Tandem Mass Spectrometry MSMS or MSn.pptVIP

Tandem MS Formation of daughter ions Triple Quadrupole Mass Spectrometer Ion Trap Mass Spectrometer Product Ion scans are used to get more information unknown fragments. Basic question: what is? First analyzer operates in Quasi SIM at mass “X” to isolate the fragment is question. In the collision chamber it is further fragmented, which is analyzed in the second analyzer which scan from “X” to 0. Tandem MS spectrum Precursor (Parent) Ion scans can be used to find the origins of some fragments e.g. the molecular ions. Basic question: What is the origin? The second analyser operates in quasi SIM at mass x, while the first analyser scans from x+1 to high masses. NOT FOR ION TRAP!! Neutral loss scans are used to find compounds with special properties in the chromatogram. It is essential that the respective compounds do a significant cleavage in the collision cell. During this experiment both analyzers scan in parallel offset with the respective (loss) difference. The multiplier can only be hit by ions that cleave the respective mass in the collision cell. MS/MS Selected Reaction Monitoring (SRM): In SRM specific cleavages are used to quantify compounds in complex matrices. Basic question: were is my quantification signal in this jungle of peaks? Both analysers work on (co-ordinated) SIM programs. * Tandem Mass Spectrometry : MS/MS or MSn Mass spectrometry is a very powerful method to analyse the structure of organic compounds, but suffers from 3 major limitations: Compounds cannot be characterised without clean samples This technique has not the ability to provide sensitive and selective analysis of complex mixtures For big molecules like peptides spectra are very complex and very difficult to interpret Ionization source M1 MS Ionization source MS GC M1, M2, M3 Reaction region MS2 MS1 Ionization source M1, M2, M3 M2+ M1+ M3+ M1x+, M1y+,…. MS GC-MS MS-MS M1, M2,…. M1x+, M1y+,…. M1+, M2+ M1x+, M1y+,…. Reaction region MS2 MS1 Ionization sourc