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4000 qtrap hybrid triple quadrupole linear ion trap lc ms ms system

Manufactured by AB Sciex

The 4000 QTRAP hybrid triple quadrupole/linear ion trap LC-MS/MS system is a high-performance mass spectrometry instrument designed for liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis. The system combines the capabilities of a triple quadrupole and a linear ion trap, providing advanced functionality for quantitative and qualitative analysis of a wide range of analytes.

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2 protocols using 4000 qtrap hybrid triple quadrupole linear ion trap lc ms ms system

1

UHPLC-MS/MS Analysis of Adducts

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Adduct analysis was performed using a 4000 QTRAP hybrid triple quadrupole/linear ion trap LC-MS/MS system (AB Sciex, Redwood City, CA) interfaced with a Flexar UHPLC system (Perkin-Elmer, Waltham, MA) using an Acuity UPLC 1.7 µm BEH C18, 100 × 2.1 mm column (Waters, Milford, MA). The UHPLC solvent method utilized a gradient of solvent A (5 mM NH4OAc + 0.1% formic acid in HPLC grade water) and solvent B (acetonitrile) at a flow rate of 500 µl/min. The 7.5 minute gradient was as follows: 1) 0.5 minute 80% A and 20% B; 2) 6 minutes to 10% A and 90% B; 3) 0.1 min 10% A and 90% B; 4) 0.9 minute wash out 10% A and 90% B. The MS parameters were set as follows: electrospray ionization – positive mode; electrospray source temperature – 600°C; declustering potential – 60 eV; collision energy – 30 eV; entrance potential – 10 eV; cell exit potential – 10 eV; collision activated dissociation gas – high; curtain gas – 20 psi. Adducts were analyzed in multiple reaction monitoring (MRM) mode with the following transitions 604.2/335.0, 604.2/317.0, 604.2/289.1 (targeted adducts) and 609.2/335.0, 609.2/317.0, 609.2/289.1 (internal standards). Peak integration was performed using Analyst 1.5.2 Software (AB Sciex, Redwood City, CA).
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2

PRMT5 Enzymatic Activity Assay

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PRMT5 enzymatic activity was assessed by monitoring S-adenosyl-L-homocysteine (SAH) product formation utilizing liquid chromatography-tandem mass spectrometry (LC-MS/MS). 0.5–1 uM of PRMT5/MEP50 recombinant enzyme (BPS, cat#51045) was incubated with 50 uM SAM, 2 uM GST-AR LBD and/or 5 uM ETS or PNT ERG protein for 2 hr at 37°C. Reactions were quenched to 0.1% HCOOH followed by addition of [β,β,γ,γ-2H4]-SAH (SAH-D4) in 20% DMSO as an internal standard for MS quantification. Samples were sonicated with a Hendrix SM-100 sonicator (Microsonics Systems) and centrifuged. SAH was separated from the reaction mixture by reversed phase chromatography using polar endcapped C18 reversed phase columns (Synergi Hydro-RP, 2.5 μm, 100 Å, 20 x 2 mm, Phenomenex) and detected using a 4000 QTRAP Hybrid Triple Quadrupole/Linear Ion Trap LC-MS/MS system (AB Sciex).
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