From: David Hardy (dhardy_at_ks.uiuc.edu)
Date: Thu Aug 17 2017 - 13:28:19 CDT
The APBS website is http://www.poissonboltzmann.org/ <http://www.poissonboltzmann.org/>
-- David J. Hardy, Ph.D. Theoretical and Computational Biophysics Beckman Institute, University of Illinois dhardy_at_ks.uiuc.edu http://www.ks.uiuc.edu/~dhardy/ > On Aug 10, 2017, at 10:31 AM, Rabeta Yeasmin <rabetayeasmin_at_gmail.com> wrote: > > Dear Mr. Fiorin, > > I have tried to use their web server. But it is showing - > 404 > file not found. > > I am wondering how can I use their web server. > Thanks. > > Rabeta Yeasmin > > On Thu, Aug 10, 2017 at 8:15 AM, Giacomo Fiorin <giacomo.fiorin_at_gmail.com <mailto:giacomo.fiorin_at_gmail.com>> wrote: > Please read the doc from the APBS website. > > On Wed, Aug 9, 2017 at 5:44 PM, Rabeta Yeasmin <rabetayeasmin_at_gmail.com <mailto:rabetayeasmin_at_gmail.com>> wrote: > Dear Mr. Fiorin, > > Thanks very much for your correction. I am wondering how can I use APBS. Do I need to install it or I can use web server of it? > > Regards > Rabeta Yeasmin > > On Wed, Aug 9, 2017 at 2:16 PM, Giacomo Fiorin <giacomo.fiorin_at_gmail.com <mailto:giacomo.fiorin_at_gmail.com>> wrote: > There are several, but of those I tried APBS has the cleanest user interface in my opinion. Note that the electrostatic potential will only measure unscreened charges, but not the hydrophobic effect: > https://en.wikipedia.org/wiki/Hydrophobic_effect <https://en.wikipedia.org/wiki/Hydrophobic_effect> > because it is not due only to electrostatics. > > Giacomo > > On Wed, Aug 9, 2017 at 2:03 PM, Rabeta Yeasmin <rabetayeasmin_at_gmail.com <mailto:rabetayeasmin_at_gmail.com>> wrote: > Dear NAMD Users, > > I want to calculate molecular electrostatic potential and create a electrostatic map showing hydrophobic and hydrophilic part. I believe APBS is one of the software which can do this. I am wondering if anyone can suggest me any other software like APBS. I have searched on line and found some like Delphi Tools, UHBD, PBEQ solver, Avagadro and Jmol. I am not sure if they can perform the same thing as APBS. If anyone is familiar which these tools, please give me some idea and suggestions. > > Thanks. > > Regrads > Rabeta Yeasmin > > > > -- > Giacomo Fiorin > Associate Professor of Research, Temple University, Philadelphia, PA > Contractor, National Institutes of Health, Bethesda, MD > http://goo.gl/Q3TBQU <http://goo.gl/Q3TBQU> > https://github.com/giacomofiorin <https://github.com/giacomofiorin> > > > > > -- > Giacomo Fiorin > Associate Professor of Research, Temple University, Philadelphia, PA > Contractor, National Institutes of Health, Bethesda, MD > http://goo.gl/Q3TBQU <http://goo.gl/Q3TBQU> > https://github.com/giacomofiorin <https://github.com/giacomofiorin> >
This archive was generated by hypermail 2.1.6 : Mon Dec 31 2018 - 23:20:31 CST