From owner-chemistry@ccl.net Thu Aug  2 12:50:00 2007
From: "Reaz Uddin riaasuddin%%yahoo.com" <owner-chemistry[#]server.ccl.net>
To: CCL
Subject: CCL: adding hydrogens
Message-Id: <-34854-070802122342-16863-ibKYqJuzNb2h97BwLoQa4g[#]server.ccl.net>
X-Original-From: Reaz Uddin <riaasuddin_._yahoo.com>
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Date: Thu, 2 Aug 2007 09:23:18 -0700 (PDT)
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Sent to CCL by: Reaz Uddin [riaasuddin]~[yahoo.com]
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I dont know what do you have in terms of molecular modeling software. But Tripos sybyl can easily help you to add hydrogens. In addditon to this, you can use opeeyes omega program. I guess opeyes babel can also help you in this regard.
  Hope it helps You.
  Thanks
  REAZ

"Max Porrini mozz76(0)gmail.com" <owner-chemistry=ccl.net> wrote:
  Hi all
Does anybody know how I can add hydrogens to a system?
I've downloaded the pdb file of a enzyme and there aren't hydrogen atoms
(for instance the water molecule is formed only by the oxygen).
I'd like to saturate my system with the missing hydrogens. 
Any tips will be very appreciated.
thanks a lot
MP



REAZUDDIN 
Research Scholar 
Department of Medicinal Chemistry and Pharmacognosy, 
College of Pharmacy, (M/C 781) 
University of Illinois at Chicago 
833 S. Wood St. 
Chicago, IL 60612 
Email: ruddin=uic.edu, riaasuddin=yahoo.com
Web: http://medchem.pharm.uic.edu/
       
---------------------------------
Yahoo! oneSearch: Finally,  mobile search that gives answers, not web links. 
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<div><FONT color=#00007f>I dont know what do you have in terms of molecular modeling software. But Tripos sybyl can easily help you to add hydrogens. In addditon to this, you can use opeeyes omega program. I guess opeyes babel can also help you in this regard.</FONT></div>  <div><FONT color=#00007f>Hope it helps You.</FONT></div>  <div><FONT color=#00007f>Thanks</FONT></div>  <div><FONT color=#00007f>REAZ<BR></FONT><BR><B><I>"Max Porrini mozz76(0)gmail.com" &lt;owner-chemistry=ccl.net&gt;</I></B> wrote:</div>  <BLOCKQUOTE class=replbq style="PADDING-LEFT: 5px; MARGIN-LEFT: 5px; BORDER-LEFT: #1010ff 2px solid">Hi all<BR>Does anybody know how I can add hydrogens to a system?<BR>I've downloaded the pdb file of a enzyme and there aren't hydrogen atoms<BR>(for instance the water molecule is formed only by the oxygen).<BR>I'd like to saturate my system with the missing hydrogens. <BR>Any tips will be very appreciated.<BR>thanks a lot<BR><SPAN
 class=sg>MP<BR></SPAN></BLOCKQUOTE><BR><BR><BR><span style="color: rgb(0, 0, 127);">REAZUDDIN </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">Research Scholar </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">Department of Medicinal Chemistry and Pharmacognosy, </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">College of Pharmacy, (M/C 781) </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">University of Illinois at Chicago </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">833 S. Wood St. </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">Chicago, IL 60612 </span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);"></span><span style="color: rgb(0, 0, 127);">Email: ruddin=uic.edu, riaasuddin=yahoo.com</span><br style="color: rgb(0, 0, 127);"><span style="color: rgb(0, 0, 127);">Web:
 http://medchem.pharm.uic.edu/</span><p>&#32;
      <hr size=1>Yahoo! oneSearch: Finally, <a href="http://us.rd.yahoo.com/evt=48252/*http://mobile.yahoo.com/mobileweb/onesearch?refer=1ONXIC"> mobile search 
that gives answers</a>, not web links. 


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