MOLv3000 = extended molfile or extended connection table SD files share the MOL format but may contain several structures (separated by lines with $$$$), which will be read by Jmol as multiple models or frames. 1 File Formats for the Atomic Coordinates of the Molecule.What follows is a collection of specifications and comments on several formats, but is not a complete listing of all formats supported.įeel free to add a subsection with a description of a format you know well.
Jmol overlay pdb full#
Where fileName includes the path, the file name itself and the file extension paths may be absolute or relative a full URL may also be used.įileFormat will be a keyword recognized by Jmol that designates that format. You can instruct Jmol as to which format to assume using this special command syntax: The file extension is not taken into account for identifying the format. Jmol will read any file and try to determine its format from its content. dragging and dropping the file onto the Jmol application window.using the load command in the command line, in the Jmol scripting console, or in a script,.File > Get MOL will ask for some kind of supported chemical name or id and retrieve the file from Cactus Resolver at NCI (see Database Connection).File > Get PDB will ask for a 4-character PDB ID and retrieve the file from PDB at RCSB (see Database Connection).File > Open URL will ask for a location on the web.File > Open will open a standard dialog for browsing local disk.These files are loaded into Jmol by either of the following methods: File Formats for the Atomic Coordinates of the Molecule
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