Suppose , I have the crystal structures for any molecules, then how to obtained the minimum inter molecular distance from crystal structures ?
You can use the close contacts analysis in Mercury there is a free version available from the CCDC.
http://www.ccdc.cam.ac.uk/Community/csd-community/freemercury/
You can simply calculate the cartesian coordinates using the crystal matrix A multiplied by the relative coordinates of ALL positions within the unit cell. Then you simply need to determine all distances using a loop. That's what programs like Mercury do. There is no mystery. Of course you need to calculate a bit more than the unit cell content but you can start with the unit cell and then you simply need to check whether there is an atom in a layer of the shortest distance which is even closer to an atom than the shortest distance you've already found.
Open the .ins file in WinGX. From the Platon generate .lis file. It will have all the information required.
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