The sub-menu View is shown on the left. It allows:
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Some details about models and maps are reported. In the following image it is shown which properties of a model can be changed:
In the following image it is shown which properties of a map can be changed:
In order to get a better view of a model it is possible to tune the radius of the spheres representing the atoms and the radius of the cylinders representing the bonds. The atom colors can be modified.
This window provides some tools to set the properties of the polyhedra; it is possible to visualize or to hide some of them, it is possible to change the colors and the transparency, to show or to hide the edges etc.
General drawing options can be set in the following window:
Other options are available through this window: grid, projection type and 3D view (using two-color glasses):
Using some (old) video cards some troubleshooting are possible: the model/map appears and disappears when it is moved/rotated. In this case the line smooth must be turned off
Set the colors for atomic species:
and the colors for chains, secondary structures and residues (when working with proteins):
Using this interface it is possible to select an atom to center the model / map
or, if the structure is a protein:
Set the preferred view plane..
If the structure is a protein the information about the sequence is accessible. Different colors refers to different secondary structure elements (See Colours Table). By clicking on a residue the map/model is centered on it.
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