[Chimera-users] Converting SDF files to Mol2 Format

Nancy nancy5villa at gmail.com
Fri Mar 26 08:15:34 PDT 2010

Hi Elaine,

I need to convert a large number of PubChem SDF files into Mol2 format.
When I convert an SDF file into Mol2 format, I add partial charges and run
energy minimisation on the molecule, as this is necessary for the program I
am inputting the files into.  So far, I have only used Chimera in this
method to convert individual files.  Is there a way to convert a large
number of SDF files to Mol2 format at once, and also preserve the filenames?

Thanks in advance,

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