Electron Microscopy Public Image Archive
Electron Microscopy Public Image Archive
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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 |
|---|---|---|---|---|---|
| 2021-09-24 |  |
'Freed' nucleosome isolated from non-crosslinked interphase chromosome in Xenopus egg extract lot2 [multiple data sets in TIFF format] | Arimura YA, Funabiki HF [Pubmed: 34478647] [DOI: 10.1016/j.molcel.2021.08.010] EMD-23826 |
1.1 TB | 5.44 Å |
| 2022-11-29 |  |
1.42 Angstrom Apoferritin structure determined using G1 Titan krios S-FEG operated at 300kV, zero loss imaging using Gatan BioQuantum energy filter operated at 10eV slit width and imaged using K2 camera. [multiple data sets in MRC format] | Venugopal H EMD-28742 |
668.6 GB | 1.42 Å |
| 2020-06-26 |  |
1.8 Å resolution structure of β-galactosidase with a 200 kV CRYO ARM electron microscope [4949 multi-frame micrographs composed of 40 frames each in TIFF format] | Merk A, Fukumura T, Zhu X, Darling JE, Grisshammer R, Ognjenovic J, Subramaniam S [Pubmed: 32695410] [DOI: 10.1107/S2052252520006855] EMD-21995,6x1q |
1.1 TB | 1.8 Å |
| 2021-03-19 |  |
1.93 A cryo-EM structure of streptavidin [2277 multi-frame micrographs composed of 70 frames each in TIFF format] | Hiraizumi M, Yamashita K, Nisihzawa T, Kikkawa M, Nureki O EMD-30913,7dy0 |
373.1 GB | 1.93 Å |
| 2021-06-09 |  |
120kV MicroED structure of FUS (37-42) SYSGYS solved from merged datasets at 0.60 A [8 diffraction images in SMV format] | Zhou H, Luo F, Luo Z, Li D, Liu C, Li X [Pubmed: 31334636] [DOI: 10.1021/acs.analchem.9b01162] EMD-0698,6kj3 |
9.2 GB | 0.6 Å |
| 2020-10-23 |  |
170314, Five-day-old Col-0 Arabidopsis thaliana root, phloem pole unloading zone (339-381 um from the root tip) [multiple data sets in MRC format] | Paterlini A, Belevich I, Jokitalo E, Helariutta Y [Pubmed: 31182845] [DOI: 10.1038/s41477-019-0429-5] |
43.2 GB | — |
| 2020-11-18 |  |
2.05 angstrom resolution structure determination of sulfur oxygenase reductase using 200kV cryo-EM [2558 multi-frame micrographs composed of 50 frames each in MRC format] | Moriya T, Adachi N, Sato Y, Arakawa T, Kawasaki M, Yamada C, Fushinobu S, Senda T [Pubmed: 32775998] [DOI: 10.1016/j.yjsbx.2020.100030] EMD-30362,EMD-30073,6m3x |
1.7 TB | 2.05 - 2.24 Å |
| 2022-11-15 |  |
2.1 Å resolution structure of β-galactosidase obtained from Glacios equipped with Falcon 3 [multiple data sets in TIFF format] | Merk A, Darling JE, Grisshammer R, Ognjenović J EMD-24887 |
4.8 TB | 2.1 Å |
| 2022-03-14 |  |
2.1Å T20S Proteosome from 200kV Glacios with Selectris Falcon 4 [4075 multi-frame micrographs composed of 854 frames each in EER format] | Koh FA, Khavnekar K, Kotecha A [Pubmed: 35377368] [DOI: 10.3791/63519] EMD-14467 |
1.5 TB | 2.1 Å |
| 2016-04-15 |  |
2.2 A resolution cryo-EM structure of beta-galactosidase in complex with a cell-permeant inhibitor [multiple data sets in MRC format] | Bartesaghi A, Merk A, Banerjee S, Matthies D, Wu X, Milne JL, Subramaniam S [Pubmed: 25953817] [DOI: 10.1126/science.aab1576] EMD-2984,5a1a |
631.2 GB | 2.2 Å |
| 2022-04-01 |  |
2.3 A structure of the ATP-dependent chromatin remodeler Chd1 bound to the nucleosome in a nucleotide-free state [multiple data sets in TIFF, MRC and MRCS formats] | Nodelman IM, Das S, Faustino AM, Fried SD, Bowman GD, Armache JP [Pubmed: 35173352] [DOI: 10.1038/s41594-021-00719-x] EMD-25479,EMD-25480,EMD-25481,EMD-25483 |
4.7 TB | 2.3 - 2.9 Å |
| 2020-05-26 |  |
2.3 Angstrom cryo-EM reconstructions of HemQ from Geobacillus [258 multi-frame micrographs composed of 100 frames each in MRCS format] | Bromberg R, Guo Y, Borek D, Otwinowski Z EMD-21373,6vsa |
