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 |
|---|---|---|---|---|---|
| 2022-09-06 |  |
Cryo-EM images of equine apo-ferritin recorded as demonstration of MeasureIce software [626 multi-frame micrographs composed of 8 frames each in TIFF format] | Brown HG [Pubmed: 35965271] [DOI: 10.1038/s42003-022-03698-x] EMD-25619 |
127.4 GB | 1.88 Å |
| 2020-08-06 |  |
Cryo-EM Structure of GluD1-Orphan Delta Receptor Reveals a Novel Architecture in the Ionotropic Glutamate Receptor Family [3938 multi-frame micrographs composed of 40 frames each in MRC format] | Burada AP, Vinnakota R, Kumar J [Pubmed: 31925409] [DOI: 10.1038/s41594-019-0359-y] EMD-0774,6kss |
6.5 TB | 8.1 Å |
| 2020-02-18 |  |
Cryo-EM structure of an undocked innexin-6 hemichannel in phospholipids [933 micrographs in MRC format] | Burendei B, Shinozaki R, Watanabe M, Terada T, Tani K, Fujiyoshi Y, Oshima A [Pubmed: 32095518] [DOI: 10.1126/sciadv.aax3157] EMD-9971,6kff |
49.5 GB | 3.8 Å |
| 2020-02-18 |  |
Cryo-EM structure of an undocked innexin-6 hemichannel in detergent [497 micrographs in MRC format] | Burendei B, Shinozaki R, Watanabe M, Terada T, Tani K, Fujiyoshi Y, Oshima A [Pubmed: 32095518] [DOI: 10.1126/sciadv.aax3157] EMD-9972,6kfg |
26.4 GB | 3.8 Å |
| 2020-02-18 |  |
Structure of an undocked hemichannel of the N-terminal-deleted INX-6 in a nanodisc [300 micrographs in MRC format] | Burendei B, Shinozaki R, Watanabe M, Terada T, Tani K, Fujiyoshi Y, Oshima A [Pubmed: 32095518] [DOI: 10.1126/sciadv.aax3157] EMD-9973,6kfh |
15.9 GB | 3.6 Å |
| 2020-04-14 |  |
Cryo-electron tomography of E. coli minicells [17 multi-frame micrographs composed of 5 frames each in MRC format] | Burt A., Desfosses A., Gutsche I., Clare D. K [Pubmed: 32029744] [DOI: 10.1038/s41467-020-14350-9] EMD-10160 |
141.7 GB | 16.0 Å |
| 2021-08-13 |  |
Serial electron diffraction from hen egg-white lysozyme [34 diffraction images in BIG DATA VIEWER HDF5 format] | Bücker R, Hogan-Lamarre P, Mehrabi P, Schulz EC [Pubmed: 32081905] [DOI: 10.1038/s41467-020-14793-0] EMD-10090,6s2n |
17.7 GB | 1.8 Å |
| 2022-11-14 |  |
Amyloid fibril from the antimicrobial peptide aurein 3.3 [multiple data sets in TIFF and MRCS formats] | Bücker R, Seuring C, Cazey C, Veith K, Garcia-Alai M, Grünewald K, Landau M [Pubmed: 35896552] [DOI: 10.1038/s41467-022-32039-z] EMD-14168,7qv6 |
5.2 TB | 3.5 Å |
| 2022-11-15 |  |
Amyloid fibril from the antimicrobial peptide uperin 3.5 [multiple data sets in TIFF, MRC and MRCS formats] | Bücker R, Seuring C, Cazey C, Veith K, Garcia-Alai M, Grünewald K, Landau M [Pubmed: 35896552] [DOI: 10.1038/s41467-022-32039-z] EMD-14167,7qv5 |
7.4 TB | 3.0 Å |
| 2021-11-05 |  |
MukBEF(E1407Q)-MatP-DNA in the presence of ATP [multiple data sets in TIFF format] | Bürmann F, Löwe J [Pubmed: 34739874] [DOI: 10.1016/j.molcel.2021.10.011] EMD-12656,EMD-12657,EMD-12658,EMD-12659,EMD-12660,EMD-12662,EMD-12663,EMD-12664,7nyw,7nyx,7nyy,7nyz,7nz0,7nz2,7nz3,7nz4 |
8.5 TB | 3.1 - 13.0 Å |
| 2022-04-19 |  |
In situ architecture of the lipid transport protein VPS13C at ER-lysosomes membrane contacts [5 tilt series in MRC format] | Cai S [Pubmed: 35858323] [DOI: 10.1073/pnas.2203769119] EMD-26247 |
29.5 GB | 47.0 Å |
| 2018-10-22 |  |
The in situ structures of mono-, di-, and trinucleosomes in human heterochromatin [59 tilt series in MRC format] | Cai S, Böck D, Pilhofer M, Gan L [Pubmed: 30091658] [DOI: 10.1091/mbc.E18-05-0331] EMD-6948,EMD-6949,EMD-6950 |
1.9 GB | 21.0 - 24.0 Å |
| 2018-10-17 |  |
Cryo-ET reveals the macromolecular reorganization of S. pombe mitotic chromosomes in vivo [25 tilt series in MRC format] | Cai S, Chen C, Tan ZY, Huang Y, Shi J [Pubmed: 30297429] [DOI: 10.1073/pnas.1720476115] EMD-6846 |
