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4 protocols using ube2s

1

Ubiquitin Conjugation Pathway Characterization

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Ubiquitin, Fluorescein isothiocyanate (FITC)-labeled Ubiquitin, and ATP were purchased from ThermoFisher. UBE2D3, UBE2R2, UBE2S, UBE2L3, and UBE2E1 were purchased from R&D Systems. Primary antibodies for UBA1a/b (Cell Signaling, 4891S), Poly-Ubiquitin (Cell Signaling, 3936S), UBE2C (Proteintech, 66087-1-Ig), UBE2D3 (Cell Signaling, 4330S), and UBE2R2 (Proteintech,14077-1-AP), and β-actin (Cell Signaling, 4970) were used at a concentration of 1:1000 and visualized using HRP-conjugated secondary antibodies (anti-rabbit [Cell Signaling, 7074S] or anti-mouse [Cell Signaling, 7076S]) at a concentration of 1:1000. HRP-conjugated antibodies were visualized with Immobilon Western Chemiluminescent HRP Substrate (Millipore, WBKLS0500).
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2

Ubiquitin Conjugation Pathway Analysis

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Ubiquitin, Fluorescein isothiocyanate (FITC)-labeled Ubiquitin, and ATP were purchased from ThermoFisher. UBE2D3, UBE2R2, UBE2S, UBE2L3, and UBE2E1 were purchased from R&D systems. Primary antibodies for UBA1a/b (Cell Signaling, 4891S), Poly-Ubiquitin (Cell Signaling, 3936S), UBE2C (Proteintech, 66087–1-Ig), UBE2D3 (Cell Signaling,4330S), and UBE2R2 (Proteintech,14077–1-AP), and β-actin (Cell Signaling, 4970) were used at a concentration of 1:1000 and visualized using HRP-conjugated secondary antibodies (anti-rabbit [Cell Signaling, 7074S] or anti-mouse [Cell Signaling, 7076S]) at a concentration of 1:1000. HRP-conjugated antibodies were visualized with Immobilon Western Chemiluminescent HRP Substrate (Millipore, WBKLS0500).
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3

In Vitro Ubiquitination Assay

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In vitro ubiquitination assays were performed as previously described with slight modifications (Oh et al., 2020) (link). The assays were carried out in a 20 μL reaction volume, and components of complete reactions included: 0.5 μL of 5 μM UBE1 (125 nM final, R&D Systems), 1 μL of 10 μM UBE2S (0.5 μM final, R&D Systems), 1 μL of 10 μM UBE2C (0.5 μM final, R&D Systems), 1 μL of 10 mg/mL His-TEV-ubiquitin (0.5 μg/μL final, prepared as described below), 2 µL of 0.5 mg/mL securin (0.5 μg/μL final, Abcam), 1 µL of 100 μM DTT, 1.5 μL of energy mix (150 mM creatine phosphate, 20 mM ATP, 20 mM MgCl2, 2 mM EGTA, pH to 7.5), 2 µL of 10X assay buffer (500 mM NaCl, 100 mM MgCl2 and 250 mM Tris pH 7.5), 5 μL of PAC/C coupled resin and 5 µL of 1X PBS. For control reactions that lacked a certain component, the mixture was supplemented accordingly with 1X PBS. Reactions were performed at 30 ºC with shaking for 30 min and stopped by addition of 6X Laemmli Buffer and incubation at 95 ºC for 5 min. Samples were analyzed by SDS-PAGE and Western blot.
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4

Comprehensive Cell Signaling Assays

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Lipofectamine 2000, Invitrogen (11668019); Lipofectamine RNAiMAX, Invitrogen (13778150); Polybrene Infection/Transfection Reagent, Sigma-Aldrich (TR-1003); GFP-Trap magnetic agarose, ChromoTek (gtma-20); Trypsin Gold Mass Spectrometry Grade, Promega (V5280); Protein G Sepharose, BioVision (6511); Thymidine, Chem-Impex (00306); Propidium iodide, Sigma-Aldrich (P4170); RNase A, Research Products International (R21750); Nocodazole, AdipoGen (AG-CR1-0019); (+)-S-Trityl-L-cysteine, Alfa Aesar (L14384); Puromycin dihydrochloride, Sigma-Aldrich (P8833); Blasticidin S hydrochloride, 10 mg/ml in HEPES buffer, Alfa Aesar (J67216); Hygromycin B, 50 mg/mL in PBS, Invitrogen (10687010); cOmplete Protease Inhibitor Cocktail, Roche (5056489001); Sodium β-glycerophosphate pentahydrate, Alfa Aesar (L03425); Sodium fluoride, Chem-Impex (01523); Sodium pyrophosphate decahydrate, Fisher (S390); Sodium orthovanadate, MP Bio (0215966410); UBE1, R&D Systems (E-304); UBE2C, R&D Systems (E2-654); UBE2S, R&D Systems (E2-690); securin, Abcam (ab87664); D-biotin, Chem-Impex (00033); Streptavidin Alexa Fluor 568, Invitrogen (S11226); Pierce™ High Capacity Streptavidin Agarose, Thermo Fisher (20359); Streptavidin-conjugated HRP, GeneTex (GTX85912); ProLong™ Diamond Antifade Mountant with DAPI, Thermo Fisher (P36971); Clarity™ Western ECL Substrate, Bio-Rad (1705061).
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