1.4 TB | 2.32 Å |
| 2020-05-27 |  |
2.6 Angstrom cryo-EM reconstructions of HemQ from Geobacillus in the presence of substantial aberrations [257 multi-frame micrographs composed of 100 frames each in MRCS format] | Bromberg R, Guo Y, Borek D, Otwinowski Z EMD-21376,6vsc |
1.3 TB | 2.6 Å |
| 2020-05-27 |  |
2.7 Angstrom cryo-EM reconstructions of glucose isomerase in the presence of substantial aberrations [202 multi-frame micrographs composed of 200 frames each in MRCS format] | Bromberg R, Guo Y, Borek D, Otwinowski Z EMD-21371,6vrs |
1.0 TB | 2.7 Å |
| 2021-06-09 |  |
200kV MicroED structure of FUS (37-42) SYSGYS solved from merged datasets at 0.65 A [8 diffraction images in SMV format] | Zhou H, Luo F, Luo Z, Li D, Liu C, Li X [Pubmed: 31334636] [DOI: 10.1021/acs.analchem.9b01162] EMD-0696,6kj1 |
9.5 GB | 0.65 Å |
| 2014-01-03 |  |
2D crystal images of the potassium channel MloK1 with and without cAMP ligand [multiple data sets in TIFF format] | Kowal J, Chami M, Baumgartner P, Arheit M, Chiu P-L, Rangl M, Scheuring S, Schroeder GF, Nimigean CM, Stahlberg H [Pubmed: 24469021] [DOI: 10.1038/ncomms4106] EMD-2526,EMD-2527,4chv,4chw |
11.6 GB | 7.0 Å |
| 2020-07-14 |  |
3 Å resolution single particle reconstruction of glucosyltransferase ALG6 in nanodisc [multiple data sets in MRC and TIFF formats] | Bloch JS, Pesciullesi G, Boilevin J, Nosol K, Irobalieva RN, Darbre T, Aebi M, Kossiakoff AA, Reymond JL, Locher KP [Pubmed: 32103179] [DOI: 10.1038/s41586-020-2044-z] EMD-10258,6sni |
2.8 TB | 3.0 Å |
| 2019-12-19 |  |
3.2 Å Single-Particle Cryo-EM Reconstruction of 49 kDa Membrane-Bound PfCRT Complexed with Fab [multiple data sets in MRCS and MRC formats] | Kim JK, Tan YZT, Wicht KJW, Erramilli SKE, Dhingra SKD, Okombo JO, Vendome JV, Hagenah LMH, Giacometti SIG, Warren ALW, Nosol KN, Roepe PDR, Potter CSP, Carragher BC, Kossiakoff AAK, Quick MQ, Fidock DAF, Mancia FM [Pubmed: 31776516] [DOI: 10.1038/s41586-019-1795-x] EMD-20806,6ukj |
830.4 GB | 3.3 Å |
| 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 |
| 2021-05-14 |  |
3.9 Angstrom reconstruction of E.coli AcrB embedded in the liposome [5757 multi-frame micrographs composed of 32 frames each in MRCS format] | Yao X, Fan X, Yan N [Pubmed: 32680969] [DOI: 10.1073/pnas.2009385117] EMD-22050 |
2.4 TB | 3.9 Å |
| 2018-01-03 |  |
3D reconstruction of cardiac mitochondria in earlly prenatal (G55/57) and mid term(G58/60) and term (G66/68) GP cardiomyocyte [341 multi-frame micrographs composed of 1 frames each in TIFF format] | Kashbour H, Taggart M, White K | 1.7 GB | — |
| 2018-01-03 |  |
3D reconstruction of the cardiac mitochondria in Neaonate and Adult GP cardiomyocyte [262 multi-frame micrographs composed of 1 frames each in TIFF format] | Kashbour H, Taggart M, White K | 1.2 GB | — |
| 2018-01-03 |  |
3D reconstruction of the tubular system of preterm G55/57, mid term G58/60 and term G66/68 of guinea pig left ventricles [318 multi-frame micrographs composed of 1 frames each in TIFF format] | Kashbour H, Taggart M | 2.9 GB | — |
| 2023-01-30 |  |
3D-surface reconstruction of cellular cryo-soft X-ray microscopy tomograms using semi-supervised deep learning [7 reconstructed volumes in MRC format] | Dyhr MCA, Sadeghi M, Moynova R, Knappe C, Kepsutlu Çakmak B, Werner S, Schneider G, McNally J, Noe F, Ewers H | 23.5 GB | — |
| 2017-08-16 |  |
40 Degree Tilted Single-Particle CryoEM of Highly Preferred Orientated Influenza Hemagglutinin Trimer [multiple data sets in MRC format] | Tan YZ, Lyumkis D [Pubmed: 28671674] [DOI: 10.1038/nmeth.4347] EMD-8731 |
1.8 TB | 4.2 Å |
