EMPIAR-12322 - Cryo-EM micrographs for the DRT2 reverse transcriptase / ncRNA complex in resting and elongating states [multiple data sets in TIFF format]

EMPIAR-12322

Cryo-EM micrographs for the DRT2 reverse transcriptase / ncRNA complex in resting and elongating states [multiple data sets in TIFF format]

Publication:

Phage-triggered reverse transcription assembles a toxic repetitive gene from a noncoding RNA

Wilkinson ME, Li D, Gao A, Macrae RK, Zhang F

Science (New York, N.Y.) (2024)

PMID: 39208082

DOI: 10.1126/science.adq3977

Related EMDB entry:

EMD-45086 EMD-45085

Deposited:

2024-10-01

Released:

2025-06-02

Last modified:

2025-06-02

Imageset size:

6.17 TB

Imageset DOI:

10.6019/EMPIAR-12322

Experimental metadata:

Download xml json

Contains:

micrographs - multiframe

Image Sets

1. Unaligned multi-frame movies of DRT2 ribonucleoprotein complex in the resting state (no added dNTPs)

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

28211

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.663, 0.663)

Details:

Data collected at MIT.nano on Thermo Scientific Titan Krios G3i cryo-TEM

Voltage 300 keV
Camera Gatan K3, super-resolution mode with 2-fold binning by EPU
Energy filter GIF, 20eV slit width
Magnification 130000
Pixel size 0.663 A/pix
Dose 40 e/A2
Exposure rate 19.9 e/pix/s
Exposure time 0.9 s
Fractions 40

Total mics 14220 (grid 1)
13991 (grid 2)

Each grid has its own "gainref.mrc" gain reference file. These weres binned using 'rebin by two' in Digital Micrograph. They need to be flipped for use in RELION motion correction (Gain flip: Flip upside down (1) ). It can be used as is for cryoSPARC.

particles_resting.star contains metadata for the 230,001 particles refined for the resting state (EMDB 45085).

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2. Unaligned multi-frame movies of DRT2 ribonucleoprotein complex in the elongating state (+dNTPs)

Category:

micrographs - multiframe

Image format:

TIFF

No. of images or tilt series:

18453

Image size:

(5760, 4092)

Pixel type:

UNSIGNED BYTE

Pixel spacing:

(0.663, 0.663)

Details:

Data collected at MIT.nano on Thermo Scientific Titan Krios G3i cryo-TEM

Voltage 300 keV
Camera Gatan K3, super-resolution mode with 2-fold binning by EPU
Energy filter GIF, 20eV slit width
Magnification 130000
Pixel size 0.663 A/pix
Dose 40 e/A2
Exposure rate 20.4
Exposure time 0.87 s
Fractions 40

Total mics 18453

Each grid has its own "gainref.mrc" gain reference file. These were binned using 'rebin by two' in Digital Micrograph. They need to be flipped for use in RELION motion correction (Gain flip: Flip upside down (1) ). It can be used as is for cryoSPARC.

particles_elongating.star contains metadata for the 136,601 particles refined for the elongating state (EMDB 45086).

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)

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Citations

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Abe KM, Li G, He Q, Grant T, Lim CJ. (2024)

Outer membrane protein assembly mediated by BAM-SurA complexes.

Fenn KL, Horne JE, Crossley JA, Böhringer N, Horne RJ, Schäberle TF, Calabrese AN, Radford SE, Ranson NA. (2024)

Ubiquitinated histone H2B as gatekeeper of the nucleosome acidic patch.

Hicks CW, Rahman S, Gloor SL, Fields JK, Husby NL, Vaidya A, Maier KE, Morgan M, Keogh MC, Wolberger C. (2024)

Molecular recognition of an odorant by the murine trace amine-associated receptor TAAR7f.

Gusach A, Lee Y, Khoshgrudi AN, Mukhaleva E, Ma N, Koers EJ, Chen Q, Edwards PC, Huang F, Kim J, Mancia F, Veprintsev DB, Vaidehi N, Weyand SN, Tate CG. (2024)

The novel ribosome biogenesis inhibitor usnic acid blocks nucleolar pre-60S maturation.

Kofler L, Grundmann L, Gerhalter M, Prattes M, Merl-Pham J, Zisser G, Grishkovskaya I, Hodirnau VV, Vareka M, Breinbauer R, Hauck SM, Haselbach D, Bergler H. (2024)

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