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: [log in to unmask]
Phone: 972-8-647-2220  Skype: boaz.shaanan
Fax:   972-8-647-2992 or 972-8-646-1710





________________________________________
From: CCP4 bulletin board [[log in to unmask]] on behalf of Xiaoming Ren [[log in to unmask]]
Sent: Thursday, April 24, 2014 10:32 PM
To: [log in to unmask]
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