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Tpck treated trypsin from bovine pancreas

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TPCK-treated trypsin from bovine pancreas is a proteolytic enzyme used in cell culture and protein research applications. It is derived from bovine pancreas and has been treated with TPCK (N-Tosyl-L-phenylalanine chloromethyl ketone) to inactivate chymotrypsin activity. The core function of this product is to facilitate cell dissociation and protein digestion.

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9 protocols using tpck treated trypsin from bovine pancreas

1

RIG-I Activation by Poly(I:C) Binding

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A total of 2.7 µg RIG-I in the absence or presence of different lengths of poly (I:C) (2.7 µg) was incubated at 37 °C for 30 min (10 µl) and then treated with 165 ng TPCK-treated trypsin from bovine pancreas (Sigma Aldrich) at 37 °C for 5 min. Trypsin digestion was terminated by adding 2 × SDS sample buffer and boiling for 5 min. The samples were subjected to SDS-PAGE followed by immunoblotting with anti-human RIG-I monoclonal antibody (clone N3514, epitope: aa218-792)10 (link). The membranes were cut as proper size prior to immunoblotting with the antibody.
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2

Purification and Activation of Protein Toxins

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Each toxin variant was cultured in 50 ml of LB (plus 1 mM IPTG and 100 μg/ml ampicillin) at 37 °C, 240 rpm for 16 h. The culture was pelleted and resuspended in 1 ml of lysis buffer (50 mM Tris HCl pH 8, 500 mM NaCl, 10 mM EDTA, 5 mM β-mercaptoethanol, 0.35 mg/ml lysozyme and 5% v/v triton) and incubated for 30 min at RT. Then, 10 μg/ml DNase (Sigma), 10 μg/ml RNase (Sigma) and 6 mM MgCl2 were added and incubated for a further 20 min. The cell suspension was sonicated on ice (Sonifier® SLP) for 6 min with cycles (10 s on/10 s off) at full power. The homogenate was centrifuged at 12000 × g for 20 min and the supernatant discarded. The pellets were resuspended in 500 µl of 50 mM Na2CO3 pH 9.6 and 10 mM DTT, incubated for 1 h at 37 °C, centrifuged and supernatant saved. For activation, solubilized protein was digested with TPCK-treated trypsin from bovine pancreas (Sigma) at a ratio of 1:1 (w/w) at 37 °C for 1 h. Protein samples were analysed by SDS-PAGE (12%, Coomassie blue stained). Total protein content was determined by the Bradford method. Single protein content was estimated using a ChemiDoc equipment (Bio-Rad) on SDS-PAGE gels using BSA as standards.
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3

Somatostatin Digestion and Analysis

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Somatostatin 1–14 was purchased from American Peptide Company (Sunnyvale, CA). TPCK-treated trypsin from bovine pancreas, pepsin from porcine gastric mucosa, insulin from bovine pancreas, α-lactalbumin from bovine milk (type III, calcium depleted), formic acid (FA) and HPLC-grade acetonitrile (ACN) were all purchased from Sigma-Aldrich (St. Louis, MO). HPLC-grade methanol was obtained from Fisher Scientific (Fairlawn, NJ) and deionized water used for sample preparation was obtained using a Nanopure Diamond Barnstead purification system (Barnstead International, Dubuque, IA).
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4

Epsilon Protoxin Activation and Bacillus Anthracis PA83

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Epsilon protoxin15 (link) was activated with TPCK-treated trypsin from bovine pancreas (Sigma-Aldrich Company Ltd) for 1 hour at room temperature. Bacillus anthracis–protective antigen (PA83) was kindly provided by Dr ED Williamson (Dstl Porton Down).
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5

Peptide Synthesis and Characterization

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Methanol, ammonium hydroxide and glacial acetic acid were purchased from Mallinckrodt (Phillipsburg, NJ). The peptides ARAAARA, AKAAARA, AKAAAKA, AHARAHARA, ARAMAKA, HGAGGHGAGGHL, AAEAAEAA and AADAADAA were custom synthesized by NeoBioLab (Cambridge, MA). The peptides ARACAKA, ARAWAKA were synthesized by Pepnome Ltd. (Shenzhen, China). The peptides GRGDSPR, LKRApYLG, LKRApYGL-NH2 were custom synthesized by AnaSpec Inc. (San Jose, CA). The peptide GLSDGEWQQVLNVWGK was purchased from SynPep (Dublin, CA). Woodward’s reagent K, Angiotensin II (sequence: DRVYIHPF), ubiquitin from bovine erythrocytes, α-casein from bovine milk, TPCK-treated trypsin from bovine pancreas, peptide RPKPQQFFG, acetyl chloride and ethylamine were obtained from Sigma-Aldrich (St. Louis, MO). The reagent 1-ethyl-3-(3-dimethylaminopropyl)-carbodiimide (EDC) was purchased from Thermo Fisher Scientific (Rockford, IL). All materials were used without further purification. All peptide solutions for positive electrospray were prepared in 49.5/49.5/1 (v/v/v) Methanol/water/acetic acid (~10 μM), and all peptide solutions for negative electrospray were prepared in 49.5/49.5/1 (v/v/v) Methanol/water/ammonium hydroxide (~10 μM). The wrk reagent was dissolved in water (~2 mM), and a new solution was made before each experiment.
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6

