Hi Boaz: I tried running pdb2pqr server online, but it ended up with an error, saying "local variable 'key' referenced before assignment", which I don't know how to understand and handle with.
Thanks, Xiaoming On Thu, Apr 24, 2014 at 3:59 PM, Boaz Shaanan <[email protected]> wrote: > Hi, > > It's pdb2pqr problem (unknown residue). I guess you ran pdb2pqr prior to > running APBS, if not, you should. So, you should submit your question to > either the APBS or pdb2pqr BB's. They are very helpful people. > > Cheers, > > Boaz > > > Boaz Shaanan, Ph.D. > Dept. of Life Sciences > Ben-Gurion University of the Negev > Beer-Sheva 84105 > Israel > > E-mail: [email protected] > Phone: 972-8-647-2220 Skype: boaz.shaanan > Fax: 972-8-647-2992 or 972-8-646-1710 > > > > > > ________________________________________ > From: CCP4 bulletin board [[email protected]] on behalf of Xiaoming > Ren [[email protected]] > Sent: Thursday, April 24, 2014 10:32 PM > To: [email protected] > Subject: [ccp4bb] How to create electrostatic surface of modified DNA by > APBS? > > Dear all: > > I'm having a problem create the electrostatic surface for a DNA chain > containing several modified nucleotides. APBS could not identify those > residues and reported them as unassigned. > > What should I do to solve this problem? > > Thanks a lot and best, > Xiaoming >
