EMPIAR-10437 - Single-particle cryo-EM of the full-length merozoite surface protein 1 from Plasmodium falciparum [multiple data sets in MRC and MRCS formats]

EMPIAR-10437

Single-particle cryo-EM of the full-length merozoite surface protein 1 from Plasmodium falciparum [multiple data sets in MRC and MRCS formats]

Publication:

Structure of the merozoite surface protein 1 from Plasmodium falciparum

Dijkman PM, Marzluf T, Zhang Y, Chang SYS, Helm D, Lanzer M, Bujard H, Kudryashev M

Science advances 7 (2021)

PMID: 34078606

DOI: 10.1126/sciadv.abg0465

Related EMDB entry:

EMD-11151 EMD-11154 EMD-11152 EMD-11153 EMD-11157 EMD-11150 EMD-11155 EMD-11156

Deposited:

2020-06-08

Released:

2021-11-08

Last modified:

2021-11-08

Imageset size:

4.33 TB

Imageset DOI:

10.6019/EMPIAR-10437

Experimental metadata:

Download xml json

Compressed by PDBj:

Image formats and pixel types shown below are those of the original, non-compressed files.

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Contains:

micrographs - multiframe
picked particles - single frame - processed

Image Sets

1. Unaligned movies of MSP-1

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

3734

Image size:

(3838, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Unaligned, gain-corrected, 40-frame movies, recorded automatically with EPU, using K2 camera in counting mode on a Titan Krios microscope operated at 300 kV at a nominal magnification of 130 000, corresponding to a pixel size of 1.073 Å. The total electron dose per micrograph: ~64 e-/Å^2.

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2. Unaligned movies of hdMSP-1 (dataset 1)

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

1685

Image size:

(3838, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Unaligned, gain-corrected, 40-frame movies, recorded automatically with EPU, using K2 camera in counting mode on a Titan Krios microscope operated at 300 kV at a nominal magnification of 130 000, corresponding to a pixel size of 1.077 Å. The total electron dose per micrograph: ~60 e-/Å^2.
Datasets 1-4 were combined for reconstruction of hdMSP-1.

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

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3. Unaligned movies of hdMSP-1 (dataset 2)

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

3560

Image size:

(3838, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Unaligned, gain-corrected, 40-frame movies, recorded automatically with EPU, using K2 camera in counting mode on a Titan Krios microscope operated at 300 kV at a nominal magnification of 130 000, corresponding to a pixel size of 1.077 Å. The total electron dose per micrograph: ~60 e-/Å^2.
Datasets 1-4 were combined for reconstruction of hdMSP-1.

Files:

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

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)

4. Unaligned movies of hdMSP-1 (dataset 3)

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

5864

Image size:

(3838, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Unaligned, gain-corrected, 40-frame movies, recorded automatically with EPU, using K2 camera in counting mode on a Titan Krios microscope operated at 300 kV at a nominal magnification of 130 000, corresponding to a pixel size of 1.077 Å. The total electron dose per micrograph: ~60 e-/Å^2.
Datasets 1-4 were combined for reconstruction of hdMSP-1.

Files:

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

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)

5. Unaligned movies of hdMSP-1 (dataset 4)

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

1393

Image size:

(3838, 3710)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Unaligned, gain-corrected, 40-frame movies, recorded automatically with EPU, using K2 camera in counting mode on a Titan Krios microscope operated at 300 kV at a nominal magnification of 130 000, corresponding to a pixel size of 1.077 Å. The total electron dose per micrograph: ~60 e-/Å^2.
Datasets 1-4 were combined for reconstruction of hdMSP-1. Dataset 4 was collected at 15 degrees tilt.

Files:

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

We recommend using rsync, aspera, globus, etc.

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

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6. Final particle stack for hdMSP-1 conformation 1

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

271763

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Final 271,763 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for hdMSP-1 (conformation 1); box size 288 pixels, 1.077 Å/pixel.

Files:

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

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7. Final particle stack for hdMSP-1 conformation 2

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

182515

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.077, 1.077)

Details:

Final 182,515 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for hdMSP-1 (conformation 2); box size 288 pixels, 1.077 Å/pixel.

Files:

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

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

8. Final particle stack for MSP-1 main conformation

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

141838

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 141,838 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (main conformation); box size 288 pixels, 1.073 Å/pixel.

Files:

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

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9. Final particle stack for MSP-1 alternative conformation 1

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

112939

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 112,939 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (alternative conformation 1); box size 288 pixels, 1.073 Å/pixel.

Files:

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

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10. Final particle stack for MSP-1 alternative conformation 2

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

118878

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 118,878 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (alternative conformation 2); box size 288 pixels, 1.073 Å/pixel.

Files:

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

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11. Final particle stack for MSP-1 alternative conformation 3

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

124774

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 124,774 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (alternative conformation 3); box size 288 pixels, 1.073 Å/pixel.

Files:

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

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.

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12. Final particle stack for MSP-1 alternative conformation 4

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

116037

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 116,037 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (alternative conformation 4); box size 288 pixels, 1.073 Å/pixel.

Files:

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

We recommend using rsync, aspera, globus, etc.

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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)

13. Final particle stack for MSP-1 alternative conformation 5

Category:

picked particles - single frame - processed

Image format:

MRCS

No. of images or tilt series:

75620

Image size:

(288, 288)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(1.073, 1.073)

Details:

Final 75,620 particle stack and corresponding starfile (converted from cryoSPARC particle file using USCF pyem) for MSP-1 (alternative conformation 5); box size 288 pixels, 1.073 Å/pixel.

Files:

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

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)

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Citations

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Kong L, Zottig X, Elferich J, Grigorieff N. (2026)

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Gyawali R, Dhakal A, Wang L, Cheng J. (2026)

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.

Jones HN, Deshmukh A, Pande K. (2026)

CryoGS: High-Quality Cryo-EM Homogeneous Reconstruction by Gaussian Splatting

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Point cloud deformation modeling for particle selection following cryo-EM 2D classification.

Wang X, Mo Z, Li F, Zhang F, Wan X. (2026)

ICECREAM: high-fidelity equivariant cryo-electron tomography.

Kishore V, Debarnot V, Righetto RD, Engel BD, Dokmanić I. (2026)