Deposition
CryoET of NPC1-Deficient Human HEK293T Cells
- Deposition ID:CZCDP-10337
Release Date: 2025-11-24
Last Modified: 2025-11-24
Photo Caption: Central slab of 4 representative tomograms with selected sets of annotations.
Deposition Overview
Human HEK293T cells lacking the lysosomal protein NPC1, which normally facilitates cholesterol transport from the lysosome lumen to other cell compartments. Loss of NPC1 causes Niemann-Pick Type C, an ultra-rare and fatal disease with no current treatment. These datasets capture organelle interactions and membrane dynamics in disease-relevant cellular environments, providing a resource for studying lysosomal storage disorders at nanometer resolution.
Authors
Deposition Data
Annotations:5
Tomograms:8
Publications
Not Submitted
Related Databases
Not Submitted
Methods Summary
Annotations | Method Type | Method Details | Method Links |
|---|---|---|---|
| 1 | Hybrid | nnInteractive prediction + copick-utils spline fit + 3D refinement in TOM | Source Code:nnInteractive +2 more |
| 1 | Automated | Prediction using membrain-seg without rescaling and weights MemBrain_seg_v10_alpha.ckpt | Source Code:membrain-seg +1 more |
| 1 | Automated | SABER prediction | Source Code:SABER +1 more |
| 1 | Automated | nnInteractive prediction + mcm-cryoET smoothing | Source Code:nnInteractive +1 more |
| 1 | Automated | octopi prediction + 2D/3D refinement in RELION 5 + 3D classification in RELION 5 | Source Code:Octopi +2 more |
Deposited Data
Data Contents
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5 of 5 Annotations
Annotation Name | Object Shape Type | Method Type | Deposited In |
|---|---|---|---|
104microtubule Annotation ID: AN-102508 | OrientedPoint | Hybrid | |
103cytosolic ribosome Annotation ID: AN-102507 | OrientedPoint | Automated | |
102mitochondrion Annotation ID: AN-102506 | SegmentationMask | Automated | |
101lysosome Annotation ID: AN-102505 | SegmentationMask | Automated | |
100membrane Annotation ID: AN-102504 | SegmentationMask | Automated |