EMPIAR-10387 - Structural basis for strand-transfer inhibitor binding to HIV intasomes [multiple data sets in MRC format]

EMPIAR-10387

Structural basis for strand-transfer inhibitor binding to HIV intasomes [multiple data sets in MRC format]

Publication:

Structural basis for strand-transfer inhibitor binding to HIV intasomes

Passos DO, Li M, Jóźwik IK, Zhao XZ, Santos-Martins D, Yang R, Smith SJ, Jeon Y, Forli S, Hughes SH, Burke TR, Craigie R, Lyumkis D

Science (New York, N.Y.) 367 (2020) 810-814

PMID: 32001521

DOI: 10.1126/science.aay8015

Related EMDB entry:

EMD-20484

Deposited:

2020-03-26

Released:

2020-06-30

Last modified:

2020-06-30

Imageset size:

544.60 GB

Imageset DOI:

10.6019/EMPIAR-10387

Experimental metadata:

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Compressed by PDBj:

Image formats and pixel types shown below are those of the original, non-compressed files.

MRC movies (*frames.mrc) in this entry were compressed by bzip2 (pbzip2)
by EMPIAR Japan to save space and bandwidth.

Some programs (e.g. RELION >= 4.0.1 and CryoSPARC) can process compressed movies without explicit
decompression. For other programs, movies have to be decompressed beforehand. In this case,
you might want to convert decompressed MRC movies into TIFF to save your local storage.

We found that this entry contains many junk files (probably rsync's temporary files),
for example data/Rawdata/.18jul30a_00051sq_v01_00013hl_00003ed37.frames.mrc.7i1h3S.
We removed them.

Original size:   4,503,082,232 kilobytes
Compressed size:   378,469,379 kilobytes

Contains:

micrographs - single frame
micrographs - multiframe

Image Sets

1. Aligned, summed and exposure weighted micrographs of HIV-1 intasome bound to compound 4d.

Category:

micrographs - single frame

Image format:

MRC

No. of images or tilt series:

2022

Image size:

(3710, 3838)

Pixel type:

32 BIT FLOAT

Pixel spacing:

(0.79, 0.79)

Details:

Aligned, summed and exposure weighted micrographs of HIV-1 intasome bound to compound 4d. Micrographs were aligned and summed using MotionCor2, with 5 by 5 patch and exposure weighting. The first 3 frames, which had the most beam-induced movement, were discarded.

Regarding particle stack of HIV-1 intasome bound to compound 4d. Particles were extracted from aligned, exposured weighted and summed micrographs. This stack contains 138,770 particles (384 x 384 pixels) and was processed in cisTEM. Both *mrc and *par files are included.

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2. Unaligned raw movies of HIV-1 intasome bound to compound 4d

Category:

micrographs - multiframe

Image format:

MRC

No. of images or tilt series:

2024

Image size:

(3710, 3838)

Pixel type:

UNSIGNED 16 BIT INTEGER

Pixel spacing:

(0.79, 0.79)

Details:

Unaligned raw multi-frame movies of HIV-1 intasome bound to compound 4d. Movies were collected with a stage tilt angle set to 20, 30, or 40 degrees. The gain normalization reference image (norm) is included for each of the 3 sessions.

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Browse All Files

Files:

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

Structural basis for HIV-1 antagonism of host APOBEC3G via Cullin E3 ligase.

Ito F, Alvarez-Cabrera AL, Liu S, Yang H, Shiriaeva A, Zhou ZH, Chen XS. (2023)

The 2023 Nucleic Acids Research Database Issue and the online molecular biology database collection.

Rigden DJ, Fernández XM. (2023)

EMPIAR: the Electron Microscopy Public Image Archive.

Iudin A, Korir PK, Somasundharam S, Weyand S, Cattavitello C, Fonseca N, Salih O, Kleywegt GJ, Patwardhan A. (2023)

CLEMSite, a software for automated phenotypic screens using light microscopy and FIB-SEM.

Serra Lleti JM, Steyer AM, Schieber NL, Neumann B, Tischer C, Hilsenstein V, Holtstrom M, Unrau D, Kirmse R, Lucocq JM, Pepperkok R, Schwab Y. (2023)

Structure of a RecT/Redβ family recombinase in complex with a duplex intermediate of DNA annealing.

Caldwell BJ, Norris AS, Karbowski CF, Wiegand AM, Wysocki VH, Bell CE. (2022)

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