compile the PDB record I/O libraries.
>
It ru
Hi,
you can use the nice tool dssp2pdb by James Stroud
(http://structure.usc.edu/dssp2pdb) to assign the ss of the DSSP output
to your pdb file. See instructions there.
HTH
Guenter
I am sorry for this off-topic question. I see it has been discussed
many times, but somehow I got stuck in the
Hello Jane,
CMBI (http://swift.cmbi.kun.nl/gv/dssp/) offers the source code after
signing a licence agreement. I compiled it on my Mac using one of the
compile-scripts that came with the tar file. You have to install the Mac
developer package Xcode (free from developer.apple.com) for getting t
Jane,
you could use ksDSSP, which is an OpenSource implementation of DSSP.
Requires some compiling though and I am not sure if OSX is supported.
You also need to compile the PDB record I/O libraries.
http://www.cgl.ucsf.edu/Overview/software.html
Cheers,
Carsten
> -Original Mess
Hello Jane,
if I remember correctly, rasmol uses the dssp algorithm for the secondary
structure assignment. You can also use pymol or molscript (molauto) for
the same task. In any case you should always check the boundaries of the
secondary structure elements manually because no program is per
