Electron Microscopy Public Image Archive
Electron Microscopy Public Image Archive
The EMPIAR-PDBj team at Osaka University assists Asian EM researchers with the transfer of big EM image data to EMPIAR. Instead of sending the data directly to the EBI (UK) via the internet, hard drives can also be sent to Osaka University by postal mail or via a courier service. As an alternative, internet transfer to our server in Osaka is also available. If you would like to take advantage of our submission services, please contact us first by e-mail before sending the data to us.
We have seen a large number of SARS-CoV-2 structures being determined rapidly and deposited into the PDB and EMDB, which provides a starting point for structure-guided drug discovery. In order to validate and reanalyze the data by the cryo-EM community, we would like to make the following urgent appeal. a) If you have deposited any cryo-EM structures related to SARS-CoV-2 to the EMDB (and possibly the PDB), please deposit the raw data to EMPIAR. b) If you have collected cryo-EM data related to SARS-CoV-2 but have not yet deposited a structure, please consider depositing the raw data to EMPIAR, so that the cryo-EM community could contribute to processing and model-building.
| Release date | Imageset | Title | Authors and references | Size | Resolution |
|---|---|---|---|---|---|
| 2020-04-17 |  |
Cryo micrographs of microtubules (GDP state) decorated with NDC-NDC chimera of human doublecortin [950 multi-frame micrographs composed of 32 frames each in MRC format] | Cook AD, Manka SW, Wang S, Moores CA, Atherton J [Pubmed: 31610239] [DOI: 10.1016/j.jsb.2019.10.004] EMD-10195 |
50.4 GB | 4.5 Å |
| 2020-12-11 |  |
Integrative imaging reveals SARS-CoV-2 induced reshaping of subcellular morphology [multiple data sets in MRC, BIG DATA VIEWER HDF5 and TIFF formats] | Cortese M, Lee JY, Cerikan B, Neufeldt CJ, Oorschot VMJ, Köhrer S, Hennies J, Schieber NL, Ronchi P, Mizzon G, Romero-Brey I, Santarella-Mellwig R, Schorb M, Boermel M, Mocaer K, Beckwith MS, Templin RM, Gross V, Pape C, Tischer C, Frankish J, Horvat NK, Laketa V, Stanifer M, Boulant S, Ruggieri A, Chatel-Chaix L, Schwab Y, Bartenschlager R [Pubmed: 33245857] [DOI: 10.1016/j.chom.2020.11.003] EMD-12940 |
1.1 TB | — |
| 2021-03-05 |  |
3.2 Å resolution structure of a functional monomeric Photosystem I from Thermosynechococcus elongatus BP-1 by single particle cryo-EM with a 200 kV CRYO ARM electron microscope [904 multi-frame micrographs composed of 60 frames each in TIFF format] | Coruh O, Frank A, Tanaka H, Kawamoto A, El-Mohsnawy E, Kato T, Namba K, Gerle C, Nowaczyk MM, Kurisu G [Pubmed: 33686186] [DOI: 10.1038/s42003-021-01808-9] EMD-0977,6lu1 |
226.1 GB | 3.2 Å |
| 2021-04-22 |  |
Human thyroglobulin [multiple data sets in TIFF format] | Coscia F, Taler-Vercic A, Chang VT, Sinn L, O'Reilly FJ, Izore T, Renko M, Berger I, Rappsilber J, Turk D, Löwe J [Pubmed: 32025030] [DOI: 10.1038/s41586-020-1995-4] EMD-10141,6scj |
1.7 TB | 3.6 Å |
| 2022-05-31 |  |
