Virus:Article Title: TRIM21-dependent target protein ubiquitination mediates cell-free Trim-Away.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti-TRIM21 Cell Signaling Technology Cat# 92043; RRID:AB_2800177 Rabbit polyclonal anti-TFIIS Antigen: xlTFIIS full-length This paper; Pocono Rabbit Farm and Laboratory Custom Project 35585 Rabbit polyclonal anti-M.HpaII Larsen et al.34 N/A Rabbit polyclonal anti-PEX5 Romano et al.35 N/A Rabbit polyclonal anti-PNKP Stinson et al.17 N/A Rabbit polyclonal anti-FAF1 Kochenova et al.36 N/A Rabbit polyclonal anti-FAF1 Abcam Cat# ab202298 Rabbit polyclonal anti-UBXN7 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Heubes et al.37 N/A Rabbit polyclonal anti-UFD1 Heubes et al.37 N/A Rabbit polyclonal anti-AND1 Antigen: xlAND1 846-1127 This paper; Pocono Rabbit Farm and Laboratory Custom Projects 35808 and 35809 Rabbit polyclonal anti-TRAIP-C Dewar et al.38 N/A Rabbit polyclonal anti-TRAIP-I Antigen: xlTRAIP 336-351 This paper; Vivitide Custom Project 4961 Rabbit polyclonal anti-LacI Antigen: LacI-Bio This paper; BioGenes GmbH Custom Projects 28548 and 28549 Rabbit polyclonal anti-p97 Heubes et al.37 N/A Rabbit polyclonal anti-H3 Cell Signaling Technology Cat# 9715; RRID: AB_331563 Mouse monoclonal anti-Ub Santa Cruz Biotechnology Cat# sc-8017; RRID: AB_628423 Rabbit monoclonal anti-K48 polyubiquitin Cell Signaling Technology Cat# 8081; RRID: AB_10859893 Rabbit monoclonal anti-K63 polyubiquitin Abcam Cat# ab179434; RRID:AB_2895239 Goat Anti-Rabbit IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 111-035-003; RRID: AB_2313567 Mouse Anti-Rabbit IgG (L), HRPconjugated Jackson ImmunoResearch Cat# 211-032-171; RRID: AB_2339149 Rabbit Anti-Mouse IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 315-035-003; RRID: AB_2340061 Mouse Anti-Rabbit IgG (H+L), unconjugated Jackson ImmunoResearch Cat# 211-005-109; RRID: AB_2339147 Streptavidin (HRP) Abcam Cat# ab7403 Bacterial and virus strains E. coli OverExpressTM C41(DE3) Chemically Competent Cells Sigma Cat# CMC0017 Chemicals, peptides, and recombinant proteins NEBuilder HiFi DNA Assembly Master Mix New England Biolabs Cat# E2621L IPTG Sigma Cat# I5502 DTT Bio-Rad Cat# 1610611 cOmpleteTM EDTA-free Protease Inhibitor Cocktail Roche Cat# 11873580001 (Continued on next page) Cell Reports 42, 112125, February 28, 2023 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Lysozyme from chicken egg white Sigma Cat# L6876 Glutathione Sepharose 4B Cytiva Cat# GE17-0756-01 AminoLinkTM Coupling Resin Thermo Fisher Scientific Cat# 20382 DynabeadsTM Protein A Invitrogen Cat# 10001D BSA Fisher Scientific Cat# BP1600-100 Nocodazole Sigma Cat# M1404 ATP Sigma Cat# A5394 Phosphocreatine Sigma Cat# P6502 Creatine Phosphokinase Sigma Cat# C3755 MLN7243 Selleck Chemicals Cat# S8341 MG-262 R&D Systems Cat# I120200 NMS-873 Sigma Cat# SML1128 MLN4924 Active Biochem Cat# A-1139 Recombinant Human USP2 Catalytic Domain Protein, CF R&D Systems Cat# E-506 DynabeadsTM M-280 Streptavidin Invitrogen Cat# 11206D Proteinase K Roche Cat# 3115879001 [a-32P]dATP Perkin Elmer Cat# BLU512H500UC Recombinant Human Ubiquitin Protein, CF R&D Systems Cat# U-100H Recombinant Human Ubiquitin Activating Enzyme (UBE1), CF R&D Systems Cat# E-305 Recombinant Human His6-UBE2W