EMPIAR-13326 - Cryo-electron tomography of the actin cortex of NIH 3T3 fibroblasts upon regulation of membrane-to-cortex attachment [multiple data sets in TIFF and MRC formats]

EMPIAR-13326

Cryo-electron tomography of the actin cortex of NIH 3T3 fibroblasts upon regulation of membrane-to-cortex attachment [multiple data sets in TIFF and MRC formats]

Publication:

The membrane-to-cortex distance gates mDia1 activity to control cortical mechanics

Strauss L, Lembo S, Gérard SF, Siggel M, Cheng DCW, Bergert M, Foster SK, Vermeil J, Toro-Nahuelpan M, Fischer L, Yu Q, Sitarska E, Chan CJ, Kosinski J, Piel M, Du Roure O, Heuvingh J, Mahamid J, Diz-Munoz A

(---)

DOI: 10.1038/s41467-026-72845-3

Related EMDB entry:

Deposited:

2025-12-08

Released:

2026-05-13

Last modified:

2026-05-13

Imageset size:

804.34 GB

Imageset DOI:

10.6019/EMPIAR-13326

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
reconstructed volumes

Image Sets

1. Raw unaligned multi-frame micrographs for each tilt in 17 tilt-series in iMC control condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

1012

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks with a serialEM plugin or in Warp (.mrc or .st files, respectively) located in the processing folders.

Naming for tomograms of iMC control cells: TS_01_iMC_control, TS_02_iMC_control, TS_03_iMC_control, TS_04_iMC_control, TS_05_iMC_control, TS_06_iMC_control, TS_07_iMC_control, TS_08_iMC_control, TS_15_iMC_control, TS_16_iMC_control, TS_17_iMC_control, TS_18_iMC_control, TS_19_iMC_control, TS_20_iMC_control, TS_21_iMC_control, TS_23_iMC_control, TS_24_iMC_control.

Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

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2. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in iMC control conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.37 Å) from aligned frame stacks (.mrc or .st files located in processing folders, .tif files in frames folders).
Metadata files (.mdoc) are provided in the metadata folders and alignment files (.xf) are in the processing folders.

Naming for tomograms of iMC control cells: TS_01_iMC_control, TS_02_iMC_control, TS_03_iMC_control, TS_04_iMC_control, TS_05_iMC_control, TS_06_iMC_control, TS_07_iMC_control, TS_08_iMC_control, TS_15_iMC_control, TS_16_iMC_control, TS_17_iMC_control, TS_18_iMC_control, TS_19_iMC_control, TS_20_iMC_control, TS_21_iMC_control, TS_23_iMC_control, TS_24_iMC_control.
For each tomogram, actin and plasma membrane segmentations are provided in their corresponding labels folders.

Files:

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3. Raw unaligned multi-frame micrographs for each tilt in 9 tilt-series in iMC induced condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

524

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks in Warp (.st files) located in the processing folders.
Naming for tomograms of iMC induced cells: TS_09_iMC_induced, TS_10_iMC_induced, TS_11_iMC_induced, TS_12_iMC_induced, TS_13_iMC_induced, TS_14_iMC_induced, TS_25_iMC_induced, TS_26_iMC_induced, TS_28_iMC_induced.
Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

This entry cannot be downloaded from PDBj.

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

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4. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in iMC induced conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.37 Å) from aligned frame stacks (.st files located in processing folders, .tif files in frames folders).
Metadata files (.mdoc) are provided in the metadata folders and alignment files (.xf) are in the processing folders.
Naming for tomograms of iMC induced cells: TS_09_iMC_induced, TS_10_iMC_induced, TS_11_iMC_induced, TS_12_iMC_induced, TS_13_iMC_induced, TS_14_iMC_induced, TS_25_iMC_induced, TS_26_iMC_induced, TS_28_iMC_induced.
For each tomogram, actin and plasma membrane segmentations are provided in their corresponding labels folders.

Files:

This entry cannot be downloaded from PDBj.

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5. Raw unaligned multi-frame micrographs for each tilt in 6 tilt-series in CAEzrin control condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

349

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks in Warp (.st files) located in the processing folders.
Naming for tomograms of CAEzrin control cells: TS_43_CAEz_control, TS_45_CAEz_control, TS_47_CAEz_control, TS_48_CAEz_control, TS_49_CAEz_control, TS_50_CAEz_control.
Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

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6. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in CAEzrin control conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Files:

This entry cannot be downloaded from PDBj.

