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5 protocols using paclitaxel

1

Microtubule Interaction Assay with Tau

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Lyophilized tubulin (Cytoskeleton, Inc.) was solubilised in Brb80 buffer (80 mM PIPES, 2 mM MgCl2, 1 mM EGTA, pH 6.8, 1 mM NaN3, 1 mM DTT, pH 6.8), to a final concentration of 2 mg/mL. The polymerization was induced by adding 1 mM Guanosine-5′-triphosphate (GTP) and incubation for 15 min at 30 °C. Then, 20 μM paclitaxel (taxol, SIGMA) was used to stabilize the MT and incubation took place for another 15 min at 30 °C. The MT were spun down at 180.000 × g (Beckman TLA-55 rotor) for 30 min at 30 °C and the pellet was resuspended in warm Brb80 buffer with 20 μM paclitaxel. Subsequently, a 1:1 ratio of 13C15N tau K32 was added. The interaction partners were incubated for 30 min at 37 °C. In the following isotopically labelled tau K32 in complex with MT was separated from the unbound, non-polymerised fraction by centrifugation at 180.000 xg (Beckman TLA-55 rotor) for 30 min at 30 °C. Afterwards, the pellet was washed with 40 mM phosphate buffer, pH 7, with protease inhibitor (as described earlier) and 1 mM NaN3, without disturbing the pellet. A 1.3 mm rotor was packed with the pellet.
Basic experimental details for each sample used in this manuscript. Further details are provided in the materials and methods section, and Table S1.
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2

Microtubule Polymerization and Stabilization

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A polymerization mixture was prepared with BRB80 + 32 μM tubulin + 1 mM GTP + 4 mM MgCl2 + 5% DMSO. The mixture was incubated on ice for 5 min, followed by incubation at 37°C for 30 min. The polymerized microtubules were diluted into prewarmed BRB80 + 10 μM paclitaxel, centrifuged at 110,000 rpm (199,000 × g) in an Airfuge (Beckman-Coulter), and resuspended in BRB80 + 10 μM paclitaxel (99.5+%, GoldBio).
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3

Solid-State NMR Sample Preparation

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For the preparation of solid-state NMR samples lyophilized tubulin (Cytoskeleton, Inc.) was solubilised in BRB80 buffer (80 mM PIPES, 2 mM MgCl2, 1 mM EGTA, pH 6.8, 1 mM NaN3, 1 mM DTT, pH 6.8 supplemented with protease inhibitor (Sigma-Aldrich, cOmplete EDTA-free), to a final concentration of 2 mg/mL). Then 1 mM Guanosine-5’-triphosphate (GTP) was added and incubation took place for 15 min at 30 °C. In the following, 20 μM paclitaxel (Taxol, SIGMA) was used to stabilize the MT and incubation took place for another 15 min at 30 °C. The MT were spun down at 180,000 g (Beckman TLA-55 rotor) for 30 min at 30 °C and the pellet was resuspended in warm BRB80 buffer with 20 μM paclitaxel. Subsequently 0.55 mg/mL [13C-15N]-MAP7 MTBD was added. The interaction partners were incubated for 30 min at 30 °C. In the following step [13C-15N]-MAP7 MTBD in complex with MT was separated from the unbound, non-polymerised fraction by centrifugation at 180.000 g (Beckman TLA-55 rotor) for 30 min at 30 °C. Afterwards, the pellet was washed with BRB80 buffer containing protease inhibitor, without disturbing the pellet. A 1.3 mm rotor was packed with the pellet.
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4

KIF1C-Rab Interaction and Microtubule Binding

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Full-length myc-KIF1C synthesized in vitro with 35S-methionine (EasyTag, Perkin Elmer, San Jose, CA) was desalted and incubated with GTPγS-preloaded Rabs (4.2 μM) for 1 hr in Buffer A (−BSA), 1 mM DTT, 2.5 mM ADP, 0.5 mM GTPγS. Microtubules (0.8 mg/ml), polymerized in 80 mM PIPES, 1 mM MgCl2, 1 mM EGTA, pH 6.8 (BRB80), 1 mM DTT, 1 mM GTP, 10% DMSO, spun through a 40% glycerol cushion, and resuspended in BRB80, 1 mM DTT, 0.2 mM Paclitaxel (Cytoskeleton, Inc.), were incubated with the KIF1C-Rab complexes for 1 hr before being spun through a 10% sucrose, 20 µM Paclitaxel, 1 mM DTT, at 65K for 5 min (Optima TLX, Beckman Coulter, Inc., Indianapolis, IN). Scintillation counting and SDS-PAGE and radiography using a Typhoon imager (GE Healthcare Biosciences) revealed the amount of 35S-labeled-KIF1C in fractions.
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5

Microtubule Curvature Analysis with CKAP2

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A polymerization mixture was prepared with BRB80 + 32 μM tubulin + 1 mM GTP + 4 mM MgCl2 + 5% DMSO. The mixture was incubated on ice for 5 min, followed by incubation at 37°C for 30 min. The polymerized microtubules were diluted into prewarmed BRB80 + 10 μM paclitaxel, centrifuged at 110,000 rpm (199,000 × g) in an Airfuge (Beckman-Coulter), and resuspended in BRB80 + 10 μM paclitaxel (99.5+%, GoldBio) Curvature Recognition TAMRA labelled paclitaxel microtubules were introduced into flow channels (Bechstedt et al., 2014) . 5 nM CKAP2-mNG in imaging buffer with 10 μM paclitaxel without GTP was introduced into the channel. Quantification of the microtubule curvature, κ, and CKAP2-mNG signal on microtubules was analyzed using Kappa (Mary and Brouhard, 2019) .
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