EMPIAR-10968 - Cryo-EM reconstruction of TMEM106B fold I-d filaments from case 18 with multiple system atrophy [5697 multi-frame micrographs composed of 54 frames each in TIFF format]

EMPIAR-10968

Cryo-EM reconstruction of TMEM106B fold I-d filaments from case 18 with multiple system atrophy [5697 multi-frame micrographs composed of 54 frames each in TIFF format]

Publication:

Age-dependent formation of TMEM106B amyloid filaments in human brains

Schweighauser M, Arseni D, Bacioglu M, Huang M, Lövestam S, Shi Y, Yang Y, Zhang W, Kotecha A, Garringer HJ, Vidal R, Hallinan GI, Newell KL, Tarutani A, Murayama S, Miyazaki M, Saito Y, Yoshida M, Hasegawa K, Lashley T, Revesz T, Kovacs GG, van Swieten J, Takao M, Hasegawa M, Ghetti B, Spillantini MG, Ryskeldi-Falcon B, Murzin AG, Goedert M, Scheres SHW

Nature 605 (2022) 310-314

PMID: 35344985

DOI: 10.1038/s41586-022-04650-z

Related EMDB entry:

EMD-14176

Deposited:

2022-02-25

Released:

2022-03-11

Last modified:

2022-10-17

Imageset size:

1.04 TB

Imageset DOI:

10.6019/EMPIAR-10968

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame movies

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

5697

Image size:

(3838, 3710)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(1.15, 1.15)

Details:

Movies were recorded automatically using EPU on a K2 camera in counting mode on a Titan Krios microscope operated at 300 kV (Cs=2.7) equipped with an energy filter using a slit width of 20 eV. The files were written as gain-unnormalised integer MRC files by EPU and then converted to TIFF files by mrc2tif in the IMOD suite. During this process, the pixel size in the header was lost. The real pixel size is 1.15 A/px. The dose rates are 0.91 and 0.89 e/A2/frame for Dataset1 and Dataset2, respectively. The gain references are provided for each dataset and should be used without any rotation or flipping.

data/TMEM106B_Case18/start_end_coordinates contains start-end coordinates of the manually picked filaments from datasets 1 and 2.

data/TMEM106B_Case18/run_data_TMEM10B_Case18_job534.star is the RELION-3.1 STAR file containing the metadata of the final refined segments.

Files:

Archives and downloads the selected files into an uncompressed zip file.

Depending on the number and size of files to be downloaded, this can take an enormous amount of time. Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.

We recommend using rsync, aspera, globus, etc.

Download a list of selected files.

It is possible to download files by specifying the file list with rsync command, etc.

rsync -av --files-from=(path-to-filelist) rsync://empiar.pdbj.org/empiar/archive (path-to-destination)

Browse All Files

Quick Links

Talks and Tutorials

EMPIAR Quick tour

Statistics

Publications

Re-use case study

EMPIAR in the news

Claim entries to your ORCiD

COVID-19 Data Portal

EMDB

PDBe

BioImage Archive

EMNavigator@PDBj

PDBj

RCSB@PDBj

EMDataResoruce@RCSB,EMDB,NCMI

Citations

Small LEA proteins mitigate air-water interface damage to fragile cryo-EM samples during plunge freezing.

Abe KM, Li G, He Q, Grant T, Lim CJ. (2024)

Outer membrane protein assembly mediated by BAM-SurA complexes.

Fenn KL, Horne JE, Crossley JA, Böhringer N, Horne RJ, Schäberle TF, Calabrese AN, Radford SE, Ranson NA. (2024)

Ubiquitinated histone H2B as gatekeeper of the nucleosome acidic patch.

Hicks CW, Rahman S, Gloor SL, Fields JK, Husby NL, Vaidya A, Maier KE, Morgan M, Keogh MC, Wolberger C. (2024)

Molecular recognition of an odorant by the murine trace amine-associated receptor TAAR7f.

Gusach A, Lee Y, Khoshgrudi AN, Mukhaleva E, Ma N, Koers EJ, Chen Q, Edwards PC, Huang F, Kim J, Mancia F, Veprintsev DB, Vaidehi N, Weyand SN, Tate CG. (2024)

The novel ribosome biogenesis inhibitor usnic acid blocks nucleolar pre-60S maturation.

Kofler L, Grundmann L, Gerhalter M, Prattes M, Merl-Pham J, Zisser G, Grishkovskaya I, Hodirnau VV, Vareka M, Breinbauer R, Hauck SM, Haselbach D, Bergler H. (2024)

See all citations

Protein Data Bank Japan News

[2025-02-05]

286 new PDB entries have been released on 2025-02-05.

[2025-01-30]

[wwPDB] Take the PDBx/mmCIF User Guide Survey and Win!

[2025-01-17]

[wwPDB] PDB-Dev now PDB-IHM

[2025-01-09]

[wwPDB] Time-stamped Copies of PDB and EMDB Archives

[2024-11-28]

[wwPDB] Access SDF/MOL formatted CCD files from the PDB archive