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6545 q tof

Manufactured by Agilent Technologies
Sourced in United States

The Agilent 6545 Q-TOF is a high-resolution, accurate-mass quadrupole time-of-flight (Q-TOF) mass spectrometer. It is designed to provide precise mass measurements and structural information for a wide range of analytes.

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37 protocols using 6545 q tof

1

HPLC-MS-MS-DAD Analysis of Purpurogallin Derivatives

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HPLC-MS-MS-DAD analysis was run on an Agilent Q-TOF 6545 using an Agilent Poroshell 120 Phenylhexyl column (2.1mm diameter × 150 mm length, with 1.9 μm particle size) in eluent A consisting of 100% water with 20 mM formic acid and eluent B 100% acetonitrile with 20 mM formic acid, in a gradient running from 10% eluent B to 100% B in 10 min, held at 100% B at 2 min, back to 10% B over 0.1. min, and held at 10% B for 1.9 min. The column temperature was 40°C, and the eluent flow rate was 350 μl/min. The MS range measured was from 100 to 1700 Dalton, with a scan rate of 10 spectra/s, using positive and negative ionization separately. Fragmentation (for MS-MS) was done at 10, 20 and 40 eV [44 (link)]. The UV spectrum was compared to the published spectrum [14 (link)] and to a standard of purpurogallin (purpurogallin standard purchased from Sigma-Aldrich, as nr. P7380 MSDS), the latter having a slightly different UV spectrum (and retention time) than purpurogallin carboxylic acid. The UV spectra of purpurogallin carboxylic acid and purpurogallin carboxylic acid glycopyranoside were identical (Fig. S3).
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2

Menin Compound Binding Kinetics

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Samples of menin (25 mg/mL in 25 mM Tris 8.0, 150 mM NaCl, and 5 mM DTT) were incubated with compounds in a protein-to-compound molar ratio of 1:1.2 for 1 h or overnight at 4 °C. Following incubation, the sample was diluted to 1 mg/mL with H2O. Each sample (0.1 mL) was subjected to a reverse-phase HPLC column (Phenomenex Aeris widepore C4 column 3.6 μM, 50 mm × 2.10 mm) at a flow rate of 0.5 mL/min in H2O with 0.2% (v/v) HCOOH. The protein was eluted using a gradient of 5 − 100% MeCN with 0.2% (v/v) HCOOH over 4 min. The liquid chromatography − mass spectrometry (LC−MS) experiment (Agilent Q-TOF 6545) was carried out under the following conditions: fragmentor voltage, 300 V; skimmer voltage, 75 V; nozzle voltage, 100 V; sheath gas temperature, 350 °C; and drying gas temperature, 325 °C. The MassHunter Qualitative Analysis software (Agilent) was used to analyze the data. Intact protein masses were obtained using the maximum entropy deconvolution algorithm.
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3

Quantitative Mass Spectrometry of Acyl-ACPs

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An Agilent Q-TOF 6545 was used to analyze reaction mixtures using the phosphopantetheine (Ppant) ejection method (Dorrestein et al., 2006 (link); Meluzzi et al., 2008 (link)). Samples underwent reverse phase HPLC (Phenomenex Aeris widepore C4 column 3.6 μM, 50 × 2.10 mm) in H2O with 0.2% (v/v) formic acid at a flow rate of 0.5 mL min−1. Protein was eluted over a 4 min linear gradient of 5–100% acetonitrile with 0.2% (v/v) formic acid. Samples were subjected to the following conditions: fragmentor voltage, 225 V; skimmer voltage, 25 V; nozzle voltage, 1000 V; sheath gas temperature, 350 °C; drying gas temperature, 325 °C. Data were processed using MassHunter Qualitative Analysis Software (Agilent). The relative abundances of Ppant ejection fragments for substrates and products were used to calculate the percent of total ACP species. In acyl transfer reactions with active GNAT domains, abundances of intact and decarboxylated acyl-ACP species were combined to calculate percent acyl group transfer.
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4

