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Phenylmethanesulfonyl fluoride pmsf

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Phenylmethanesulfonyl fluoride (PMSF) is a protease inhibitor commonly used in laboratory research. It functions by irreversibly inhibiting serine proteases, which are enzymes that cleave peptide bonds in proteins. PMSF is a useful tool for preserving protein structure and activity in biological samples.

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6 protocols using phenylmethanesulfonyl fluoride pmsf

1

Protein Extraction and Purification Protocol

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The urea was purchased from Amresco (Solon, OH, USA). Thiourea was purchased from Pharmabiology. DL-dithiothreitol (DTT), ethylene diamine tetraacetic acid (EDTA), sodium dodecyl sulfate (SDS), and Tris base were purchased from Solarbio (Shanghai, China). Phenylmethanesulfonyl fluoride (PMSF) and protein marker was purchased from Thermo Fisher Scientific (Waltham, MA, USA). Iodoacetamide (IAM) was purchased from Aladdin (Shanghai, China). HPLC-grade acetone, acetonitrile, and formic acid were purchased from TEDIA Company Inc (Fairfield, OH, USA). Cellulose, pectolyase, and macerozyme were purchased from Sigma-Aldrich (St. Louis, MO, USA). Mannitol and other common chemicals and reagents were obtained from the Shanghai Sangon Biotech Company (Shanghai, China). Protein Assay Dye Reagent Concentrate was purchased from Bio-Rad (Hercules, CA, USA). An SDS-PAGE gel preparation kit was purchased from Beyotime (Shanghai, China). Ultrafilter (10 kD) was purchased from Merck-Millipore (Darmstadt, Germany). Milli-Q water was used in all experiments.
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2

Gallic Acid Effects on LDL Metabolism

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Gallic acid (GA) (HPLC ≥ 98%) from Shanghai yuanye Bio-Technology Co., Ltd., Shanghai, China; Trypsin–EDTA (0.25%), penicillin–streptomycin, phenylmethanesulfonyl fluoride (PMSF), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT), and Trizol reagent from Thermo Fisher Scientific, Shanghai, China; Dulbecco’s modified Eagle’s medium (DMEM) and Fetal Bovine Serum (FBS) from MeilunBio; 4′,6-diamidino-2-phenylindole (DAPI) and Human 1,1′-dioctadecyl-3,3,3′,3′-tetramethylindocarbocyanide perchlorate–low-density lipoprotein (Human Dil-LDL) from Yeasen Biotechnology (Shanghai) Co., Ltd., Shanghai, China; SYBR Green real-time PCR Master Mix from Takara Biomedical Technology (Beijing) Co., Ltd., Beijing, China; Kit for the nuclear extraction of the cell from Beijing Solarbio Science & Technology Co., Ltd., Beijing, China; BCA Protein Reagent from Shanghai Beyotime Biotechnology Co., Ltd., Shanghai, China; anti-LDLR, ERK1/2, phospho-ERK1/2, EGFR, phospho-EGFR, and β-tubulin from HuaBio, Hangzhou, China; and Anti-PCSK9, HNF1α, FOXO3, and SREBP-2 from Wuhan ABclonal Biotechnology Co., Ltd., Wuhan, China.
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3

Preparation and Analysis of Cellular Lysates

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Total cell lysates were prepared in a buffer containing 50 mM Tris-HCl (pH 7.8; Thermo Fisher Scientific), 137 mM NaCl (Thermo Fisher Scientific), 10 mM NaF (Thermo Fisher Scientific), 1 mM EDTA (Thermo Fisher Scientific), 1% Triton X-100 (Thermo Fisher Scientific), 10% glycerol (Thermo Fisher Scientific), and the protease inhibitor cocktail (Roche) through 3 freeze/thaw cycles. Tissue lysates were prepared by homogenizing in a buffer containing 50 mM Tris (pH 7.6; Thermo Fisher Scientific), 130 mM NaCl (Thermo Fisher Scientific), 5 mM NaF (Thermo Fisher Scientific), 25 mM β-glycerophosphoate (Thermo Fisher Scientific), 1 mM sodium orthovanadate (Thermo Fisher Scientific), 10% glycerol (Thermo Fisher Scientific), 1% Triton X-100 (Thermo Fisher Scientific), 1 mM dithiothreitol (Thermo Fisher Scientific), 1 mM phenylmethanesulfonyl fluoride (PMSF) (Thermo Fisher Scientific), and the protease inhibitor cocktail (Roche). After centrifugation (12,000g, 4°C for 10 minutes), tissue lysates were separated on SDS-polyacrylamide gel (SDS-PAGE) and analyzed using the following antibodies: rabbit anti-UCP1 (UCP11-A, Alpha Diagnostic), rabbit anti-HSP90 (sc-7947, Santa Cruz Biotechnology Inc.), rabbit anti–phospho-PKA substrate (9624, Cell Signaling Technology), rabbit anti-TH (ab112, Abcam), and mouse anti-tubulin (sc-32293, Santa Cruz Biotechnology Inc.).
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4

