Page 15 - Shimadzu LCMS-IT-TOF

Protein Layer

By combining LCMSsolution with the newest addition to the solutions suite, Protein Layer,
the LCMS-IT-TOF can be set up for automated protein identification experiments.
Protein Layer features the same user-friendly interface as LCMSso-
lution.
By setting the peak-list generation and database search parameters
in the protein method, the process can be automated from analysis
to protein identification.
The identification results can be viewed directly from the Protein
Layer software, enabling easy data management. Moreover, the pa-
rameters can be easily changed for follow-up searches.
The valuable time saved with the efficiency of this software makes
it indispensable for protein analysis.

A screen capture of the Protein Layer software
The MS data from the Protein Layer software data file and the Mascot search results can be viewed together.

Data Explorer
Chromatogram

Precursor ion information
(Charge state and retention time)

MS Spectrum
Chromatogram preview

Measurement Example (BSA Tryptic digest 50 fmol)

As a result of the Mascot search, BSA’s score is 1180 and the No.1 ranking protein hit. Furthermore, all of the peptide masses are re-
ported to be within the error range of 4 ppm or less in the identification results (data collected using an external standard).
This data exemplifies the high-quality measurement obtainable with the high-accuracy LCMS-IT-TOF.

LCMS-IT-TOF
Liquid Chromatograph Mass Spectrometer 15