I had submitted a SEC purified Amyloid beta protein for MS analysis on an Agilent system and I have a spectra in form of .d folder. how am I supposed to convert it into a convenient file format for the identification of my protein. The protein sequence and molecular weight is known to me. How do I analyze this type of spectra? I have a pdf version of my spectra and need to identify the M/z ratio for my protein.
Manohar Radhakrishnan
You can analyze those M/Z values by Mascot server. each M/z value hit of your sequence in couple fragments..from the fragment if you do protein blast you can find how much of your fragment has been cover the protein sequence.
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Renuka Ranjan
John S Wishnok
Manohar Radhakrishnan Thanks for your answers.John S Wishnok
I think the problem is with the range as mentioned by you. The mass spectrometer was set for 1-1000 m/z ratio by the operator. If possible, please let me know what m/z range for a 4.6 kDa protein should be chosen on Agilent ESI Mass spec instrument with Mass Hunter as its software.
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