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7 protocols using mjf r20

1

Rab8A and LRRK2 Phosphorylation Assays

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Both, LRRK2 auto-phosphorylation analyses of pS1292 and Rab8A phosphorylation assays were recently described in Weng et al.31 (link). Oxidation- and reduction-dependent phosphorylation of Rab8A was determined by adding 1 mM DTT, 250 µM H2O2, 250 µM NCA or 250 µM CXL-1020 to a kinase buffer (25 mM Tris pH 7.4, 50 mM NaCl, 10 mM MgCl2, 500 µM GDP, 1 mM DTT, 0.1 mg/mL bovine serum albumin (BSA)), supplemented with 1 mM ATP, 2.5 µM His6-Rab8A (6–175). Recombinantly expressed His6-Rab8A (6–175) was purified from E.coli BL21(DE3) RIL cells using Ni2+-NTA agarose (MACHEREY-NAGEL). For detection of Rab8A phosphorylation a primary antibody against pT72-Rab8A (1:5000; Abcam MJF-R20) was used as well as an anti-His6-Rab8A antibody (1:1.000; Abcam ab18184). LRRK2 auto-phosphorylation on S1292 was detected with an anti-pS1292 (1:1000; Abcam MJFR-19–7–8) antibody, in addition to an anti-Flag antibody (1:1000, Sigma-Aldrich (F1804)). As secondary antibodies the RDye® 800CW Donkey anti-Rabbit IgG Secondary Antibody (1:15000; LiCOR 926–32213) and IRDye® 680RD Goat anti-Mouse IgG Secondary Antibody (1:15000; LiCOR 926–68070) were used. Detection and quantification were performed using an Odysseys FC imaging system (LiCOR). All blots or gels derive from the same experiment and they were processed in parallel.
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2

Antibody Dilution and Detection Protocol

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Antibodies used in this study were diluted in 5% w/v bovine serum albumin in TBS supplemented with 0.1% Tween-20 (TBS-T) and 0.03% w/v sodium azide. The rabbit monoclonal antibody for total LRRK2 (N-terminus) was purified at the University of Dundee (16 (link)). Anti-GFP (PABG1; Chromotek, used at 1:1000), anti-HA (3F10; Merck, used at 1:1000), anti-pT72-Rab8a (MJF-R20; Abcam, used at 0.5 μg/mL), anti-LRRK2 C-terminal (N241A/34; Neuromab, used at 1:1000), and anti-α-tubulin (3873S; CST, used at 1:5000). Secondary antibodies used were LI-COR IRDye for 800CW goat anti-rabbit (925–32211), goat anti-mouse (926–32210), and 680LT goat anti-rat (925–68029) and goat anti-mouse (926–68020), all used at 1:10,000 dilution in TBS-T.
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3

Antibody Profiling of LRRK2 Modifications

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Primary antibodies used include: mouse monoclonal anti-GFP (clones 7.1 and 13.1, Sigma), mouse monoclonal anti-LRRK2 (clone N241A/34, NeuroMabs), rabbit monoclonal anti-LRRK2 (clone MJFF2/c41-2, Abcam), mouse monoclonal anti-FLAG and anti-FLAG-HRP (clone M2, Sigma), rabbit monoclonal anti-pSer910-LRRK2 [clone UDD1 15 (3 (link)), Abcam], rabbit monoclonal anti-pSer935-LRRK2 [clone UDD2 10 (12 (link)), Abcam], rabbit monoclonal anti-pSer1292-LRRK2 (clone MJFR-19-7-8, Abcam), mouse monoclonal anti-β-tubulin (TUB 2.1, Sigma), rabbit polyclonal anti-dynamin-1 (PA1-660, Thermo Fisher Scientific), rabbit polyclonal anti-tyrosine hydroxylase (NB300-109, Novus Biologicals), rabbit monoclonal anti-phospho-Thr73-RAB10 (MJF-R21 or MJF-R21-22–5, Abcam), anti-phospho-Thr72-RAB8A (MJF-R20, Abcam), rabbit monoclonal anti-RAB10 (D36C4, Cell Signaling Technology), mouse monoclonal anti-human adenovirus 5, hexon capsid protein (clone 9C12, Developmental Studies Hybridoma Bank), mouse monoclonal anti-GAPDH (clone 1E6D9, Protein Tech). For bright-field microscopy, biotinylated goat anti-mouse and anti-rabbit secondary antibodies (Vector Laboratories) were employed. For Western blots, light chain-specific mouse anti-rabbit IgG-HRP and goat anti-mouse IgG-HRP (Jackson Immunoresearch) secondary antibodies were used.
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4