Purification of Bt Cry1Ac and Cry1AcMod Toxins

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Bt HD73 expressing Cry1Ac or Bt 407 expressing Cry1AcMod36 (link) were grown at 30 °C until complete sporulation (3 to 4 days) in nutrient broth sporulation medium. In the case of Cry1AcMod the medium was supplemented with erythromycin at 10 μg ml−1. Spores/crystals were washed twice in 300 mM NaCl, 10 mM EDTA. Crystal inclusions were solubilized in an alkaline buffer (50 mM Na2CO3, 0.2% β-mercaptoethanol, pH 10.5) for 2 h at 37 °C. Trypsin activated toxins were obtained by treatment of soluble protoxin with trypsin (TPCK treated trypsin from bovine pancreas, SIGMA Aldrich, St. Louis, MO) in a mass ratio of 1:50 (trypsin: toxin) for 2 h at 37 °C after lowering the pH to 8.5 by adding 1:4 (w/w) of 1 M Tris buffer pH 8.5. Phenylmethylsulfonyl fluoride (PMSF) (1 mM final concentration) was added to stop proteolysis. Activated proteins were purified by anion exchange chromatography Mono Q-Sepharose fast flow (GE Healthcare, Little Chalfont, UK) in an AKTA FPLC System (GE Healthcare, Little Chalfont, UK), using a 50 mM Tris-HCl, 50 mM NaCl, pH 8.5 buffer, and a linear NaCl concentration gradient from 50 to 300 mM. Protein concentrations were determined by the method of Bradford, using bovine serum albumin as a standard.
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7

Purification of Bt Toxin Proteins

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Bt HD73 expressing Cry1Ac or Bt 407 expressing Cry1AcMod [31 (link)] were grown at 30°C until complete sporulation (3 to 4 days) in nutrient broth sporulation medium. In the case of the Bt strain producing Cry1AcMod the medium was supplemented with erythromycin at 10 μg ml-1. Spores/crystals were washed twice in 300 mM NaCl, 10 mM EDTA. Crystal inclusions were solubilized in an alkaline buffer (50 mM Na2CO3, 0.2% β-mercaptoethanol, pH 10.5) for 2 h at 37°C. Trypsin activated toxins were obtained by treatment of soluble protoxin with trypsin (TPCK treated trypsin from bovine pancreas, SIGMA Aldrich, St. Louis, MO) in a mass ratio of 1:50 (trypsin: toxin) for 2 h at 37°C after lowering the pH to 8.5 by adding 1:4 (w/w) of 1 M Tris buffer pH 8.5. Phenylmethylsulfonyl fluoride (PMSF) (1 mM final concentration) was added to stop proteolysis. Activated proteins were purified by anion exchange chromatography Mono Q-Sepharose fast flow (GE Healthcare, Little Chalfont, UK) in an AKTA FPLC System (GE Healthcare, Little Chalfont, UK), using a 50 mM Tris-HCl, 50 mM NaCl, pH 8.5 buffer, and a linear NaCl concentration gradient from 50 to 300 mM. Protein concentrations were determined by the method of Bradford, using bovine serum albumin as a standard.
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8

Microsome Isolation and Analysis

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Microsomes were prepared from a culture of strain BY4741 grown to mid-log phase in YPD broth at 20°C as described in Brodsky et al. [71] (link). The microsomes were resuspended in B88 buffer (20 mM HEPES, pH 6.8, 250 mM sorbitol, 150 mM KOAc, 5 mM MgOAc) to an OD280 of 10. Sodium carbonate extractions were performed by incubating 50 µl of microsomes with 1 ml extraction buffer [200 mM Na2Co3 (pH 11.5), 10 mM DTT, Complete Mini, EDTA-free protease inhibitor cocktail (Roche), 0.5 M sucrose, 2% glycerol] on ice for 30 min. Samples were centrifuged at 230,000× g at 4°C for 1 hr, and the pellet was dissolved in 1× SDS loading buffer. Proteins in the supernatant were precipitated by incubation on ice for 30 min with trichloroacetic acid (TCA) added to a final concentration of 10%, followed by a 10-min centrifugation at 16,060× g at 4°C. The pellet was solubilized in 1× SDS loading buffer, and proteins separated on 10% SDS-PAGE gels were analyzed by western blot analysis, as described above.
Protease protection assays were performed by incubating 50 µl of microsomes with and without 1% Triton X-100 with 0.2 mg/ml TPCK-treated trypsin from bovine pancreas (Sigma) for 15 min on ice. The reactions were stopped by the addition of 5× SDS loading buffer. Ty1 Gag and Kar2-TAP were detected by western blot analysis, as described above.
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9

Liver Proteome Extraction and Digestion

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Liver tissues were homogenized in an ice-cold phosphate buffer saline (PBS) solution containing 8 M urea with 100 passes of a Wheaton homogenizer. Homogenate solution was collected, sonicated, and centrifuged at 13,000 rpm for 10 min (4°C). Supernatants were collected, aliquoted into ~50 μL portions, and stored at -80°C. Protein concentrations were determined using the BCA assay according to the manufacturer's instructions (Pierce Thermo, Rockford, IL, USA). Liver proteins (100 μg and 75 μg) were digested for each sample in cysDML and cPILOT experiments, respectively. After dilution to 1 μg/ μL, the liver proteins were denatured and reduced in 50 mM Tris buffer (pH = 8.2), 8 M urea, 10 mM dithiothreitol (DTT) for 1 h at 37°C. The resulting protein mixture was diluted 10fold with 20 mM Tris buffer (pH = 8.2). TPCK-treated trypsin from bovine pancreas (Sigma, St. Louis, MO, USA) was added to each sample in a 4% w/w enzyme/protein ratio and incubated at 37°C for 18 h. Samples were acidified with 0.5% formic acid, cleaned using Waters Oasis HLB C 18 cartridges, and lyophilized.
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