Tomogram of a mouse dorsal root ganglion axon (dataset 2, TS

2021-12-15 REL PDBe PDBe PDBe 2021-09-19 2021-12-08 2021-12-08 2021-12-15 Medical Research Council (MRC, United Kingdom) MRC_UP_A025_1011 United Kingdom Wellcome Trust WT210711 United Kingdom Tomogram of a mouse dorsal root ganglion axon (dataset 2, TS_43). Foster HE Ventura Santos C Carter AP Foster HE Ventura Santos C Carter AP A cryo-ET survey of microtubules and intracellular compartments in mammalian axons. J.Cell Biol. US 221 2022 34878519 doi:10.1083/jcb.202103154 1540-8140 2019 JCLBA3 Foster HE Carter AP A cryo-ET survey of intracellular compartments within mammalian axons Biorxiv US 2021 doi:10.1101/2021.03.29.437454 EMD-12639 other EM volume

The tomogram in this entry is a representative example of the data used to determine the in situ subtomogram average of 13 protofilament microtubule from mus musculus DRG axons. The structure is deposited under EMD-12639.

EMD-12640 other EM volume

The tomogram in this entry is a representative example of the data used to determine the in situ subtomogram average of microtubule inner protein from mus musculus DRG axons. The structure is deposited under EMD-12640.

EMD-13598 associated EM volume Tomogram of a mouse dorsal root ganglion (DRG) axon from dataset 2 (TS_43). Tomogram of a mouse dorsal root ganglion (DRG) axon from dataset 2 (TS_43). 0 1

Example tomogram of a mouse dorsal root ganglion (DRG) axon from dataset 2. Tomogram was used for survey of microtubules and components in axons and for subtomogram average determination of microtubules and microtubule inner proteins.. Tomogram contains vaults.

Mus musculus Neurons Dorsal root ganglion tomography cell 7.4 Quantifoil R3.5/1 GOLD 200 CARBON CONTINUOUS ETHANE 100 310 FEI VITROBOT MARK IV

Manual blot for 3 s before plunging.

Adult DRG neurons were grown for 7 days in vitro before vitrification. Tilt series was collected in a thin region of an axon.

BBI Solutions 10 NO SECTIONING FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 3.0 5.0 53000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 3710 3838 1-10 1.7 1.85

61 images per tilt series with 112.85 e/A2 total dose.

Frame alignment and dose-filtering was done with alignframes and newstack (IMOD) operated via subTOM. Tilt series alignment was performed in IMOD. Tomograms were reconstructed in novaCTF operated via subTOM.

BACK PROJECTION NOVACTF 1.0.0 61 NOVACTF 1.0.0 IMOD 4.10.32

Defoci were estimated with CTFPLOTTER (IMOD version 4.10.32). CTF correction was done with novaCTF.

emd_13598.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 959 927 375 0 0 0 959 927 375 10549.0 10197.0 4125.0 90.0 90.0 90.0 X Y Z -5873.404 3672.3528 -1.9130728e-06 474.99945 11.0 11.0 11.0 AUTHOR ::::EMDATABANK.org::::EMD-13598:::: Tomogram of a mouse DRG axon (dataset 2). The volume was binned by 4 and deconvolved for visualization.