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4 protocols using irdye 680cw anti rabbit

1

Antibody-Mediated Protein Interactome Analysis

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Antibodies used include: GSDMD Rabbit polyclonal Ab (Novus Biologicals, NBP2-33422), GSDMD Rabbit monoclonal Ab (Abcam, Ab209845), FLAG® M2 monoclonal Ab (Sigma, F3165), CARD8 C terminus Rabbit polyclonal Ab (Abcam, Ab24186), CARD8 N-terminal Rabbit polyclonal Ab (Abcam, Ab194585), GAPDH Rabbit monoclonal Ab (Cell Signaling Tech, 14C10), MTMR1 (Abcam, Ab 240569), D2HGDH (Abcam, Ab233516), ATF-3 (Cell Signaling Tech, D2Y5W), IGBP1 (Cell Signaling Tech, 5F6), SMAD9 (Abcam, Ab124094), ARF1 (Abcam, Ab58578), ACTR5 (Proteintech, 21505), AKAP8 (Abcam, Ab72196), GSTP1 (Cell Signaling Tech, 3F2), SET (Abcam, Ab1183), NLRP1B (Vance laboratory, 2A12), IRDye 800CW anti-rabbit (LICOR, 925-32211), IRDye 800CW anti-mouse (LI-COR, 925-32210), IRDye 680CW anti-rabbit (LI-COR, 925-68073), IRDye 680CW anti-mouse (LI-COR, 925-68072). Other reagents used include: Val-boroPro (VbP) (Okondo et al., 2017 (link)), Bortezomib (Bort; MilliporeSigma, 504314), MLN4924 (Cayman, 15217), bestatin methyl ester (Me-Bs; Sigma, 200485), sequencing grade modified trypsin (Promega, V5113), proteinase K (PROK; Invitrogen, 25530049), FuGENE HD (Promega, E2311), TMTsixplex Isobaric Label Reagents (ThermoFisher Scientific).
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2

Antibody-Mediated Protein Interactome Analysis

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Antibodies used include: GSDMD Rabbit polyclonal Ab (Novus Biologicals, NBP2-33422), GSDMD Rabbit monoclonal Ab (Abcam, Ab209845), FLAG® M2 monoclonal Ab (Sigma, F3165), CARD8 C terminus Rabbit polyclonal Ab (Abcam, Ab24186), CARD8 N-terminal Rabbit polyclonal Ab (Abcam, Ab194585), GAPDH Rabbit monoclonal Ab (Cell Signaling Tech, 14C10), MTMR1 (Abcam, Ab 240569), D2HGDH (Abcam, Ab233516), ATF-3 (Cell Signaling Tech, D2Y5W), IGBP1 (Cell Signaling Tech, 5F6), SMAD9 (Abcam, Ab124094), ARF1 (Abcam, Ab58578), ACTR5 (Proteintech, 21505), AKAP8 (Abcam, Ab72196), GSTP1 (Cell Signaling Tech, 3F2), SET (Abcam, Ab1183), NLRP1B (Vance laboratory, 2A12), IRDye 800CW anti-rabbit (LICOR, 925-32211), IRDye 800CW anti-mouse (LI-COR, 925-32210), IRDye 680CW anti-rabbit (LI-COR, 925-68073), IRDye 680CW anti-mouse (LI-COR, 925-68072). Other reagents used include: Val-boroPro (VbP) (Okondo et al., 2017 (link)), Bortezomib (Bort; MilliporeSigma, 504314), MLN4924 (Cayman, 15217), bestatin methyl ester (Me-Bs; Sigma, 200485), sequencing grade modified trypsin (Promega, V5113), proteinase K (PROK; Invitrogen, 25530049), FuGENE HD (Promega, E2311), TMTsixplex Isobaric Label Reagents (ThermoFisher Scientific).
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3

Inflammasome Activation and Pyroptosis Analysis

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Antibodies used include: GSDMD Rabbit polyclonal Ab (Novus Biologicals, NBP2–33422), FLAG® M2 monoclonal Ab (Sigma, F3165), GAPDH Rabbit monoclonal Ab (Cell Signaling Tech, 14C10), CASP1 p20 Rabbit polyclonal Ab (Cell Signaling Tech, 2225s), CASP1 p12/10 Rabbit monoclonal Ab (Abcam, ab179515), CASP4 Rabbit polyclonal Ab (Cell Signaling Tech, 4450S), CASP5 Rabbit monoclonal Ab (Cell Signaling Tech, 46680S), Myc Mouse monoclonal Ab (Cell Signaling Tech, 2276S), V5 Rabbit monoclonal Ab (Cell Signaling Tech, 13202S), hIL-1β Goat Polyclonal Ab (R&D systems, AF-201-NA), hIL-18 Goat Ab (R&D systems, af2548), hIL-1α Recombinant Ab (PeproTech, 200–01A), PARP Rabbit polyclonal Ab (Cell Signaling Tech, 9542S), HA Rabbit monoclonal Ab (Cell Signaling Tech, 3724S), mIL-1β Goat polyclonal Ab (R&D systems, AF-401-NA), CASP11 Rat monoclonal Ab (Novus Biologicals, NB120–10454), FKBP12 Rabbit polyclonal Ab (Abcam, ab24373). IRDye 800CW anti-rabbit (LICOR, 925–32211), IRDye 800CW anti-mouse (LI-COR, 925–32210), IRDye 680CW anti-rabbit (LI COR, 925–68073), IRDye 680CW anti-mouse (LI-COR, 925–68072). Other reagents used include: LPS-EB Ultrapure (Invivogen, tlrl-3pelps), VX-765 (Apexbio Technology LLC, 50–101-3604), Z-VAD-FMK (Enzo Life Sciences, NC9471015), FuGENE HD (Promega, E2311), AP20187 (Tocris™ 6297/5), NP-40 Lysis Buffer Low Salt (Thomas Scientific, C994H79).
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4

Quantifying p47phox Phosphorylation in Neutrophils

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Neutrophils were incubated with the indicated acetate concentrations for 15 min followed by lysis with immunoprecipitation (IP)-lysis buffer (ThermoFisher). The subsequent immunoprecipitation was performed using the Dynabead Protein G IP Kit (ThermoFisher). Briefly, a mouse anti-human p47phox–specific monoclonal antibody (BD Bioscience) was bound to the protein G beads for 15 min under constant shaking (350 rpm). After washing, dynabeads were added to the cell lysis and incubated for 15 min followed by washing, addition of elution and SDS–PAGE sample buffer, and denaturation for 5 min at 99 °C. Samples were subjected to a standard 4–20%-SDS–PAGE gel (BioRad). Proteins were blotted to a nitrocellulose membrane and p47phox and p47phox S345 were visualized using mouse anti-human p47phox (BD) and rabbit anti-human p47phox S345 (Invitrogen) antibodies. Secondary antibodies were IRDye 680CW anti-rabbit and IRDye 800CW anti-mouse from Licor. Protein bands were detected with the Licor Odyssey CLx.
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