EMPIAR-13721 - Cryo-EM structure of the hTUT4_mini:Lin28A:pre-let-7g_UUU complex [multiple data sets in TIFF format]

EMPIAR-13721

Cryo-EM structure of the hTUT4_mini:Lin28A:pre-let-7g_UUU complex [multiple data sets in TIFF format]

Publication:

Mechanistic insights into Lin28-dependent oligo-uridylylation of pre-let-7 by TUT4

Han X, Yamashita S, Tomita K

Nucleic acids research 54 (2026)

PMID: 41521656

DOI: 10.1093/nar/gkaf1421

Related EMDB entry:

EMD-65642 EMD-65643

Deposited:

2025-10-17

Released:

2026-10-06

Last modified:

2026-10-06

Imageset size:

7.75 TB

Imageset DOI:

10.6019/EMPIAR-13721

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. 20240719_Tomita_TUT4_3_data

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

4296

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(None, None)

Details:

- Microscope: FEI TITAN Krios
- Acceleration voltage (kV): 300
- Spherical aberration (Cs) : 2.7
- Defocus (nm): -800 to -1800
- Magnification:105000
- Detector: Gatan K3 BIOQUANTUM
- Average electron dose per image (e-/A2): 50
- Number of frames per image: 50
- The pixel size in the image header (1 Å/px) is wrong. 0.83 Å/px is the calibrated value.
- Please use 'gain.mrc' as a gain reference with y-flipping for CryoSPARC.

Files:

This entry cannot be downloaded from PDBj.

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

Depending on the number and size of files to be downloaded, this can take an enormous amount of time. Also, this feature is unstable and may not work properly, and checksums of downloaded files are not verified.

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)

2. 20240724_Tomita_TUT4_2_data

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

9977

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(None, None)

Details:

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.

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)

3. 20240808_Tomita_TUT4_1_data

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

9818

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(None, None)

Details:

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.

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. 20241129_Tomita_TUT4_gUUU_Au_1_data

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

6382

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(None, None)

Details:

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.

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. 20241129_Tomita_TUT4_gUUU_Au_2_data

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

7290

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(None, None)

Details:

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.

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)

Browse All Files

Quick Links

Browse EMPIAR

Sample Preparation Widget

Volume Browser

Tomo Viewer Prototype

Claim entries to your ORCiD

Talks and Tutorials

EMPIAR Quick tour

Publications

Re-use study

Statistics

EMPIAR in the news

COVID-19 Data Portal

EMDB

BioImage Archive

PDBe

EMNavigator@PDBj

PDBj

Citations

Post-acquisition super resolution for cryo-electron microscopy.

Burton Smith RN, Murata K. (2026)

Structural heterogeneity of CTE Type I tau filaments with an interface-shifted polymorph

Watanabe R, Lee EB. (2026)

Ligand-induced activation of RyR1 in native membranes.

Mikirtumov V, Golusik S, Huo R, Sprink T, Balyschew N, Yang W, Diebolder C, Yuan S, Kotecha A, Kudryashev M. (2026)

QwenCryoMarker: a universal post-processing framework for contamination-aware particle cleaning.

Sun Y, Zhao J, Xu N, Wang L, Ding W, Li M. (2026)

CryoMV: Structure-Prior-Guided Modeling and Real-Particle Validation of Continuous Conformational Transitions in Cryo-EM

Li F, Dong H, Tang S, Wang X, Zhang C, Ji C, Han R, Zhang F, Wan X. (2026)

An unattended image-processing pipeline for on-the-fly quality assessment and 3D exploration in cryo-EM.

Marchán Torres D, Conesa P, Garcia A, Iceta M, Broche L, Gragera M, Linares R, Kwong HS, Chichón FJ, Svensson O, Arranz R, Effantin G, Kandiah E, Carazo JM, Sorzano COS. (2026)

AlignPCA-2D: PCA-reduced Euclidean vector alignment for 2D classification in cryo-EM.

Ramírez-Aportela E, Zarrabeitia OL, Fonseca YC, Ceska T, Subramaniam S, Carazo JM, Sorzano COS. (2026)

Helical reconstruction of amyloids in cryoSPARC.

Schaefer JH, O'Neill RT, Donnelly JP, Powers ET, Kelly JW, Lander GC. (2026)

A variational framework with composite sparse regularization for cryo-electron tomography reconstruction.

Yu C, Xu Z, Zeng Q, Wan X, El-Messiry H, Zhang F, Han R. (2026)

CryoFSL: an annotation-efficient, few-shot learning framework for robust protein particle picking in cryo-electron microscopy micrographs.

Poudel B, Gyawali R, Dhakal A, Cheng J, Xu D. (2026)

See all citations

Protein Data Bank Japan News

[2026-10-06]

[wwPDB] Fifty-five years of collaborative open-access structural biology