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towhee-doc-7.0.1-1.fc14.noarch.rpm

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  <title>MCCCS Towhee (SPC-E water)</title>
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      <div align="center"> <font size="5"> <b><font face="Arial, Helvetica, sans-serif"><a name="top"></a>MCCCS 
        Towhee (SPC-E water)</font></b> </font> </div>
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      <p>&nbsp; </p>
      <p>&nbsp;</p>
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    <td width="697" valign="top"> <b>Overview</b> 
      <ul>
        This section covers the Simple Point Charge - Extended (SPC-E) water model parameters as they are implemented into 
	the towhee_ff_SPC-E file in the ForceFields directory.  All of the Towhee atom types for the SPC-E water force 
	field are listed, along with a short description of their meanings.  This is 
	not really a comphrehensive stand-alone force field, but instead a popular model for water.
	Note that these are Lennard-Jones (12-6)
	parameters and can only be combined with other Lennard-Jones (12-6) force fields.
	Any discrepencies (especially typos) from the published SPC-E force field values 
	are the sole responsibility of Marcus G. Martin, and I welcome feedback on how this implementation compares
	with other programs.
        <p>&nbsp;</p>
      </ul>

      <b>References for SPC-E water</b> 
      <ul>
        <li><a href="../references.html#berendsen_et_al_1987">Berendsen <i>et al.</i> 1987</a></li>
      </ul>	

      <b>SPC-E in Towhee</b> 
      <ul>
        The official force field name for Simple Point Charge - Extended water in Towhee is 'SPC-E'.  Here I list all of 
	the SPC-E atom names for use in the towhee_input file, along with a brief description (although 
	the meaning of the atom names should be obvious).

	Please note that the capitalization and spacing pattern is important 
	and must be followed exactly as listed here.
	<ul>
          <li><b>'HW'</b> : hydrogen in water</li>
          <li><b>'OW'</b> : oxygen in water</li>
	</ul>
      </ul>

      <b>Coulombic interactions</b> 
      <ul>
        Atom centered point charges are used to represent the electrostatic interactions. 
	<ul>
          <li><b>'HW'</b> : 0.4238</li>
          <li><b>'OW'</b> : -0.8476</li>
	</ul>
      </ul>

      <b>Improper torsions</b> 
      <ul>
        This force field only has parameters for water so there are no improper torsions.
      </ul>

      <b>Proteins</b> 
      <ul>
        This force field only has parameters for water, and while you are welcome to use them with another protein
	force field, there are no amino acids in the SPC-E force field.
      </ul>

      <a href="../towhee_capabilities.html">Return to the Towhee Capabilities web page</a> 
      <p>&nbsp;</p>
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<i><font size="2">Send comments to:</font></i> <font size="2"> 
<a href="mailto:marcus_martin@users.sourceforge.net">Marcus G. Martin</a><br>
<i>Last updated:</i> 
<!-- #BeginDate format:Am1 -->September 07, 2005<!-- #EndDate -->
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