When we need to identify a protein in a spot, we usually send it to another institute where they have a good old MALDI-TOF, which is arguably the best way to go for single protein IDs.
However, we would like to do it ourselves. We don't have a MALDI, but we do have an ESI microTOF-Q II from Bruker that was acquired for a different purpose.
I intend to digest the spot with trypsin, extract the peptides, purify them with a ZipTip, elute them in maybe 20 uL and inject them directly into the mass spec.
Does anyone work with an ESI microTOF-Q for protein identification? Any protocol (drying gas temp, flow rate from the syringe, parameters in the software...) would be much appreciated.
EDIT: I also want to add that the ion source is ESI, not nanoESI.
Edited by Glyoxime, 23 December 2014 - 06:52 AM.