Re: [Open Babel] SMARTS matching and tautomers

2013-04-04 Thread Noel O'Boyle
I don't think Fixed-H InChIs will help here. The InChI was never intended as a way to store chemical information, but just to be an index, so that several tautomeric forms will all give the same InChI. If you use it to store structures, then you have to accept that the original structure will be no

[Open Babel] SMARTS matching and tautomers

2013-04-04 Thread Fredrik Wallner
Hi, I have a database with standard InChI's that I would like to do substructure matches on with openbabel/pybel. My problem is that the InChI's are given with non-intuitive tautomers (eg. amides have the double bond to the nitrogen instead of the oxygen if possible), leading to confusion when