Protein Extraction and Immunoblotting from MC3T3-E1 Cells

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Protein was extracted from MC3T3-E1 cells and immunoblotting performed as previously described (Pan et al., 2012 (link)). Cells were lysed in radioimmunoprecipitation assay (RIPA) buffer (50 mM Tris Base, 150 mM NaCl, 1 mM EDTA, 1% Triton X-100, 0.1% SDS, 1% NP-40, pH = 7.4) with 1% protease inhibitor (Calbiochem, CA, USA) and phenylmethane sulfonyl fluoride (PMSF) (Thermo Fisher Scientific, MA, USA) freshly added on the day of the experiment (Calbiochem, Gibbstown, NJ, USA). The harvested protein was incubated on ice for 5 min before centrifuging at 13,000 rpm for 5 min at 4 °C. Total protein concentration was determined with a Nanodrop 2000C Spectrophotometer (Thermo Fisher Scientific, MA, USA) using a bovine serum albumin (BSA) standard curve (Sigma-Aldrich, MO, USA). The expression of FoxO3a, RXRα, VDR and myc was assessed by Western blotting with anti-FoxO3a (D19A7) rabbit mAb (Cell Signaling, MA, USA), anti-retinoid receptor alpha (RXRα) (Abcam, MA, USA), anti-vitamin D receptor (VDR) (Abcam, MA, USA) and anti-c-Myc (Y69) rabbit mAb (Cell Signaling, MA, USA). For internal control, blots were stripped and blotted for β-actin (Santa Cruz Biotechnology, Santa Cruz, CA). Quantification of relative band intensity was performed with Image J Software and Image Lab™ software (Biorad, CA, USA).
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5

Xenopus and Drosophila Cell Extraction

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Xenopus CSF and interphase extracts were prepared as described (Castilho et al., 2009 (link)). HeLa cells were extracted in ice-cold phosphatase buffer (50 mM Tris, pH 7.5, 150 mM NaCl, 1 mM EDTA, 0.1 mM EGTA, 0.25% NP-40) according to Singh et al. (2010) (link), or M-PER mammalian cell lysis buffer (Thermo Scientific, Rockford, IL) with the same results. A 1:100 dilution of EDTA-free Proteoblock protease inhibitor (Thermo Scientific) was added to both extraction buffers. Drosophila whole larvae or larval brains were homogenized with a pestle in phosphatase buffer as above, to which was added a 1:100 dilution of phenylmethanesulfonyl fluoride (PMSF; Thermo Scientific), a 1:50 dilution of Halt protease inhibitor cocktail (Thermo Scientific), and a 1:100 dilution of a 100 mg/ml stock solution of soybean trypsin inhibitor (AMRESCO, Solon, OH; catalog number M191).
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6

Synthesis and Purification of ATG16L1

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The labeled, Rho-ATG16L1-N (TAMRA-PRWKRHISEQL RRRDRLQRQAFEEIILQYNKLL), and unlabeled, AT G16L1-N (PRWKRHISEQLRRRDRLQRQAFEEIILQYN KLL), α-helical segment of ATG16L1 (residues 11-43) was purchased through the University of Illinois at Chicago (UIC) Research Resources Center (RRC, Chicago, IL); the labeled peptide is tagged with 5,6-carboxytetramethylrhodamine on the N-terminus of the α helix (no linker), and the final product was obtained in ≥90% purity. 10 Isopropyl-β-D-thiogalactoside (IPTG; cat. no. I6758, Sigma-Aldrich, St. Louis, MO), Na 2 PO 4 (cat. no. BP331, Thermo Fisher Scientific, Waltham, MA), NaCl (cat. no. 0241, VWR, Radnor, PA), imidazole (cat. no. I2399, Sigma-Aldrich), 2-mercaptoethanol (cat. no. O3446I, Thermo Fisher Scientific), phenylmethanesulfonyl fluoride (PMSF; cat. no. P7626, Sigma-Aldrich), Triton X-100 (cat. no. 0694, VWR), 1× phosphate-buffered saline (PBS; cat. no. 21-040-CM, Corning, Corning, NY), DMSO (cat. no. 25-950-CQC, Corning), and Tween 20 (cat. no. M147, Amresco, Solon, OH) were also used.
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