EMPIAR-12326 - RNAP-TopoI complex on long-overhang scaffold [multiple data sets in TIFF and MRC formats]

EMPIAR-12326

RNAP-TopoI complex on long-overhang scaffold [multiple data sets in TIFF and MRC formats]

Publication:

DNA topoisomerase I acts as supercoiling sensor for transcription elongation in E. coli

Vidmar VV, Borde CB, Bruno LB, Takacs MT, Batisse CB, Saint-Andre CSA, Zhu CZ, Espeli OE, Lamour VL, Weixlbaumer AW

(---)

Related EMDB entry:

EMD-51264 EMD-51263 EMD-51269 EMD-51268

Deposited:

2024-10-03

Released:

2025-11-19

Last modified:

2025-11-19

Imageset size:

2.54 TB

Imageset DOI:

10.6019/EMPIAR-12326

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
picked particles - single frame - processed

Image Sets

1. unaligned multi-frame movies of RNAP-TopoI on long-overhang scaffold

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

16045

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.645, 0.645)

Details:

300 kV, Cs 2.7 mm, defocus range -0.8 – -2.0 um, total dose 49.91 e/A2
Gain reference file is provided in data/movies/gain.mrc

Files:

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2. all good particles of RNAP-TopoI on long-overhang scaffold

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

Image size:

(310, 310)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.9987, 0.9987)

Details:

Particles were initially picked in crYOLO (Wagner et al., Commun. Biol. 2019) and re-extracted after 2D classification & heterogeneous refinement in cryoSPARC (Punjani et al., Nat. Methods 2017)

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.

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Citations

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Ni S, Yang C, Liu Y, Zhang Y, Shi Y, Qian A, Kong R, Chang S. (2025)

High-resolution ab initio reconstruction enables cryo-EM structure determination of small particles

Kim K, Li H, Clarke OB. (2025)

CLEM-Reg: an automated point cloud-based registration algorithm for volume correlative light and electron microscopy.

Krentzel D, Elphick M, Domart MC, Peddie CJ, Laine RF, Shand C, Henriques R, Collinson LM, Jones ML. (2025)

PERC: a suite of software tools for the curation of cryoEM data with application to simulation, modeling and machine learning.

Costa-Gomes B, Greer J, Juraschko N, Parkhurst J, Mirecka J, Famili M, Rangel-Smith C, Strickson O, Lowe A, Basham M, Burnley T. (2025)

CryoEMNet driven symmetry-aware molecular reconstruction through deep learning enhanced electron microscopy.

Arora S, Pan SH, Kumar S, Singh SK, Chauhan U, Alhalabi W, Arya V, Alsulami BS, Hsu CH, Chui KT, Gupta BB. (2025)

Self-supervised learning for generalizable particle picking in cryo-EM micrographs.

Zamanos A, Koromilas P, Bouritsas G, Kastritis PL, Panagakis Y. (2025)

Localization of macromolecules in crowded cellular cryo-electron tomograms from extremely sparse labels.

Uddin MR, Ahmed AY, Tabib HMS, Tahmid MT, Alam MZU, Freyberg Z, Xu M. (2025)

Structural insight into bicarbonate-mediated carboxylation by human vitamin K-dependent carboxylase.

Wu K, Wang Z, Yao D, Li S, Wang X, Zhang Y, Cao M, Shen Y, Xing S, Wu J, Lei M, Lan P. (2025)

Conserved hydrophilic checkpoints tune FocA-mediated formate:H<sup>+</sup> symport.

Tüting C, Janson K, Kammel M, Ihling C, Lorenz J, Kyrilis FL, Hamdi F, Erdmann C, Sinz A, Sawers RG, Kastritis PL. (2025)

Icecream: High-Fidelity Equivariant Cryo-Electron Tomography

Kishore V, Debarnot V, Righetto RD, Engel BD, Dokmanić I. (2025)

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