MarvinView Example - XYZ animations

In this example a molecular dynamic simulation is shown about the thermal motion of a segment of a protein alpha helix. The simulation is provided by Raul E. Cachau <cachau@ncifcrf.gov>.

The animSync parameter is used to synchronize the animation in the two cells. The spin1 parameter sets the spinning rate and axis for the right cell.

<script LANGUAGE="JavaScript1.1" SRC="../../../marvin.js"></script>
<script LANGUAGE="JavaScript1.1">
<!--
mview_begin("../../..", 561, 300);
mview_param("molbg", "#000000");
mview_param("atomSymbolsVisible", "false");
mview_param("animSync", "true");
mview_param("spin1", "30,1,-1,0");
mview_param("navmode", "rot3d");
mview_param("rendering", "spacefill");
mview_param("rows", "1");
mview_param("cols", "2");
mview_param("border", "1");
mview_param("layout", ":2:1:M:1:0:1:1:L:0:0:1:1:c:n:1:1");
mview_param("param", ":M:280:280:L:10b");
mview_param("cell0", ":../../../mols-3d/all_atoms_cyclic_traj.xyz.gz:All atoms");
mview_param("cell1", ":../../../mols-3d/backbone_atoms_cyclic_traj.xyz.gz:Backbone atoms only");
mview_end();
//-->
</script>

Note, that this animation does not work in Netscape versions earlier than 4.0 because Java 1.1 is needed for unpacking the gzipped files.

The next example shows how to visualize chirality in the viewer.