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Dd2 600 nmr spectrometer

Manufactured by Agilent Technologies

The DD2 600 NMR spectrometer is a high-performance nuclear magnetic resonance (NMR) instrument designed for advanced analytical applications. It operates at a frequency of 600 MHz and is capable of providing detailed information about the structure and composition of chemical compounds.

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4 protocols using dd2 600 nmr spectrometer

1

Evaluating Wood Delignification and Dissolution

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Wood
delignification and IL-facilitated partial dissolution were verified
with a Thermo Scientific Nicolet iS50 FTIR spectrometer with an attenuated
total reflectance (ATR) diamond (Thermo Scientific, USA). All spectra
were collected in the absorption mode in the 400–4000 cm–1 wavelength range from 32 scans with a resolution
of 4 cm–1. The 13C cross polarization
(CP) magic angle spinning (MAS) NMR measurements were performed using
an Agilent DD2 600 NMR spectrometer with a magnetic flux density of
14.1 T, equipped with a 3.2 mm T3 MAS NMR probe operating in a double-resonance
mode. Samples were packed in ZrO2 rotors, and the MAS rate
in experiments was set to 10 kHz. A total of 14,000 scans were accumulated
using a 1.3 ms contact time and a 5.0 s delay between successive scans.
Protons were decoupled during acquisition using SPINAL-64 proton decoupling
with a field strength of 80 kHz. 90° pulse durations and Hartmann–Hahn
match for CP were calibrated using a-glycine. The spectra were processed
using TopSpin 3.5 software. The changes in the crystallinity of the
wood after delignification and partial dissolution with the IL were
estimated from signal areas of the cellulose C4 carbon
signals originating from crystalline (89.0–84.4 ppm) and noncrystalline
(84.4–77.3 ppm) regions. Signal areas were determined by integration.
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2

In vitro Enzymatic Methylation Assay

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In a 500 μL reaction mixture, 50 mM potassium phosphate pH 8.0, 10 mM MgCl2, 2 mM L-arginine, 4 mM S-(5′-Adenosyl)-L-methionine (SAM), and 5 μM of SznE were mixed and incubated overnight at room temperature. Negative control assays omitting SAM, L-arginine, or SznE in the reaction were also performed. The reaction mixtures were flash frozen with liquid N2 and lyophilized. The residues were resuspended in D2O (Cambridge Isotope Inc.) and analyzed with proton nuclear magnetic resonance (1H NMR) spectroscopy using an Agilent DD2–600 NMR spectrometer (600 MHz). Chemical shifts (δ) are reported in parts per million (ppm) downfield from tetramethylsilane using the solvent resonance as an internal standard for 1H (D2O = 4.79 ppm). This experiment was performed in triplicate.
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3

In vitro Enzymatic Methylation Assay

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In a 500 μL reaction mixture, 50 mM potassium phosphate pH 8.0, 10 mM MgCl2, 2 mM L-arginine, 4 mM S-(5′-Adenosyl)-L-methionine (SAM), and 5 μM of SznE were mixed and incubated overnight at room temperature. Negative control assays omitting SAM, L-arginine, or SznE in the reaction were also performed. The reaction mixtures were flash frozen with liquid N2 and lyophilized. The residues were resuspended in D2O (Cambridge Isotope Inc.) and analyzed with proton nuclear magnetic resonance (1H NMR) spectroscopy using an Agilent DD2–600 NMR spectrometer (600 MHz). Chemical shifts (δ) are reported in parts per million (ppm) downfield from tetramethylsilane using the solvent resonance as an internal standard for 1H (D2O = 4.79 ppm). This experiment was performed in triplicate.
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4

Fluorine-19 NMR Characterization of XLF Peptide Binding

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Fluorine-19 NMR studies were performed on an Agilent DD2 600 NMR spectrometer operating at a 19F frequency of 564.279 MHz. Measurements were performed at 25 °C using a triple resonance 1H–19F (1H–19F, 13C) 5 mm PFG variable temperature probe. 0.2 mM of either xlKu80 vWA, or the muted xlKu80 vWA(S229A) form of protein was titrated with fluorinated XLF KBMX peptide: KPKKKAKGLF*M, where F* = 4-fluoro-L-phenylalanine. The NMR buffer contained 150 mM NaCl, 25 mM HEPES pH 7.5, 1 mM TCEP, 1 mM EDTA, and 10 % D2O. Protease inhibitor cocktail (Ameresco) was added to our peptide stock solution to protect the peptide from proteolysis. Fluorine-19 chemical shifts are referenced to external TFA, using 0.2 mM 4-fluorobenzamide (Sigma-Aldrich) as an internal standard (δ = −34.9 ppm).
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