REL
2025-01-27
2025-07-25
2025-07-25
Cryo-electron tomography on synaptic vesicles isolated from mouse brain (part 1)
0000-0003-3550-6274
Mikhail
Kudryashev
Max Delbrück Center for Molecular Medicine
Berlin
Germany
13125
0000-0003-3550-6274
Mikhail
Kudryashev
Max Delbrück Center for Molecular Medicine
Berlin
Germany
13125
Kravcenko U
Ruwolt M
Kroll J
Yushkevich A
Zenkner M
Ruta J
Lotfy R
Wanker EE
Rosenmund C
Liu F
Kudryashev M
German Research Foundation (DFG)
KU3222/3-1
Germany
German Research Foundation (DFG)
458275811
Germany
German Research Foundation (DFG)
436260754
Germany
European Research Council (ERC)
ERC-STG No. 949184
Germany
1.4
10.6019/EMPIAR-12794
EMDB
molecule
EMD-18556
EMD-18557
EMD-18572
EMD-18568
EMD-18578
Kravcenko U
Kudryashev M
Molecular architecture of synaptic vesicles
Proceedings of the National Academy of Sciences
PNAS
United States
49
121
2024
English
10.1073/pnas.2407375121
39602275
Source unaligned micrographs (.tif) of synaptic vesicles isolated from mouse brain (part I)
/data/frames_1
micrographs - multiframe
TIFF
TIFF
48
10
UNSIGNED BYTE
11520
0.84
8184
0.84
The naming correspondence between raw micrographs and tilt series/tomograms can be found in frames2tomos.txt.
The respective gain-reference file is SuperCDSRef_A_000_0.0.dm4
For this dataset raw micrographs were collected in 10 frames with a total dose per tilt view of 4.1391 e−/Å2 and the total dose distributed equally among all tilt images.
See top-level README.txt for contents location details.
Source unaligned micrographs (.tif) of synaptic vesicles isolated from mouse brain (part II)
/data/frames_2
micrographs - multiframe
TIFF
TIFF
64
10
UNSIGNED BYTE
11520
0.84
8184
0.84
The naming correspondence between raw micrographs and tilt series/tomograms can be found in frames2tomos.txt.
The respective gain-reference file is SuperCDSRef_ts_051_000_-0.0.dm4
For this dataset raw micrographs were collected using high-dose zero-tilt scheme. Thus, a zero-tilt micrographs were collected in 75 frames with a total dose per image of 31.077 e−/Å2 and other tilt micrographs were collected in 10 frames with a total dose per image of 4.1391 e−/Å2.
See top-level README.txt for contents location details.
Unaligned unbinned tilt stacks (.st) with metadata (.xf, .tlt, .defocus) of synaptic vesicles isolated from mouse brain
/data/Stacks
tilt series
MRC
MRC
99
10
32 BIT FLOAT
11520
0.84
8184
0.84
The metadata files could be used to align tilt stacks (.tlt and .xf), correct CTF (.defocus) and perform 3D reconstruction (.tlt), e.g. using IMOD.
CTF-corrected binned tomograms (.rec) of synaptic vesicles isolated from mouse brain
/data/tomograms
reconstructed volumes
MRC
MRC
99
10
32 BIT FLOAT
512
13.44
720
13.44
Particle coordinates and orientations could be found in the subfolder "/data/particle_tables/" of this deposition.
For additional info see file prtcls_description_dataset_1.txt