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MARTINI - Revision history
2026-04-30T23:38:52Z
Revision history for this page on the wiki
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Nice and Tidy at 12:10, 5 March 2010
2010-03-05T12:10:21Z
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 14:10, 5 March 2010</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a [[Coarse graining |coarse grained]] forcefield suited for [[molecular dynamics]] simulations of [[Biological systems |biomolecular systems]]. The forcefield has been parametrized in a systematic way, based on the reproduction of partitioning free energies between polar and apolar phases of a large number of chemical compounds. </div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a [[Coarse graining |coarse grained]] forcefield suited for [[molecular dynamics]] simulations of [[Biological systems |biomolecular systems]]. The forcefield has been parametrized in a systematic way, based on the reproduction of partitioning free energies between polar and apolar phases of a large number of chemical compounds. </div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">==Functional form==</ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">==Parameters==</ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==References==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==References==</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp036508g Siewert J. Marrink, Alex H. de Vries, and Alan E. Mark "Coarse Grained Model for Semiquantitative Lipid Simulations", Journal of Physical Chemistry B '''108''' pp.750-760 (2004)] </div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp036508g Siewert J. Marrink, Alex H. de Vries, and Alan E. Mark "Coarse Grained Model for Semiquantitative Lipid Simulations", Journal of Physical Chemistry B '''108''' pp.750-760 (2004)] </div></td></tr>
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Nice and Tidy
http://www.sklogwiki.org/SklogWiki/index.php?title=MARTINI&diff=8122&oldid=prev
Carl McBride: /* References */ Added a reference.
2009-05-05T09:56:29Z
<p><span dir="auto"><span class="autocomment">References: </span> Added a reference.</span></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 11:56, 5 May 2009</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp036508g Siewert J. Marrink, Alex H. de Vries, and Alan E. Mark "Coarse Grained Model for Semiquantitative Lipid Simulations", Journal of Physical Chemistry B '''108''' pp.750-760 (2004)] </div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp036508g Siewert J. Marrink, Alex H. de Vries, and Alan E. Mark "Coarse Grained Model for Semiquantitative Lipid Simulations", Journal of Physical Chemistry B '''108''' pp.750-760 (2004)] </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp071097f Siewert J. Marrink, H. Jelger Risselada, Serge Yefimov, D. Peter Tieleman, and Alex H. de Vries "The MARTINI Force Field: Coarse Grained Model for Biomolecular Simulations", Journal of Physical Chemistry B '''111''' pp. 7812-7824 (2007)]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>#[http://dx.doi.org/10.1021/jp071097f Siewert J. Marrink, H. Jelger Risselada, Serge Yefimov, D. Peter Tieleman, and Alex H. de Vries "The MARTINI Force Field: Coarse Grained Model for Biomolecular Simulations", Journal of Physical Chemistry B '''111''' pp. 7812-7824 (2007)]</div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">#[http://dx.doi.org/10.1021/ct700324x Luca Monticelli, Senthil K. Kandasamy, Xavier Periole, Ronald G. Larson, D. Peter Tieleman and Siewert-Jan Marrink "The MARTINI Coarse-Grained Force Field: Extension to Proteins", Journal of Chemical Theory and Computation '''4''' pp. 819–834 (2008)]</ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[category: Force fields]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[category: Force fields]]</div></td></tr>
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Carl McBride
http://www.sklogwiki.org/SklogWiki/index.php?title=MARTINI&diff=5935&oldid=prev
Carl McBride: Added references
2008-02-19T11:18:34Z
<p>Added references</p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 13:18, 19 February 2008</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a coarse grained forcefield suited for [[molecular dynamics]] simulations of [[Biological systems |biomolecular systems]]. The forcefield has been parametrized in a systematic way, based on the reproduction of partitioning free energies between polar and apolar phases of a large number of chemical compounds. </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a <ins style="font-weight: bold; text-decoration: none;">[[Coarse graining |</ins>coarse grained<ins style="font-weight: bold; text-decoration: none;">]] </ins>forcefield suited for [[molecular dynamics]] simulations of [[Biological systems |biomolecular systems]]. The forcefield has been parametrized in a systematic way, based on the reproduction of partitioning free energies between polar and apolar phases of a large number of chemical compounds. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==References==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==References==</div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">#[http://dx.doi.org/10.1021/jp036508g Siewert J. Marrink, Alex H. de Vries, and Alan E. Mark "Coarse Grained Model for Semiquantitative Lipid Simulations", Journal of Physical Chemistry B '''108''' pp.750-760 (2004)] </ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">#[http://dx.doi.org/10.1021/jp071097f Siewert J. Marrink, H. Jelger Risselada, Serge Yefimov, D. Peter Tieleman, and Alex H. de Vries "The MARTINI Force Field: Coarse Grained Model for Biomolecular Simulations", Journal of Physical Chemistry B '''111''' pp. 7812-7824 (2007)]</ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[category: Force fields]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[category: Force fields]]</div></td></tr>
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Carl McBride
http://www.sklogwiki.org/SklogWiki/index.php?title=MARTINI&diff=5934&oldid=prev
Carl McBride: New page: [http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a coarse grained forcefield suited for molecular dynamics simulations of [[B...
2008-02-19T11:13:13Z
<p>New page: [http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a coarse grained forcefield suited for <a href="/SklogWiki/index.php/Molecular_dynamics" title="Molecular dynamics">molecular dynamics</a> simulations of [[B...</p>
<p><b>New page</b></p><div>[http://md.chem.rug.nl/~marrink/coarsegrain.html MARTINI] ('''MAR'''rink '''T'''oolkit '''INI'''tiative) is a coarse grained forcefield suited for [[molecular dynamics]] simulations of [[Biological systems |biomolecular systems]]. The forcefield has been parametrized in a systematic way, based on the reproduction of partitioning free energies between polar and apolar phases of a large number of chemical compounds. <br />
==References==<br />
[[category: Force fields]]</div>
Carl McBride