Quantitative LC-MS Analysis of Metabolites

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Sample analyses were performed using an Agilent QTOF 6545 with Jetstream ESI spray source coupled to an Agilent 1260 Infinity II Quaternary Pump UHPLC (Agilent Technologies, Santa Clara, USA) with 1260 autosampler, column oven compartment and variable wavelength detector. The MS was operated in all-ions mode with scan range 50–1700 m/z, 20 000 : 1 resolution and was calibrated using a reference introduced from the independent ESI reference sprayer.
Samples from the in vitro experiments were injected in negative ionisation mode onto a reverse-phase InfinityLab Poroshell 120 EC-C18 (3.0 × 50 mm, 2.7 μm) column (Agilent Technologies, Santa Clara, USA) using 0.1% (v/v) formic acid in water (mobile phase A) and in methanol (mobile phase B). Accurate mass measurements are reported to four decimal places. For improved retention of amino acids, samples from the experiments in fructo were subjected to further LC-MS analyses using a HILIC column (Agilent InfinityLab Poroshell 120 HILIC-Z; dimensions, 2.1 × 100 mm, 2.7 μm). Details of the gradient schedules are given in ESI Table S1. LC-MS operational conditions are in ESI Table S2.
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5

Menin Compound Binding Analysis

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Samples of menin (25 mg/mL in 25 mM T ris 8.0, 150 mM NaCl and 5mM DTT) were incubated with compounds in a protein to compound molar ratio of 1:1.2 for 1 h or overnight at 4 °C. Following incubation, the sample was diluted to 1 mg/mL with H2O. 0.1 mL of each sample was applied to a reverse phase HPLC column (Phenomenex Aeris widepore C4 column 3.6 μM, 50 × 2.10 mm) at a flow rate of 0.5 mL/min in H2O with 0.2% (v/v) HCOOH. Protein was eluted using a gradient of 5-100% MeCN with 0.2% (v/v) HCOOH over 4 min. The LC-MS experiment (Agilent Q-TOF 6545) was carried out under the following conditions: fragmentor voltage, 300 V; skimmer voltage, 75 V; nozzle voltage, 100 V; sheath gas temperature, 350 °C; drying gas temperature, 325 °C. MassHunter Qualitative Analysis Software (Agilent) was used to analyze the data. Intact protein masses were obtained using the maximum entropy deconvolution algorithm.
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6

Comprehensive Lipidomic Profiling of Plasma

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The Agilent Qtof 6545 and UPLC 1290 assay detects about 700 distinct lipid species across 13 different lipid classes (e.g., lysophosphatidylcholines, lysophosphatidylethanolamines, phosphatidylcholines, phosphatidylethanolamines, sphingomyelins, diacylglycerols, triacylglycerols, free fatty acids, cholesterol, ceramides, dihydroceramides, hexosylceramides, and lactosylceramides). Each sample is run once on the platform using positive and negative ionization modes. Data acquisition lasts for 20 min per sample, and 25μL of the plasma equivalent will be injected. Data quality will be ensured by using a set of lipid standards after each cleaning, 24 hr of idling or 3 days of consecutive use, performing a quick system suitability test before each batch to ensure acceptable limit of detection for each lipid class, sample randomization for lipid extraction and data acquisition, and triplicate injection of lipids extracted from a reference plasma sample at the beginning of the batch.
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7

