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Describe the bug
In our MaxQuant (v.2.6.0), when we set a localized enzyme mode (e.g. elastase at the C-terminal of AGILSV, specific or semi-specific), the identified peptides were all unmodified. All other parameters were the default.
To Reproduce
Steps to reproduce the behavior:
Go to set a localized enzyme: elastase at the C-terminal of AGILSV (or any other localized enzyme mode)
Select specific or semi-specific digestion
using variable modification deamination NQ and Oxidation M (or any other modifications).
Run MQ with any raw data and database
See error in the output .txt docs
Expected behavior
Identify both modified and unmodified peptides.
Screenshots
Desktop (please complete the following information):
OS: Ubuntu
Version 20.04
Additional context
Using a higher version of MQ could not solve this problem (in my test).