Isoform 1 Protein, CF R&D Systems Cat# E2-740 Recombinant Human His6-UBE2N (Ubc13)/Uev1a Complex, CF R&D Systems Cat# E2-664 Recombinant Human UbcH5b/UBE2D2 Protein, CF R&D Systems Cat# E2-622 Apyrase New England Biolabs Cat# M0398L Critical commercial assays Reductive Alkylation Kit Hampton Research Cat# HR2-434 TnT SP6 High-Yield Wheat Germ Protein Expression System Promega Cat# L3260 Experimental models: Organisms/strains Xenopus laevis (females) Nasco Cat# LM0053MX Xenopus laevis (males) Nasco Cat# LM00715MX Recombinant DNA pOPINK Ray Owens Addgene Cat# 41143 HLTV-hTRIM21 Clift et al.9 Addgene Cat# 104973 pTM192_pOPINK_hTRIM21R-R-PS This paper N/A pTM193_pOPINK_UbWT-hTRIM21R-R-PS This paper N/A pTM216_pOPINK_h TRIM21R-R-PS_K251only (referred to as DK) This paper N/A pTM231_pOPINK_UbK63R-hTRIM21R-R-PS This paper N/A pTM38_pOPINK_xlTFIIS This paper N/A pTM209_pOPINK_xlTFIIS_DK This paper N/A pOPINB-AMSH* Michel et al.39 Addgene Cat# 66712 pOPINB-OTUB1* Michel et al.39 Addgene Cat# 65441 16 Cell Reports 42, 112125, February 28, 2023
Recombinant:Article Title: TRIM21-dependent target protein ubiquitination mediates cell-free Trim-Away.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti-TRIM21 Cell Signaling Technology Cat# 92043; RRID:AB_2800177 Rabbit polyclonal anti-TFIIS Antigen: xlTFIIS full-length This paper; Pocono Rabbit Farm and Laboratory Custom Project 35585 Rabbit polyclonal anti-M.HpaII Larsen et al.34 N/A Rabbit polyclonal anti-PEX5 Romano et al.35 N/A Rabbit polyclonal anti-PNKP Stinson et al.17 N/A Rabbit polyclonal anti-FAF1 Kochenova et al.36 N/A Rabbit polyclonal anti-FAF1 Abcam Cat# ab202298 Rabbit polyclonal anti-UBXN7 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Heubes et al.37 N/A Rabbit polyclonal anti-UFD1 Heubes et al.37 N/A Rabbit polyclonal anti-AND1 Antigen: xlAND1 846-1127 This paper; Pocono Rabbit Farm and Laboratory Custom Projects 35808 and 35809 Rabbit polyclonal anti-TRAIP-C Dewar et al.38 N/A Rabbit polyclonal anti-TRAIP-I Antigen: xlTRAIP 336-351 This paper; Vivitide Custom Project 4961 Rabbit polyclonal anti-LacI Antigen: LacI-Bio This paper; BioGenes GmbH Custom Projects 28548 and 28549 Rabbit polyclonal anti-p97 Heubes et al.37 N/A Rabbit polyclonal anti-H3 Cell Signaling Technology Cat# 9715; RRID: AB_331563 Mouse monoclonal anti-Ub Santa Cruz Biotechnology Cat# sc-8017; RRID: AB_628423 Rabbit monoclonal anti-K48 polyubiquitin Cell Signaling Technology Cat# 8081; RRID: AB_10859893 Rabbit monoclonal anti-K63 polyubiquitin Abcam Cat# ab179434; RRID:AB_2895239 Goat Anti-Rabbit IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 111-035-003; RRID: AB_2313567 Mouse Anti-Rabbit IgG (L), HRPconjugated Jackson ImmunoResearch Cat# 211-032-171; RRID: AB_2339149 Rabbit Anti-Mouse IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 315-035-003; RRID: AB_2340061 Mouse Anti-Rabbit IgG (H+L), unconjugated Jackson ImmunoResearch Cat# 211-005-109; RRID: AB_2339147 Streptavidin (HRP) Abcam Cat# ab7403 Bacterial and virus strains E. coli OverExpressTM C41(DE3) Chemically Competent Cells Sigma Cat# CMC0017 Chemicals, peptides, and recombinant proteins NEBuilder HiFi DNA Assembly Master Mix New England Biolabs Cat# E2621L IPTG Sigma Cat# I5502 DTT Bio-Rad Cat# 1610611 cOmpleteTM