FIB-SEM of U2OS cell at leading edge of a wound assay, LPA stimulated, polarized [1798 multi-frame micrographs composed of 1 frames each in TIFF format] | Costa J, Pinto A, Machado P | 4.1 GB | — |
| 2022-05-31 |  |
FIB-SEM of U2OS cell at leading edge of a wound assay, non-LPA stimulated, non-polarized [998 multi-frame micrographs composed of 1 frames each in TIFF format] | Costa J, Pinto A, Machado P | 5.7 GB | — |
| 2020-12-09 |  |
Single particle cryo-EM dataset for MlaFEDB from E. coli in nanodisc [multiple data sets in MRC and MRCS formats] | Coudray N, Isom GL, MacRae M, Saiduddin MN, Bhabha G, Ekiert DC [Pubmed: 33236984] [DOI: 10.7554/eLife.62518] EMD-22116,6xbd |
5.2 TB | 3.05 Å |
| 2021-07-02 |  |
Affinity-purified RqcH-DR-ribosome-associated quality control complexes from Bacillus subtilis [2510 multi-frame micrographs composed of 30 frames each in TIFF format] | Crowe-McAuliffe C, Takada H, Murina V, Atkinson GC, Wilson DN, Hauryliuk V [Pubmed: 34255840] [DOI: 10.1093/nar/gkab589] EMD-13017,7ope |
213.5 GB | 3.2 Å |
| 2022-02-24 |  |
Affinity-purified PoxtA in complex with 70S ribosomes from Enterococcus faecalis [3640 multi-frame micrographs composed of 40 frames each in TIFF format] | Crowe-McAuliffe CT, Murina V, Hauryliuk V, Wilson DN [Pubmed: 35387982] [DOI: 10.1038/s41467-022-29274-9] EMD-13241,7p7q |
321.8 GB | 2.4 Å |
| 2021-05-03 |  |
Affinity-purified LsaA in complex with 70S ribosomes from Enterococcus faecalis [420 multi-frame micrographs composed of 40 frames each in TIFF format] | Crowe-McAuliffe CT, Murina V, Hauryliuk V, Wilson DN [Pubmed: 34117249] [DOI: 10.1038/s41467-021-23753-1] EMD-12331,7nhk |
82.3 GB | 2.9 Å |
| 2021-05-07 |  |
Affinity-purified VgaA-LC in complex with 70S ribosomes from Staphylococcus aureus [3348 multi-frame micrographs composed of 20 frames each in TIFF format] | Crowe-McAuliffe CT, Murina V, Hauryliuk V, Wilson DN [Pubmed: 34117249] [DOI: 10.1038/s41467-021-23753-1] EMD-12332,EMD-12333,7nhl,7nhm |
241.0 GB | 3.1 Å |
| 2021-05-03 |  |
Affinity-purified VgaL in complex with 70S ribosomes from Listeria monocytogenes [1834 multi-frame micrographs composed of 20 frames each in TIFF format] | Crowe-McAuliffe CT, Murina V, Hauryliuk V, Wilson DN [Pubmed: 34117249] [DOI: 10.1038/s41467-021-23753-1] EMD-12334,7nhn |
146.0 GB | 2.9 Å |
| 2021-02-05 |  |
Affinity-purified RqcH-ribosome-associated quality control complexes from Bacillus subtilis [7178 multi-frame micrographs composed of 20 frames each in TIFF format] | Crowe-McAuliffe CT, Takada H, Murina V, Atkinson GC, Wilson DN, Hauryliuk V [Pubmed: 33259810] [DOI: 10.1016/j.molcel.2020.11.002] EMD-11889,EMD-11890,EMD-11891,EMD-11913,EMD-11914,EMD-11915,7as8,7as9,7asa |
514.6 GB | 2.6 - 3.5 Å |
| 2021-02-05 |  |
Affinity-purified RqcP/YabO-ribosome-associated quality control complexes from Bacillus subtilis [5416 multi-frame micrographs composed of 20 frames each in TIFF format] | Crowe-McAuliffe CT, Takada H, Murina V, Atkinson GC, Wilson DN, Hauryliuk V [Pubmed: 33259810] [DOI: 10.1016/j.molcel.2020.11.002] EMD-11891,EMD-11916,EMD-11917,EMD-11918,EMD-11919,EMD-11920,7asa |
358.1 GB | 2.6 - 4.9 Å |
| 2021-11-30 |  |
