EMPIAR-12457

Cryo-ET dataset of FIB-milled mock infected (control) human monocyte-derived macrophages

Entry authors:
Publication:
Passage of the HIV capsid cracks the nuclear pore
Experiment type:
EMDB
Related EMDB entries:
.EMD-52142 (36.7Å), EMD-52138 (27.9Å), EMD-52143 (34.9Å), EMD-52141 (29.1Å), EMD-52139 (30.1Å), EMD-52140 (30.4Å), EMD-52144 (30.0Å)
Deposited:
2024-11-19
Released:
2025-01-20
Last modified:
2025-01-20
Dataset size:
324.5 GB
Dataset DOI:
10.6019/EMPIAR-12457
Funding:
.
1. German Research Foundation (DFG)
240245660
Germany
Experimental metadata:
Download xml
Contains:
tilt series
reconstructed volumes
Image not available

Image sets

1. Raw tilt-series of human macrophage cells
Category:tilt series
Image format:MRC
No. of images or tilt series:52
Image size:(4096, 4096)
Pixel type:SIGNED 16 BIT INTEGER
Pixel spacing:(2.414 Å, 2.414 Å)
Details:
.Each tilt series stack is ordered from lowest to highest tilt angle and contains already aligned tilt images (10 frames each aligned with alignframes on the fly in SerialEM). The mdoc metadata files are also provided.
2. Tilt cleaned, dose-filtered tilt-series of human macrophage cells
Category:tilt series
Image format:MRC
No. of images or tilt series:52
Image size:(4096, 4096)
Pixel type:32 BIT FLOAT
Pixel spacing:(2.414 Å, 2.414 Å)
Details:
.Tilt cleaned (see TS_cleaning_MDM-inf.csv file) and dose-filtered tilt series. These stacks were used for tomogram reconstruction in IMOD and novaCTF. The relevant alignment files (.xf and .tlt) are provided in the alignment_files folder
3. Reconstructed tomograms of human macrophage cells (4x binning and filtered with sirt-like filter)
Category:reconstructed volumes
Image format:MRC
No. of images or tilt series:52
Frames per image:1
Image size:(1024, 1024)
Pixel type:SIGNED 16 BIT INTEGER
Pixel spacing:(9.656 Å, 9.656 Å)
Details:
.Tomograms were reconstructed in IMOD with 4x binning and a sirt-like filter for better visualization. All tomograms have a z-height of 450 px (at 4x binning).
XAvailable download options:
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EMPIAR citations

Small LEA proteins mitigate air-water interface damage to fragile cryo-EM samples during plunge freezing.
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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