Hi Troels,

I've been using

http://www.pymolwiki.org/index.php/FindSurfaceResidues

at some point. Seems to work well enough.

Otherwise you could go through the PISA server at http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html

But I don't remember how exactly I would get the surface residues out from that.

mvh
Folmer

2012/10/31 Troels Emtekær Linnet <tlinnet@gmail.com>
Hi Pymolers.

How would you get a list of surface residues the fastest way?

Like:
 [3-10], [14-18]

I have a rough structure from crystallography, and have made
a trypsin digest and mass spec analysis.

And I see fragments which have been post-trans modified.

Now I am interested in matching if those fragments are surface exposed or internal.

What tools does pymol have to find out if the residues are surface exposed?
Or is there another "easy" tool?

Best
Troels Emtekær Linnet
Ved kløvermarken 9, 1.th
2300 København S
Mobil:
+45 60210234


------------------------------------------------------------------------------
Everyone hates slow websites. So do we.
Make your web apps faster with AppDynamics
Download AppDynamics Lite for free today:
http://p.sf.net/sfu/appdyn_sfd2d_oct
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net



--
Folmer Fredslund