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Maxis 2 etd q tof mass spectrometer

Manufactured by Bruker
Sourced in Germany, United States

The MaXis II ETD Q-TOF mass spectrometer is a high-performance instrument designed for advanced analytical applications. It features a quadrupole time-of-flight (Q-TOF) mass analyzer and an Electron Transfer Dissociation (ETD) ion source, providing accurate mass measurements and in-depth structural analysis capabilities.

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5 protocols using maxis 2 etd q tof mass spectrometer

1

UHPLC-MS/MS Analysis of Metabolites

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The UHPLC–MS/MS
analysis
was performed in a Maxis II ETD Q-TOF mass spectrometer (Bruker Daltonics,
Germany) using an electrospray ionization (ESI) source with either
an Elute UHPLC (Bruker Daltonics, Germany) or a 1260 Infinity II Binary
Pump (Agilent Technologies, USA) system. The separation was performed
on an Acquity UPLC HSS T3 column (1.8 μm, 100 × 2.1 mm)
from Waters Corporation. Milli-Q water with 0.1% formic acid was used
as mobile phase A, and LC–MS grade methanol with 0.1% formic
acid was used as mobile phase B. The column temperature was kept at
40 °C, and the autosampler temperature was kept at 4 °C.
The flow rate was set to 0.22 mL/min with an injection volume of 5
μL. The gradient used was as follows: 0–2 min, 0% B;
2–15 min, 0–100% B; 15–16 min, 100% B; 16–17
min, 100–0% B; 17–23 min, 0% B. The system was controlled
using the Compass HyStar software package from Bruker (Bruker Daltonics,
Germany). High-resolution mass spectra were acquired in negative mode
at a mass range of m/z 50–1200.
Data acquisition was performed in AutoMSMS mode (data-dependent acquisition,
DDA) with a cycle time of 0.5 s and a ramped collision energy from
20 to 50 eV. A solution of sodium formate [10 mM in a mixture of 2-propanol/water
(1/1, v/v)] was used for internal calibration at the beginning of
each run, in a segment between 0.10 and 0.31 min.
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2

Myofilament Protein Analysis by LC-MS/MS

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LC-MS/MS analysis was carried out using a Waters ACQUITY UPLC M-class system (Milford, MA, USA) coupled to a maXis II ETD Q-TOF mass spectrometer (Bruker Daltonics, Bremen, Germany). Myofilament protein extracts from rat SOL and GAS skeletal muscle tissues were diluted using 0.1% formic acid, 2 mM TCEP in water. 5 μL of the diluted protein extracts (500 ng) were loaded on a home-packed PLRP column (PLRP-S, 250 mm long, 0.25 mm i.d., 10 μm particle size, 1000 Å pore size, Agilent). Myofilament proteins were eluted by a linear 50 minute gradient of 5% to 95% mobile phase B (mobile phase A: 0.1% formic acid in water, mobile phase B: 0.1% formic acid in 50:50 acetonitrile: ethanol) at a flow rate of 8 μL/min. End plate offset and capillary voltage were set at 500 and 4,500 V, respectively.
Data-dependent LC-MS/MS was performed on the rat SOL and GAS skeletal muscle myofilament protein extracts. The three most intense ions in each mass spectrum were selected and fragmented by collision-activated dissociation (CAD) with a scan rate of 2 Hz in 500–3000 m/z. The isolation window for online auto MS/MS CAD was 5–8 m/z. The collision DC bias was set from 18 to 45 eV for CAD with nitrogen as collision gas.
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3

NMR Spectroscopy and Mass Spectrometry Analysis

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NMR spectra were acquired at 25 °C on a Bruker Avance HDX 800 MHz spectrometer (Zürich, Switzerland) equipped with a TCI cryoprobe. The 1H and 13C chemical shifts were referenced to the DMSO-d6 solvent peaks at δH 2.50 and δC 39.52 ppm, respectively, and all deuterated solvents were from Cambridge Isotope Laboratories (CIL). Low resolution mass spectra were measured with a Thermo Ultimate 3000 system equipped with an AccucoreTM C18 column (2.6 μm, 150 × 2.1 mm), a diode-array detector (DAD), and an ESI mass spectrometer. HRESIMS measurements were obtained on a Bruker Maxis II ETD QTOF mass spectrometer (Bremen, Germany) and was calibrated with sodium trifluoroacetate. SINGLE StEP Silica Column™ and Sephadex LH-20 (GE Healthcare BioSciences AB) were used for fractionation. Reverse phase HPLC was performed on Thermo Ultimate 3000 system separation module with a DionexTM diode array detector (MA, USA). Optical rotations were determined on a Jasco P-1020 Polarimeter (10 cm cell) (Tokyo, Japan). All solvents used for extraction, chromatography, [α]D, and MS were Honeywell Burdick & Jackson HPLC grade (Muskegon, MI, USA), 0.1% formic acid (Sigma-Aldrich) was used in solvent system for LC-MS and 0.1% TFA (Sigma-Aldrich) was used in solvent system for HPLC. H2O was purified with Sartorius Arium®Pro VF ultrapure water system (Göttingen, Germany).
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4

Quantitative Analysis of Ubiquitin Modifications

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Minimally digested products were separated using a nanoAcquity LC system (Waters) equipped with replacement capillary custom packed trap (nanoLCMS Solutions LLC) followed by a home-packed PLRP-S column and a gradient from 5% B to 95% B over 43 min (solvent A: 0.1% formic acid in water; solvent B: 0.1% formic acid in 1:1 solution of acetonitrile and ethanol). The LC system was coupled online with a Bruker maXis II ETD Q-TOF mass spectrometer. For tandem mass spectrometry (MS/MS) experiments, individual charge states of protein molecular ions were isolated; then, the ions were dissociated by ETD. The accumulation time, reagent time, and reaction time for ETD were determined on a case-by-case basis to achieve optimal fragmentation. The ranges for accumulation time, reagent time, and reaction time were 1000–4000, 4–20, and 1–10 ms, respectively. All spectra were processed with the MASH suite software34 (link) using a S/N threshold of 3 and a fit factor of 70% and then validated manually. The resulting mass lists were further assigned on the basis of the sequence of Ub with or without the diglycine (GG) modification at each lysine using a tolerance of 20 ppm for precursor and fragment ions. All reported calculated (calcd) and experimental (exptl) values correspond to the monoisotopic molecular weight.
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5

UPLC-QTOF with ETD for Protein Analysis

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A Waters ACQUITY UPLC M-class system (Milford, MA, USA) was coupled to a maXis II ETD Q-TOF mass spectrometer (Bruker Daltonics, Bremen, Germany). 150 mm × 0.5 mm BIOshell A400 Protein C4 columns with 3.4 μm particle size (Sigma-Aldrich, St. Louis, MO, USA) was used for the reversed-phase separation. On column desalting was performed and bypassed the buffer salts into waste. For the mass spectrometer, the end plate offset and capillary voltage were optimized at 500 V and 4500 V, respectively. The nebulizer was set to 0.5 bar, and the dry gas flow rate was 4.0 L/min at 220 °C. Collision cell RF was set to 2000 Vpp, transfer time to 110 μs, and pre pulse storage to 10 μs for ion desolvation and transmission. The quadruple low mass was set to 500 m/z and the scan range was from 200-3500 m/z at 1Hz. ETD reagent was 3, 4-hexanedione (114 m/z negative ion). Precursor accumulation was ranging from 400 to 1000 ms, the reagent time ranging from 5-22 ms, and the reaction time ranging from 0-2 ms. Additional details are provided in the Supporting Information.
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