EDTA-free Protease Inhibitor Cocktail Roche Cat# 11873580001 (Continued on next page) Cell Reports 42, 112125, February 28, 2023 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Lysozyme from chicken egg white Sigma Cat# L6876 Glutathione Sepharose 4B Cytiva Cat# GE17-0756-01 AminoLinkTM Coupling Resin Thermo Fisher Scientific Cat# 20382 DynabeadsTM Protein A Invitrogen Cat# 10001D BSA Fisher Scientific Cat# BP1600-100 Nocodazole Sigma Cat# M1404 ATP Sigma Cat# A5394 Phosphocreatine Sigma Cat# P6502 Creatine Phosphokinase Sigma Cat# C3755 MLN7243 Selleck Chemicals Cat# S8341 MG-262 R&D Systems Cat# I120200 NMS-873 Sigma Cat# SML1128 MLN4924 Active Biochem Cat# A-1139 Recombinant Human USP2 Catalytic Domain Protein, CF R&D Systems Cat# E-506 DynabeadsTM M-280 Streptavidin Invitrogen Cat# 11206D Proteinase K Roche Cat# 3115879001 [a-32P]dATP Perkin Elmer Cat# BLU512H500UC Recombinant Human Ubiquitin Protein, CF R&D Systems Cat# U-100H Recombinant Human Ubiquitin Activating Enzyme (UBE1), CF R&D Systems Cat# E-305 Recombinant Human His6-UBE2W Isoform 1 Protein, CF R&D Systems Cat# E2-740 Recombinant Human His6-UBE2N (Ubc13)/Uev1a Complex, CF R&D Systems Cat# E2-664 Recombinant Human UbcH5b/UBE2D2 Protein, CF R&D Systems Cat# E2-622 Apyrase New England Biolabs Cat# M0398L Critical commercial assays Reductive Alkylation Kit Hampton Research Cat# HR2-434 TnT SP6 High-Yield Wheat Germ Protein Expression System Promega Cat# L3260 Experimental models: Organisms/strains Xenopus laevis (females) Nasco Cat# LM0053MX Xenopus laevis (males) Nasco Cat# LM00715MX Recombinant DNA pOPINK Ray Owens Addgene Cat# 41143 HLTV-hTRIM21 Clift et al.9 Addgene Cat# 104973 pTM192_pOPINK_hTRIM21R-R-PS This paper N/A pTM193_pOPINK_UbWT-hTRIM21R-R-PS This paper N/A pTM216_pOPINK_h TRIM21R-R-PS_K251only (referred to as DK) This paper N/A pTM231_pOPINK_UbK63R-hTRIM21R-R-PS This paper N/A pTM38_pOPINK_xlTFIIS This paper N/A pTM209_pOPINK_xlTFIIS_DK This paper N/A pOPINB-AMSH* Michel et al.39 Addgene Cat# 66712 pOPINB-OTUB1* Michel et al.39 Addgene Cat# 65441 16 Cell Reports 42, 112125, February 28, 2023
Protease Inhibitor:Article Title: TRIM21-dependent target protein ubiquitination mediates cell-free Trim-Away.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit monoclonal anti-TRIM21 Cell Signaling Technology Cat# 92043; RRID:AB_2800177 Rabbit polyclonal anti-TFIIS Antigen: xlTFIIS full-length This paper; Pocono Rabbit Farm and Laboratory Custom Project 35585 Rabbit polyclonal anti-M.HpaII Larsen et al.34 N/A Rabbit polyclonal anti-PEX5 Romano et al.35 N/A Rabbit polyclonal anti-PNKP Stinson et al.17 N/A Rabbit polyclonal anti-FAF1 Kochenova et al.36 N/A Rabbit polyclonal anti-FAF1 Abcam Cat# ab202298 Rabbit polyclonal anti-UBXN7 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Kochenova et al.36 N/A Rabbit polyclonal anti-NPL4 Heubes et al.37 N/A Rabbit polyclonal anti-UFD1 Heubes et al.37 N/A Rabbit polyclonal anti-AND1 Antigen: xlAND1 846-1127 This paper; Pocono Rabbit Farm and Laboratory Custom Projects 35808 and 35809 Rabbit polyclonal anti-TRAIP-C Dewar et al.38 N/A Rabbit polyclonal anti-TRAIP-I Antigen: xlTRAIP 336-351 This paper; Vivitide Custom Project 4961 Rabbit polyclonal anti-LacI Antigen: LacI-Bio This paper; BioGenes GmbH Custom