Entropy Regularized Deconvolution of Cellular Cryo-Transmission Electron Tomograms [3 tilt series in MRC format] | Croxford MW, Elbaum ME, Arigovindan M, Kam Z, Agard DA, Villa E, Sedat J [Pubmed: 34876518] [DOI: 10.1073/pnas.2108738118] EMD-24435 |
6.4 GB | — |
| 2021-11-30 |  |
Entropy Regularized Deconvolution of Cellular Cryo-Transmission Electron Tomograms [2 tilt series in MRC format] | Croxford MW, Elbaum ME, Arigovindan M, Kam Z, Agard DA, Villa E, Sedat J [Pubmed: 34876518] [DOI: 10.1073/pnas.2108738118] EMD-24433 |
5.2 GB | — |
| 2021-04-14 |  |
In situ cryo-electron tomogram of a pyrenoid inside a Chlamydomonas reinhardtii cell (tilt series) [1 tilt series in MRC format] | Cuellar LK, Schaffer M, Martinez-Sanchez A, Plitzko JM, Foerster F, Engel BD [Pubmed: 28938114] [DOI: 10.1016/j.cell.2017.08.008] EMD-12749 |
5.8 GB | — |
| 2017-12-18 |  |
CryoET of apoferritin single particle [multiple data sets in MRC format] | Dandey VP, Wei H, Brasch J, Chase J, Acharya P, Tan YZ, Zhang Z, Kim LY, Scapin G, Rapp M, Eng ET, Rice MJ, Cheng A, Negro CJ, Shapiro L, Kwong PD, Jeruzalmi D, des Georges A, Potter CS, Carragher B [Pubmed: 29809143] [DOI: 10.7554/eLife.34257] EMD-7146 |
29.2 GB | — |
| 2017-12-18 |  |
CryoET of T20S proteasome single particle [multiple data sets in MRC format] | Dandey VP, Wei H, Brasch J, Chase J, Acharya P, Tan YZ, Zhang Z, Kim LY, Scapin G, Rapp M, Eng ET, Rice MJ, Cheng A, Negro CJ, Shapiro L, Kwong PD, Jeruzalmi D, des Georges A, Potter CS, Carragher B [Pubmed: 29809143] [DOI: 10.7554/eLife.34257] EMD-7153 |
12.4 GB | — |
| 2021-10-26 |  |
The CryoEM Structure of Drosophila Flight Muscle Thick Filaments at 7Å Resolution [1510 multi-frame micrographs composed of 44 frames each in MRC format] | Daneshparvar N, Taylor DW, O'Leary TS, Rahmani H, Abbasiyeganeh F, Previs MJ, Taylor KA [Pubmed: 32718994] [DOI: 10.1101/2020.06.05.136580] EMD-22217,EMD-22218 |
12.0 TB | 7.0 - 8.0 Å |
| 2020-11-24 |  |
Krios G4 apoferritin test with K3/BioQuantum SerialEM BIS 3x3x1 [2391 multi-frame micrographs composed of 76 frames each in TIFF format] | Danev R [Pubmed: 33969878] [DOI: 10.1093/jmicro/dfab016] EMD-30683 |
659.0 GB | 1.31 Å |
| 2020-12-11 |  |
Krios G4 apoferritin test with Falcon 4 (no filter) EPU 1x1x4 [3540 multi-frame micrographs composed of 720 frames each in EER format] | Danev R [Pubmed: 33969878] [DOI: 10.1093/jmicro/dfab016] EMD-30684 |
879.2 GB | 1.43 Å |
| 2020-12-02 |  |
Krios G4 apoferritin test with K3/BioQuantum SerialEM BIS 1x1x4 [3472 multi-frame micrographs composed of 76 frames each in TIFF format] | Danev R [Pubmed: 33969878] [DOI: 10.1093/jmicro/dfab016] EMD-30685 |
966.0 GB | 1.35 Å |
| 2020-12-07 |  |
Krios G4 apoferritin test with K3/(slit out) SerialEM BIS 1x1x4 [4184 multi-frame micrographs composed of 76 frames each in TIFF format] | Danev R [Pubmed: 33969878] [DOI: 10.1093/jmicro/dfab016] EMD-30686 |
1.2 TB | 1.43 Å |
| 2016-03-16 |  |
Volta phase plate in-focus dataset of T20S proteasome [158 multi-frame micrographs composed of 12 frames each in MRC format] | Danev R, Baumeister W [Pubmed: 26949259] [DOI: 10.7554/eLife.13046] EMD-3347 |
50.3 GB | 3.2 Å |
