Subtomogram averaging structure of cofilactin filament inside microtubule lumen of Drosophila S2 cell protrusion.

2024-07-24 REL PDBe PDBe PDBe 2023-03-20 2023-05-10 2023-05-10 2024-07-24 Medical Research Council (MRC, United Kingdom) MC_UP_A025_1011 United Kingdom Wellcome Trust 210711/Z/18/Z United Kingdom Subtomogram averaging structure of cofilactin filament inside microtubule lumen of Drosophila S2 cell protrusion. Ventura Santos C Carter AP Cytoskeleton, Filament, Actin, Cofilactin, CONTRACTILE PROTEIN Santos CV Rogers SL Carter AP CryoET shows cofilactin filaments inside the microtubule lumen. Biorxiv US 2023 37034688 doi:10.1101/2023.03.31.535077 2692-8205 8oh4 FULLOVERLAP Cofilactin filament inside the microtubule lumen of induced Drosophila S2 cell protrusion Cofilactin filament inside the microtubule lumen of induced Drosophila S2 cell protrusion 0 1 2 Drosophila Actin-5C Drosophila 0.04116098 8 LEVO AALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDDMEKI WHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGIVLDSGDGVSHTVPI YEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDG QVITIGNERFRCPEALFQPSFLGMEACGIHETTYNSIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTM KIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQEYDESGPSIVHRKCF P10987 3.6.4.- Cofilin/actin-depolymerizing factor homolog Drosophila 0.017180528999999996 6 LEVO MASGVTVSDVCKTTYEEIKKDKKHRYVIFYIRDEKQIDVETVADRNAEYDQFLEDIQKCGPGECRYGLFDFEYMHQCQGT SESSKKQKLFLMSWCPDTAKVKKKMLYSSSFDALKKSLVGVQKYIQATDLSEASREAVEEKLRATDRQ P45594 subtomogramAveraging filament 7.0 Quantifoil R3.5/1 GOLD 200 GLOW DISCHARGE 30

Quantifoil R3.5/1 Au200 grids were glow discharged for 30s at 20 - 30 mA and subsequently coated with 0.25 ug/mL Concanavalin Aater for 1 - 16 h at 37 degrees Celcius.

ETHANE 95 198.15 FEI VITROBOT MARK III FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.5 6.0 GIF Bioquantum 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 3.0

Data was collected on Gatan K2 summit (2.952 A/pixel) and Gatan K3 summit (2.659 A/pixel) with 3 degree increments (3 e/A2 dose per tilt). The total dose was between 118 and 122 e/A2.

1 C1 16.5 FSC 0.143 CUT-OFF RELION 3.1

helical symmetry (-162 twist, 29A rise) was applied during 3D classification but not during refinements.

3801 58 7549 RELION 3.1 MAXIMUM LIKELIHOOD emd_16877.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 724.48 724.48 724.48 90.0 90.0 90.0 X Y Z -0.008817553 0.011251742 -0.0000033504755 0.00048764705 2.83 2.83 2.83 0.00337 AUTHOR ::::EMDATABANK.org::::EMD-16877:::: Masked map at 16.5 A resolution. Sharpened with a B-factor of -500 A2.

Drosophila cofilin and actin structures were predicted as a complex with Alphafold 2-Multimer. Actin from the predicted cofilin-actin complex was iteratively aligned with 8 actin subunits in the chicken cofilactin PDB model 5yU8. Two cofilin moieties at the pointed end were removed. Side chains were truncated. The model was not refined.

emd_16877_msk_1.map emd_16877_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 724.48 724.48 724.48 90.0 90.0 90.0 X Y Z -0.009044475 0.011251742 -0.00006443764 0.0012460985 2.83 2.83 2.83 AUTHOR ::::EMDATABANK.org::::EMD-16877:::: Unmasked map at 16.5 A resolution. Sharpened with a B-factor of -500 A2. emd_16877_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 724.48 724.48 724.48 90.0 90.0 90.0 X Y Z -0.0289009 0.02901842 -0.000046153196 0.003117463 2.83 2.83 2.83 AUTHOR ::::EMDATABANK.org::::EMD-16877:::: Half map 2. emd_16877_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 724.48 724.48 724.48 90.0 90.0 90.0 X Y Z -0.025315734 0.02767678 -0.00008272209 0.0029506632 2.83 2.83 2.83 AUTHOR ::::EMDATABANK.org::::EMD-16877:::: Half map 1.