Generation of Antibodies for Protein Detection

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Anti-Aux and anti-INPP5F polyclonal antibodies were raised against recombinant GST-tagged Aux (720–1165 aa) and GST-tagged INPP5F (744–1000 aa) produced in the Escherichia coli strain Rosetta 2 (Novagen, Merck, Darmstadt, Germany). Rabbit anti-RME-8 polyclonal antibody was raised against a mixture of synthetic peptides (C-ISTYNPDKLDLTNRWS-coNH2 and C-KDQRHDLFIADTTIRGY-coNH2) and purified through affinity chromatography (Japan Bio Services, Asaka, Japan). Rabbit anti-Chc polyclonal antibody was raised against a synthetic peptide (DDSTEHKNIIQMEPQLMC; Cosmo Bio, Tokyo, Japan).
The following primary antibodies were used for western blotting: anti-GFP (1:5000; 598, MBL, Tokyo, Japan), anti-pRab (1:1000; MJF-R20, Abcam, Cambridge, UK), anti-Lrrk (1:2000; in-house, 2136013), anti-Aux (1:1000; in-house, R1), anti-INPP5F (1:1000; in-house, GP-C2), anti-RME-8 (1:1000, in-house, 1738071), anti-Actin (1:10000; Millipore, MAB1501), anti-GAPDH (1:1000; Proteintech, 1E6D9), and anti-Tubulin (1:5000; Sigma-Aldrich, DM1A).
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5

LRRK2 Kinase Activity Assay and Rab8a Phosphorylation

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Detailed materials and methods are included in SI Appendix, Materials and Methods. LRRK2RCKW proteins were expressed and purified from Sf9 or HEK293T cells. All Sf9 proteins that were used for HDX-MS were monodisperse and monomeric based on size-exclusion chromatography (SI Appendix, Fig. S6). Phosphorylation of Rab8a was measured by Western blotting using a pT72-specific antibody (MJF-R20; abcam; ab231706) and anti-His antibody (GE Healthcare; mouse). The kinase activity of the LRRK2RCKW variants was measured by a microfluidic mobility-shift kinase assay using LRRKtide (RLGRDKYKTLRQIRQ-amide; GeneCust) as substrate. The AMBER16 package was used for GaMD simulations.
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6

Antibody Dilution and Usage Protocol

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Antibodies used in this study were diluted in 5% w/v bovine serum albumin in TBS supplemented with 0.1% Tween-20 and 0.03% w/v sodium azide. The Rabbit monoclonal antibody for total LRRK2 (N-terminus) was purified at the University of Dundee (Dzamko et al., 2012 (link)). Anti-GFP (PABG1, Chromotek, used at 1:1000) anti-GFP (#2956, CST, used at 1:1000), anti-HA (3F10, Merck, used at 1:1000), anti-pT72-Rab8a (MJF-R20, Abcam, used at 0.5 μg/mL), anti-LRRK2 C-terminal (N241A/34, Neuromab, used at 1:1000), and anti-αTubulin (3873S, CST, used at 1:5000), anti-GAPDH (#sc-32233, Santa Cruz Biotechnology, used at 1:5000). Secondary antibodies used were Licor IRDye for 800CW goat anti-rabbit (925-32211), goat anti-mouse (926-32210) and 680LT goat anti-rat (925-68029) and goat anti-mouse (926-68020), all used at 1:10,000 dilution in TBS with 0.1% v/v Tween-20 (TBS-T) and horseradish peroxidase-conjugated rat IgG secondary antibody (#31470, Thermo Fisher Scientific) used at 1:10,000 dilution in 5% non-fat dry milk dissolved in TBS-T.
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7

Rab8a Phosphorylation by LRRK2 Variants

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Phosphorylation of T72 of Rab8a was measured via Western Blotting using a pT72 speci c antibody. Prior to the blotting step onto a nitrocellulose membrane an in vitro kinase assay using kinase buffer (25 mM Tris/HCl, pH 7.5, 50 mM NaCl, 10 mM MgCl 2 , 1 mM ATP, 0.5 mM GTP, 0.1 mg/ml BSA and 1 mM DTT) and an SDS-PAGE were performed. For the kinase assay 2.5 µM (6xHis)-Rab8a (aa 6-175) were used as substrate for 200 nM of the LRRK2 RCKW variants. Rab8a was phosphorylated at 30 °C for 7 min at 650 rpm on a shaker. To stop the reaction 1xNu-PAGE LDS sample buffer (Invitrogen, Cat. No. NP0007) supplemented with 250 µM DTT was added followed by an incubation at 80 °C for 510 min. After SDS-PAGE and western blotting, membranes were blocked with 5% (w/V) BSA in TBST (1x Tris-buffered saline supplemented with 0.1% Tween20) for 1 h. Subsequently they were incubated overnight at 4 °C with the primary antibodies against pT72 (MJF-R20, abcam, Cat. No. ab231706) and the His-tag of Rab8a (anti-His-Antibody, GE Healthcare, mouse). Both were diluted (1:1000) in blocking buffer. Membranes were then washed three times with TBS-T. After secondary antibody incubation (anti-rabbit IRDye800 and antimouse IRDye680, 1:15000, LiCOR) for 1 h at room temperature signals were detected using the Odyssey FC imaging system (LiCOR).
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