Projects 28548 and 28549 Rabbit polyclonal anti-p97 Heubes et al.37 N/A Rabbit polyclonal anti-H3 Cell Signaling Technology Cat# 9715; RRID: AB_331563 Mouse monoclonal anti-Ub Santa Cruz Biotechnology Cat# sc-8017; RRID: AB_628423 Rabbit monoclonal anti-K48 polyubiquitin Cell Signaling Technology Cat# 8081; RRID: AB_10859893 Rabbit monoclonal anti-K63 polyubiquitin Abcam Cat# ab179434; RRID:AB_2895239 Goat Anti-Rabbit IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 111-035-003; RRID: AB_2313567 Mouse Anti-Rabbit IgG (L), HRPconjugated Jackson ImmunoResearch Cat# 211-032-171; RRID: AB_2339149 Rabbit Anti-Mouse IgG (H+L), HRPconjugated Jackson ImmunoResearch Cat# 315-035-003; RRID: AB_2340061 Mouse Anti-Rabbit IgG (H+L), unconjugated Jackson ImmunoResearch Cat# 211-005-109; RRID: AB_2339147 Streptavidin (HRP) Abcam Cat# ab7403 Bacterial and virus strains E. coli OverExpressTM C41(DE3) Chemically Competent Cells Sigma Cat# CMC0017 Chemicals, peptides, and recombinant proteins NEBuilder HiFi DNA Assembly Master Mix New England Biolabs Cat# E2621L IPTG Sigma Cat# I5502 DTT Bio-Rad Cat# 1610611 cOmpleteTM EDTA-free Protease Inhibitor Cocktail Roche Cat# 11873580001 (Continued on next page) Cell Reports 42, 112125, February 28, 2023 15 .. REAGENT or RESOURCE SOURCE IDENTIFIER Lysozyme from chicken egg white Sigma Cat# L6876 Glutathione Sepharose 4B Cytiva Cat# GE17-0756-01 AminoLinkTM Coupling Resin Thermo Fisher Scientific Cat# 20382 DynabeadsTM Protein A Invitrogen Cat# 10001D BSA Fisher Scientific Cat# BP1600-100 Nocodazole Sigma Cat# M1404 ATP Sigma Cat# A5394 Phosphocreatine Sigma Cat# P6502 Creatine Phosphokinase Sigma Cat# C3755 MLN7243 Selleck Chemicals Cat# S8341 MG-262 R&D Systems Cat# I120200 NMS-873 Sigma Cat# SML1128 MLN4924 Active Biochem Cat# A-1139 Recombinant Human USP2 Catalytic Domain Protein, CF R&D Systems Cat# E-506 DynabeadsTM M-280 Streptavidin Invitrogen Cat# 11206D Proteinase K Roche Cat# 3115879001 [a-32P]dATP Perkin Elmer Cat# BLU512H500UC Recombinant Human Ubiquitin Protein, CF R&D Systems Cat# U-100H Recombinant Human Ubiquitin Activating Enzyme (UBE1), CF R&D Systems Cat# E-305 Recombinant Human His6-UBE2W Isoform 1 Protein, CF R&D Systems Cat# E2-740 Recombinant Human His6-UBE2N (Ubc13)/Uev1a Complex, CF R&D Systems Cat# E2-664 Recombinant Human UbcH5b/UBE2D2 Protein, CF R&D Systems Cat# E2-622 Apyrase New England Biolabs Cat# M0398L Critical commercial assays Reductive Alkylation Kit Hampton Research Cat# HR2-434 TnT SP6 High-Yield Wheat Germ Protein Expression System Promega Cat# L3260 Experimental models: Organisms/strains Xenopus laevis (females) Nasco Cat# LM0053MX Xenopus laevis (males) Nasco Cat# LM00715MX Recombinant DNA pOPINK Ray Owens Addgene Cat# 41143 HLTV-hTRIM21 Clift et al.9 Addgene Cat# 104973 pTM192_pOPINK_hTRIM21R-R-PS This paper N/A pTM193_pOPINK_UbWT-hTRIM21R-R-PS This paper N/A pTM216_pOPINK_h TRIM21R-R-PS_K251only (referred to as DK) This paper N/A pTM231_pOPINK_UbK63R-hTRIM21R-R-PS This paper N/A pTM38_pOPINK_xlTFIIS This paper N/A pTM209_pOPINK_xlTFIIS_DK This paper N/A pOPINB-AMSH* Michel et al.39 Addgene Cat# 66712 pOPINB-OTUB1* Michel et al.39 Addgene Cat# 65441 16 Cell Reports 42, 112125, February 28, 2023
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