Deposition
CryoET of isolated synaptic vesicles from mouse brain
- Deposition ID:CZCDP-10334
Release Date: 2025-11-17
Last Modified: 2025-11-17
Photo Caption: Central slab of 4 representative tomograms with selected sets of annotations.
Deposition Overview
Cryo-electron tomography data of synaptic vesicles isolated from mouse brain tissue. The deposition includes raw tiltseries movies, alignment transforms, defocus/tilt metadata, aligned stacks, and CTF-corrected tomograms. Samples were plunge-frozen and imaged on a 300 kV Titan Krios with a Falcon 4 detector and energy filter. Processing used TomoBEAR, with MotionCor2 for frame alignment, DynamoTSA/IMOD for tiltseries alignment, Gctf and IMOD ctfphaseflip for CTF handling, and weighted back-projection in IMOD for reconstruction.
Authors
- Uljana Kravčenko,
- Max Ruwolt,
- Jana Kroll,
- Artsemi Yushkevich,
- Martina Zenkner,
- Julia Ruta,
- Rowaa Lotfy,
- Erich E. Wanker,
- Christian Rosenmund,
- Fan Liu,
- Mikhail Kudryashev
Methods Summary
Annotations | Method Type | Method Details | Method Links |
|---|---|---|---|
| 95 | Hybrid | Final particle set of manually picked V-ATPases were used for a focused refinement on the Voa1 region (V0 domain). | Source Code:TomoBEAR +2 more |
| 95 | Hybrid | Single clathrin triskelia were obtained by classifying CCV fragments, recentering on a clathrin hexamer with C6 symmetry, and cropping single triskelia. | Source Code:TomoBEAR +2 more |
| 95 | Manual | Manual particle picking on 16x binned tomograms; 60x60x60 voxels | Source Code:TomoBEAR +2 more |
| 95 | Manual | Manual particle picking on 16x binned tomograms; 116x116x116 voxels | Source Code:TomoBEAR +2 more |
Deposited Data
Data Contents
Filter by:
380 of 380 Annotations
Annotation Name | Object Shape Type | Method Type | Deposited In |
|---|---|---|---|
103clathrin complex Annotation ID: AN-102888 Ground Truth | OrientedPoint | Hybrid | |
102proton-transporting V-type ATPase, V0 domain Annotation ID: AN-102887 Ground Truth | OrientedPoint | Hybrid | |
101clathrin coat Annotation ID: AN-102886 Ground Truth | OrientedPoint | Manual | |
100proton-transporting V-type ATPase complex Annotation ID: AN-102885 Ground Truth | OrientedPoint | Manual | |
103clathrin complex Annotation ID: AN-102884 Ground Truth | OrientedPoint | Hybrid | |
102proton-transporting V-type ATPase, V0 domain Annotation ID: AN-102883 Ground Truth | OrientedPoint | Hybrid | |
101clathrin coat Annotation ID: AN-102882 Ground Truth | OrientedPoint | Manual | |
100proton-transporting V-type ATPase complex Annotation ID: AN-102881 Ground Truth | OrientedPoint | Manual | |
103clathrin complex Annotation ID: AN-102880 Ground Truth | OrientedPoint | Hybrid | |
102proton-transporting V-type ATPase, V0 domain Annotation ID: AN-102879 Ground Truth | OrientedPoint | Hybrid | |
101clathrin coat Annotation ID: AN-102878 Ground Truth | OrientedPoint | Manual | |
100proton-transporting V-type ATPase complex Annotation ID: AN-102877 Ground Truth | OrientedPoint | Manual | |
103clathrin complex Annotation ID: AN-102876 Ground Truth | OrientedPoint | Hybrid | |
102proton-transporting V-type ATPase, V0 domain Annotation ID: AN-102875 Ground Truth | OrientedPoint | Hybrid | |
101clathrin coat Annotation ID: AN-102874 Ground Truth | OrientedPoint | Manual | |
100proton-transporting V-type ATPase complex Annotation ID: AN-102873 Ground Truth | OrientedPoint | Manual | |
103clathrin complex Annotation ID: AN-102872 Ground Truth | OrientedPoint | Hybrid | |
102proton-transporting V-type ATPase, V0 domain Annotation ID: AN-102871 Ground Truth | OrientedPoint | Hybrid | |
101clathrin coat Annotation ID: AN-102870 Ground Truth | OrientedPoint | Manual | |
100proton-transporting V-type ATPase complex Annotation ID: AN-102869 Ground Truth | OrientedPoint | Manual |
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