Spectroscopic Analysis of Purified Compounds

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The purified compounds were individually subjected to spectrum analysis for structure identification. The high-resolution electrospray ionization mass spectrometry (HRESIMS) spectrum of the compound was recorded with an Agilent QTOF 6545 instrument operated in a positive-ion mode at capillary and cone voltages of 3.6 kV and 40 to 150 V, respectively. The collision energy was optimized from 15 to 50 V. For accurate measurement of metabolite mass, the instrument was calibrated each time using a standard calibration mix (Agilent) in the range of m/z 150 to 1,900. The 1D and 2D NMR (nuclear magnetic resonance) spectrum data for each compound (including 1H, 13C, heteronuclear single quantum coherence [HSQC], correlation spectroscopy [COSY], nuclear Overhauser effect spectroscopy distortionless enhancement by polarization transfer [NOESY DEPT], and/or heteronuclear multiple-bond correlation [HMBC]) were recorded at 25°C using a Bruker Avance III-500 spectrometer equipped with a 5-mm Pabbo BB-1H/D probe (60 (link)). The chemical shift values (δ) are given in parts per million, and the coupling constants (J values) are shown in hertz. Chemical shifts were referenced to the residual solvent peaks of CD3OD-d4. All spectra were processed with the MestRe Nova program (version 9.0.1; Metrelab Research, Santiago de Compostela, Spain).
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8

Metabolic Profiling by UHPLC-QTOF-MS

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Two microliters of metabolic extract were analyzed according to a previously described method [23 (link)]. A reversed-phase column (Zorbax SB-Aq 2.1 × 50 mm, 1.8 µm particle size, Agilent Technologies, CA, USA) with a pre-column (Zorbax SB-C8 Rapid Resolution Cartridge, 2.1 × 30 mm, 3.5 µm particle size, Agilent Technologies, CA, USA) set at 60 °C was used for chromatographic separation [23 (link)]. Afterwards, electrospray ionization was made in positive and negative ion modes using N2 at a pressure of 50 psi for the nebulizer with a flow of 12 L/min and a temperature of 325 °C.
The analysis was performed using a UHPLC 1290 model coupled to a Q-TOF 6545 instrument (Agilent Technologies, CA, USA) as previously described [23 (link)], and data were collected using the MassHunter Data Analysis Software (Agilent Technologies, CA, USA).
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9

Synthesis and Characterization of Organometallic Compounds

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All reagents were commercially available and used as supplied without further purification. Deuterated solvents were purchased from Cambridge Isotope Laboratory (Andover, MA). Compound 139 (link), 240 (link), 439 (link), 540 (link) was prepared according to the published procedures. 1H NMR, 31P{1H} NMR spectra and 2D COSY NMR spectra were recorded on Bruker AVANCE III HD 400 MHz spectrometer and Bruker AVANCE III HD 600 MHz spectrometer. 1H NMR chemical shifts are reported relative to residual solvent signals. Mass spectra were recorded on the Micromass Quattro II triple-quadrupole mass spectrometer using electrospray ionization, Thermo Scientific Q Exactive mass spectrometer using electrospray ionization and Agilent 6545 Q-TOF using electrospray ionization. The single crystals data were collected on a Nonius KappaCCD diffractometer equipped with Mo K-alpha radiation (λ = 0.71073 Å) and a BRUKER APEXII CCD.
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10

UHPLC-HRMS Analysis of Compound 2

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Ultra-high performance liquid chromatography-high-resolution mass spectrometry (UHPLC-HRMS) was realized on Agilent 1290 Infinity II UHPLC (Agilent Technologies) with diode array detector (DAD) coupled to an Agilent 6545 QTOF with an electrospray ionization source. Analyses were performed in negative and positive ion mode. Compound 2 was prepared at 250 uM in ethanol and 1 μL was used for injection. The analyses were performed on a reversed-phase column Agilent Poroshell 120 Phenyl Hexyl column (150 × 2.1 mm, 1.9 µm), using water/acetonitrile mobile phase, both containing formic acid at 20 mM (phase A/B respectively). Phase B increased from 10% to 100% in 10 min, then held at 100% B for 2 min, returned to 10% in 0.1 min, and equilibrated for 2 min at a flow rate of 350 µL/min, and column temperature of 40 °C.
The raw data were processed by MassHunter workstation software (Agilent Technologies), Qualitative Analysis (version B.07.00).
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