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2 protocols using endo h treatment

1

Structural Characterization of eOD-GT8 and Fab Complex

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For crystallography, a minimally glycosylated eOD-GT8 [His6x-tagged eOD-GT8minglyc (16 (link))] was produced by transiently transfected 293S (GnTI−/−) cells and then purified using a HisTrap nickel column (GE Healthcare), followed by size exclusion chromatography using a Superdex75 column (GE Healthcare). The Fab constructs of the naive Abs were first affinity purified with human lambda resin (Life Technologies), followed by cation exchange chromatography (GE Healthcare). After incubating the purified Fab with a molar excess of purified eOD-GT8minglyc, the complex was deglycosylated by an Endo H treatment (New England Biolabs), followed by purification over Superdex200 size exclusion chromatography (GE Healthcare). The deglycosylated complex entered crystallization trials using an automated CrystalMation robotic system (Rigaku) at concentrations between 5 and 15 mg/ml. Crystals of the complex of the IOMA-class naive B cell CLK31 Fab with eOD-GT8minglyc (PDB ID: 6D2P; 2.60 Å resolution) were obtained at 20°C in a solution at pH 5.0 of 20% w/v PEG6000, and 0.1 M citric acid (pH 4.0). Crystals were cryoprotected in 25% glycerol followed by fast plunging in liquid nitrogen.
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2

Protein Extraction and Western Blot Analysis

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Cells were collected and lysed in 25 mM KPi buffer, pH 6.5 + 0.1% Triton X-100 including a cocktail of protease inhibitors (Roche). Protein concentration was determined using with the bicinchoninic acid protein assay (BCA) kit (Pierce). 10–20 μg total protein/sample was used for WB of protein levels or used for EndoH-treatment according to manufacturer's instructions (New England Biolabs). Western blots were quantified using the freeware program Fiji (an image processing package to ImageJ, https://fiji.sc/).
Antibodies used were: anti-GBA (# WH0002629M1, Sigma-Aldrich, RRID: AB_1841770), anti-Vinculin (# V9131, Sigma-Aldrich, RRID: AB_477629), anti-GRP78 (BiP) (# sc-13968, Santa Cruz Biotechnology, RRID: AB_2119991), anti-RPA (# sc-28709, Santa Cruz Biotechnology, RRID: AB_2238546), and anti-Beta actin (# A2066, Sigma-Aldrich, RRID: AB_476693).
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