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7. Raw unaligned multi-frame micrographs for each tilt in 20 tilt-series in CAEzrin induced condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

1041

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks with a serialEM plugin or in Warp (.mrc or .st files, respectively) located in the processing folders.
Naming for tomograms of CAEzrin induced cells: TS_35_CAEz_induced, TS_36_CAEz_induced, TS_37_CAEz_induced, TS_38_CAEz_induced, TS_39_CAEz_induced, TS_40_CAEz_induced, TS_41_CAEz_induced, TS_42_CAEz_induced, TS_51_CAEz_induced, TS_52_CAEz_induced, TS_53_CAEz_induced, TS_54_CAEz_induced, TS_55_CAEz_induced, TS_56_CAEz_induced, TS_57_CAEz_induced, TS_58_CAEz_induced, TS_59_CAEz_induced, TS_60_CAEz_induced, TS_61_CAEz_induced, TS_62_CAEz_induced.
Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

This entry cannot be downloaded from PDBj.

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8. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in CAEzrin induced conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.37 Å) from aligned frame stacks (.st files located in processing folders, .tif files in frames folders).
Metadata files (.mdoc) are provided in the metadata folders and alignment files (.xf) are in the processing folders.
Naming for tomograms of CAEzrin induced cells: TS_35_CAEz_induced, TS_36_CAEz_induced, TS_37_CAEz_induced, TS_38_CAEz_induced, TS_39_CAEz_induced, TS_40_CAEz_induced, TS_41_CAEz_induced, TS_42_CAEz_induced, TS_51_CAEz_induced, TS_52_CAEz_induced, TS_53_CAEz_induced, TS_54_CAEz_induced, TS_55_CAEz_induced, TS_56_CAEz_induced, TS_57_CAEz_induced, TS_58_CAEz_induced, TS_59_CAEz_induced, TS_60_CAEz_induced, TS_61_CAEz_induced, TS_62_CAEz_induced.
For each tomogram, actin and plasma membrane segmentations are provided in their corresponding labels folders.

Files:

This entry cannot be downloaded from PDBj.

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

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9. Raw unaligned multi-frame micrographs for each tilt in 8 tilt-series in 6FP-iMC control condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

406

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks in Warp (.st files) located in the processing folders.
Naming for tomograms of 6FP-iMC control cells: TS_90_6FP_control, TS_91_6FP_control, TS_94_6FP_control, TS_95_6FP_control, TS_96_6FP_control, TS_103_6FP_control, TS_104_6FP_control, TS_105_6FP_control.
Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

This entry cannot be downloaded from PDBj.

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10. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in 6FP-iMC control conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.37 Å) from aligned frame stacks (.st files located in processing folders, .tif files in frames folders).
Metadata files (.mdoc) are provided in the metadata folders and alignment files (.xf) are in the processing folders.
Naming for tomograms of 6FP-iMC control cells: TS_90_6FP_control, TS_91_6FP_control, TS_94_6FP_control, TS_95_6FP_control, TS_96_6FP_control, TS_103_6FP_control, TS_104_6FP_control, TS_105_6FP_control.
For each tomogram, actin and plasma membrane segmentations are provided in their corresponding labels folders.

Files:

This entry cannot be downloaded from PDBj.

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

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11. Raw unaligned multi-frame micrographs for each tilt in 10 tilt-series in 6FP-iMC induced condition

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

539

Image size:

(None, None)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(3.37, 3.37)

Details:

Raw unaligned multi-frame micrographs were aligned, sorted and combined into tilt series stacks in Warp (.st files) located in the processing folders.
Naming for tomograms of 6FP-iMC induced cells: TS_106_6FP_induced, TS_107_6FP_induced, TS_109_6FP_induced, TS_110_6FP_induced, TS_111_6FP_induced, TS_113_6FP_induced, TS_114_6FP_induced, TS_116_6FP_induced, TS_117_6FP_induced, TS_118_6FP_induced.
Metadata files (.mdoc) are provided in the metadata folders. The gain references (.dm4) are provided in the frames folders.

Files:

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12. Reconstructed cryo-electron tomograms acquired on cryo-FIB lamellae between two adjacent NIH 3T3 fibroblasts in 6FP-iMC induced conditions

Category:

reconstructed volumes

Image format:

MRC

No. of images or tilt series:

Image size:

(None, None)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(13.48, 13.48)

Details:

Tomograms (4-times binned reconstructions, original unbinned pixel size 3.37 Å) from aligned frame stacks (.st files located in processing folders, .tif files in frames folders).
Metadata files (.mdoc) are provided in the metadata folders and alignment files (.xf) are in the processing folders.
Naming for tomograms of 6FP-iMC induced cells: TS_106_6FP_induced, TS_107_6FP_induced, TS_109_6FP_induced, TS_110_6FP_induced, TS_111_6FP_induced, TS_113_6FP_induced, TS_114_6FP_induced, TS_116_6FP_induced, TS_117_6FP_induced, TS_118_6FP_induced.
For each tomogram, actin and plasma membrane segmentations are provided in their corresponding labels folders.

Files:

This entry cannot be downloaded from PDBj.

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

We recommend using rsync, aspera, globus, etc.

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

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Citations

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