EMPIAR-11815 - Cryo-EM of SARS-CoV-1 5' proximal stem-loop 5 [multiple data sets in TIFF and MRC formats]

EMPIAR-11815

Cryo-EM of SARS-CoV-1 5' proximal stem-loop 5 [multiple data sets in TIFF and MRC formats]

Publication:

Tertiary folds of the SL5 RNA from the 5' proximal region of SARS-CoV-2 and related coronaviruses

Kretsch RC, Xu L, Zheludev IN, Zhou X, Huang R, Nye G, Li S, Zhang K, Chiu W, Das R

Proceedings of the National Academy of Sciences of the United States of America 121 (2024)

PMID: 38427602

DOI: 10.1073/pnas.2320493121

Related EMDB entry:

EMD-42816

Deposited:

2023-11-28

Released:

2024-04-02

Last modified:

2024-04-02

Imageset size:

2.37 TB

Imageset DOI:

10.6019/EMPIAR-11815

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe
picked particles - single frame - processed

Image Sets

1. Unaligned multi-frame micrographs of SARS-CoV-1 5' stem-loop 5 RNA

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

10376

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.86, 0.86)

Details:

These micrographs were collected with a Titan Krios G3i, 300kV, using a BioQuantum energy filter with slit size 20eV, and a K3 detector. Over the collection, the sample was exposed evenly to 50 electrons per angstrom squared with a total exposure time of 0.59 seconds. Desired defocuses ranged from -1 to -2 nm. The exposures are not gain corrected, the gain reference can be found at data/SARS-CoV-1_SL5/exposures/K3-18210041 Gain Ref. x1.m1.mrc.

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2. Extracted particles and orientations for final reconstruction of SARS-CoV-1 5' stem-loop 5 RNA.

Category:

picked particles - single frame - processed

Image format:

MRC

No. of images or tilt series:

220917

Image size:

(380, 380)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.86, 0.86)

Details:

Particles extracted from motion-corrected micrographs. The orientations for the final reconstruction can be found in data/SARS-CoV-1_SL5/particles/P18_J107_particles_exported.cs.

Files:

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Citations

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

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

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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)

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)

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

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

Laser flash melting cryo-EM samples to overcome preferred orientation.

Straub MS, Harder OF, Mowry NJ, Barrass SV, Hruby J, Drabbels M, Lorenz UJ. (2025)

In situ structure determination of conformationally flexible targets using nextPYP.

Liu HF, Zhou Y, Huang Q, Martin J, Bartesaghi A. (2025)

EMICSS: added-value annotations for EMDB entries.

Duraisamy AK, Fonseca N, Kleywegt GJ, Patwardhan A, Morris KL. (2025)

Global conformations of <i>Pichia pastoris</i> complex I are distinguished by the binding of a unique interdomain bridging subunit.

Lee CS, Grba DN, Wright JJ, Ivanov BS, Hirst J. (2025)

Overcoming Preferred Orientation in Cryo-EM With Ultrasonic Excitation During Vitrification

Williams HM, Curtis WA, Haubner M, Hruby J, Drabbels M, Lorenz UJ. (2025)

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