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5 protocols using 4 4 dimethyl 4 silapentane 1 sulfonic acid dss

1

Optimized LC-MS Sample Preparation

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Optima (ThermoFisher Scientific) LC–MS grade water and acetonitrile were used to prepare all mobile-phase components. Ammonium acetate (Sigma, molecular biology grade) and ammonium hydroxide 28–30% solution (Fisher Chemical) were used as additives for mobile phases. For NMR samples, D2O and 4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS) were obtained from Cambridge Isotope Laboratories (Andover, MA, USA).
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2

Peptide Purification and Characterization

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Peptides were commercially synthesized from GL-Biochem (Shanghai, China). Crude peptides were subjected to purification by reverse phase HPLC Waters™ using a C4 column (300 Å pore size, 5 μM particle size). A linear gradient of acetonitrile/water (both solutions containing 0.1% v/v TFA) was used to elute the peptides while maintaining a constant flow rate of 2 mL min–1. The major sharp peak fraction obtained was then pooled and lyophilized. The masses of the peptides were confirmed by mass spectrometry. DPC and deuterated compounds (DPC-d38, D2O) were purchased from Avanti polar lipids (Alabama, USA) and Cambridge Isotope Laboratories Inc. (Massachusetts, USA), respectively. 16-DSA was obtained from Sigma (St. Louis, MO, USA). 4,4-Dimethyl-4-silapentane-1-sulfonic acid (DSS) was acquired from Cambridge Isotope Laboratories Inc. (Massachusetts, USA). Other chemicals including sodium dithionite, hemin, ABTS, and cytochrome c were of analytical grade and purchased from Sigma-Aldrich.
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3

Synthesis and Characterization of Deuterated Compounds

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Synthetic peptides were purchased commercially from GL-Biochem (China) with purity of > 98%. Deuterated compounds (DPC-d38 and D2O) and 4, 4-dimethyl-4-silapentane-1-sulfonic acid (DSS) were obtained from Cambridge Isotope Laboratories, Inc. (Massachusetts, USA). Paramagnetic lipids, 5-DSA and 16-DSA (doxyl stearic acid) were purchased from Sigma-Aldrich (St. Louis, MO, USA).
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4

Solid-Phase Synthesis and Purification of Peptides

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The parent peptide, TK9 and its shorter fragments (Scheme 1) were synthesized on a solid phase peptide synthesizer (Aapptec Endeavor 90) using Fmoc protected amino acids and Rink Amide MBHA resin (substitution 0.69 mmol/g; Novabiochem, San Diego, California) by following a solid phase peptide synthesis protocol described elsewhere.17 ,18 (link) All the crude peptides were further purified by reverse phase HPLC (SHIMADZU, Japan) using a Phenomenix C18 column (dimension 250 × 10 mm, pore size 100 Å, 5-μm particle size) by linear gradient elution technique using Water and Methanol as solvent both containing 0.1% TFA as the ion pairing agent. The purity and molecular weight of the eluted peptides were confirmed by MALDI-TOF (Bruker, Germany). 4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS) and deuterium oxide (D2O) were purchased from Cambridge Isotope Laboratories, Inc. (Tewksbury, MA). Thioflavin T dye was purchased from Sigma Aldrich (St. Louis, MO). Throughout the experiment HPLC grade water was used for sample preparation. hIAPP was purchased from Genscript (Piscataway, NJ). hIAPP was prepared by dissolving the peptide in hexafluoroisopropanol (Sigma Aldrich) followed by lyophilization. Peptide stock was dissolved in 100 μM HCl (pH 4), sonicated for 1 min, diluted into the appropriate buffer system and kept on ice until use.
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5

Synthesis and Characterization of Biomolecules

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Oligonucleotides were purchased from Integrated DNA Technologies. NEB Turbo competent E. coli, restriction endonucleases, DNA polymerases and Gibson Assembly Master Mix were purchased from New England Biolabs. Media for bacterial cell culture were purchased from Fisher Scientific. Isopropyl β-d-1-thiogalactopyranoside (IPTG) and kanamycin monosulfate were purchased from GoldBio. DNA sequencing was performed by ACGT Inc. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI ToF MS) was conducted at the Mass Spectrometry Laboratory (UIUC) using ZipTip C18 (Millipore) for desalting of peptides and 2,5-dihydroxybenzoic acid (Sigma Aldrich) as matrix on a Bruker UltraFlextreme or Autoflex instrument. NMR solvents used were deuterium oxide spiked with 4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS) (1 mL ampule, Cambridge Isotope Laboratories) and CD3OH (Sigma Aldrich).
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