Setting Up To Acquire Ms/Ms Data In The Full Scan Type; Optimizing The Isolation Width And Setting Up To Optimize The Collision Energy; Chapter 5 Acquiring Esi Sample Data Using The Tune Plus Window - Thermo Scientific LTQ XL Getting Started

5
Acquiring ESI Sample Data Using the Tune Plus Window

Setting Up to Acquire MS/MS Data in the Full Scan Type

Setting Up to Acquire
MS/MS Data in the
Full Scan Type
Optimizing the Isolation
Width and Setting Up to
Optimize the Collision
On
84 LTQ XL Getting Started
Prepare to acquire MS/MS data in the Full scan type on reserpine (or on
your analyte of interest). You need to optimize the isolation width and the
relative collision energy parameters before you acquire MS/MS data.
You first optimize the isolation width to ensure that the ion of interest is
isolated effectively, and then you optimize the collision energy to ensure that
fragmentation of the parent ion is efficient. The relative collision energy for
a particular analysis depends on the type of sample you are analyzing.
The information in this topic applies to operation of the LTQ XL MS
detector in either the ESI or the APCI mode.
This topic contains the following subtopics:
• Optimizing the Isolation Width and Setting Up to Optimize the
Collision Energy
• Optimizing the Collision Energy Automatically for an MS/MS
Experiment
Optimize the isolation width and set up to optimize the collision energy
for an MS/MS experiment
Note The collision energy is optimized on the LTQ XL MS detector by
Energy
changing the values for the parameter Normalized Collision Energy in
the MS
experiment, and for most applications, leave the parameters Activation
Q and Activation Time set to their default values. For more information
about these parameters, refer to the online Help.
1. If you have not already done so, from the Tune Plus window, click the
On/Standby button to take the MS detector out of Standby mode and
turn it On.
Standby
2. Ensure that the Centroid data type is selected. (The picture on the
button should be the same as that shown here.)
3. Ensure that the scan parameters are defined to acquire MS/MS Full scan
data for reserpine (or your analyte of interest), as follows:
a. Click the Define Scan button to open the Define Scan dialog box.
See
Settings group box of the Define Scan dialog box. For this
n
Figure 37.
Thermo Electron Corporation