35.1 GB | — |
| 2018-05-30 |  |
Cryo-ET of natural chromatin from Ostreococcus tauri and Saccharyomyces cerevisiae [25 class averages in MRC format] | Cai S, Song Y, Chen C, Shi J [Pubmed: 29742050] [DOI: 10.1091/mbc.E17-07-0449] EMD-6737 |
40.1 GB | — |
| 2022-08-19 |  |
Single particle cryo-EM of the human CST•Polα/Primase (POLA1 FL) complex in a recruitment state [multiple data sets in MRC format] | Cai SW [Pubmed: 35578024] [DOI: 10.1038/s41594-022-00766-y] EMD-26347 |
317.1 GB | 16.0 Å |
| 2022-08-19 |  |
Single particle cryo-EM of the human CST•Polα/Primase (POLA1ΔN) complex in a recruitment state [9885 micrographs in MRC format] | Cai SW [Pubmed: 35578024] [DOI: 10.1038/s41594-022-00766-y] EMD-26346,7u5c |
869.0 GB | 4.6 Å |
| 2022-11-11 |  |
Tilt series of SARS-CoV-2 virions, Wuhan/Alpha/Beta/Delta variants [multiple data sets in MRC format] | Calder LJ, Calcraft T, Hussain S, Harvey R, Rosenthal PB [Pubmed: 36357779] [DOI: 10.1038/s42003-022-04183-1] EMD-15182,EMD-15183,EMD-15181,EMD-15185 |
120.5 GB | 27.75 - 44.4 Å |
| 2015-03-06 |  |
T20S Proteasome at 2.8 Å Resolution [multiple data sets in MRC format] | Campbell M, Veesler D, Cheng A, Potter CS, Carragher B [Pubmed: 25760083] [DOI: 10.7554/eLife.06380] EMD-6287 |
2.0 TB | 2.8 Å |
| 2020-01-31 |  |
CryoEM dataset containing multiple conformations of the asymmetric αVβ8 integrin bound to latent TGF-β on a holey carbon grid (strongly preferred orientations) [multiple data sets in TIFF, MRC and MRCS formats] | Campbell MG, Cheng Y [Pubmed: 31955848] [DOI: 10.1016/j.cell.2019.12.030] EMD-20794,EMD-20797,EMD-20798,EMD-20799,EMD-20800,EMD-20801,EMD-20802,EMD-21125,6uja |
1.2 TB | 2.87 - 3.6 Å |
| 2020-01-31 |  |
CryoEM dataset containing multiple conformations of the asymmetric αVβ8 integrin bound to latent TGF-β on a graphene oxide grid (preferred orientations) [multiple data sets in TIFF, MRC and MRCS formats] | Campbell MG, Cheng Y [Pubmed: 31955848] [DOI: 10.1016/j.cell.2019.12.030] EMD-20794,EMD-20797,EMD-20798,EMD-20799,EMD-20800,EMD-20801,EMD-20802,EMD-21125,6uja |
2.2 TB | 2.87 - 3.6 Å |
| 2020-01-31 |  |
CryoEM dataset containing multiple conformations of the asymmetric αVβ8 integrin bound to two Fabs on a holey carbon grid (minimal preferred orientations) [multiple data sets in TIFF, MRC and MRCS formats] | Campbell MG, Cheng Y [Pubmed: 31955848] [DOI: 10.1016/j.cell.2019.12.030] EMD-20795,6ujb |
882.1 GB | 3.51 Å |
| 2021-12-16 |  |
cryoEM structure of Gi-coupled MRGPRX2 with small molecule agonist (R)-Zinc-3573 [5759 multi-frame micrographs composed of 60 frames each in TIFF format] | Can Cao CC, Jonathan Fay JF, Bryan Roth BR [Pubmed: 34789874] [DOI: 10.1038/s41586-021-04126-6] EMD-24899,7s8o |
1.7 TB | 2.58 Å |
| 2021-12-23 |  |
cryoEM structure of Gq-coupled MRGPRX4 with small molecule agonist MS47134 [4506 multi-frame micrographs composed of 60 frames each in TIFF format] | Cao C, Fay J, Roth B [Pubmed: 34789874] [DOI: 10.1038/s41586-021-04126-6] EMD-24900,7s8p |
1.3 TB | 2.6 Å |
| 2021-12-23 |  |
cryoEM structure of Gq-coupled MRGPRX2 with peptide agonist Cortistatin-14 [12299 multi-frame micrographs composed of 60 frames each in TIFF format] | Cao C, Fay J, Roth B [Pubmed: 34789874] [DOI: 10.1038/s41586-021-04126-6] EMD-24896,7s8l |
3.6 TB | 2.45 Å |
| 2021-12-23 |  |
cryoEM structure of Gq-coupled MRGPRX2 with small molecule agonist (R)-Zinc-3573 [5359 multi-frame micrographs composed of 60 frames each in TIFF format] | Cao C, Fay J, Roth B [Pubmed: 34789874] [DOI: 10.1038/s41586-021-04126-6] EMD-24898,7s8n |
1.6 TB | 2.9 Å |
