Re: [ccp4bb] Hydrophobic interactions

2011-12-15 Thread Vandana Kukshal 
Dear amit sir 
you can go through this server ..
http://pic.mbu.iisc.ernet.in http://pic.mbu.iisc.ernet.in/index.html .
PIC server can calculate many interactions within and between the protein
molecules. ..PIC: Protein Interactions Calculator K. G. Tina, R. Bhadra,
and N. Srinivasan,NAR 2007
best regards

On Thu, Dec 15, 2011 at 2:04 AM, Luthra,Amit alut...@uchc.edu wrote:

 Hi Everyone

 I have to calculate hydrophobic interactions in pdb files. Is any server
 available for this type of calculation?

 ** **

 Thanks in advance

 ** **

 Amit




-- 
Vandana kukshal

Re: [ccp4bb] Hydrophobic interactions

2011-12-15 Thread Iain Kerr 
LIGPLOT will show this graphically, if the correct parameters are set in 
ligplot.prm, but not state the interactions explicitly:


http://www.ebi.ac.uk/thornton-srv/software/LIGPLOT/

The relevant lines in ligplot.prm:

PLOT PARAMETERS
---
Y- Include: Hydrophobic interactions - (Y/N)?

HTH,
Iain

On Wednesday,Dec 14 12:34 PM, Luthra,Amit wrote:


Hi Everyone

I have to calculate hydrophobic interactions in pdb files. Is any 
server available for this type of calculation?


Thanks in advance

Amit

[ccp4bb] Hydrophobic interactions

2011-12-14 Thread Luthra,Amit 
Hi Everyone
I have to calculate hydrophobic interactions in pdb files. Is any server 
available for this type of calculation?

Thanks in advance

Amit

Re: [ccp4bb] Hydrophobic interactions

2011-12-14 Thread eugene . krissinel 
google on pisa pdbe  -- Eugene


From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Luthra,Amit 
[alut...@uchc.edu]
Sent: Wednesday, December 14, 2011 8:34 PM
To: ccp4bb
Subject: [ccp4bb] Hydrophobic interactions

Hi Everyone
I have to calculate hydrophobic interactions in pdb files. Is any server 
available for this type of calculation?

Thanks in advance

Amit