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
2022-09-27
no image
Cryo-EM structure of cyanobacterial PSI in presence of Gallium-substituted ferredoxin (GaFd) [3018 multi-frame micrographs composed of 48 frames each in TIFF format] Li J, Hamaoka N, Makino F, Kawamoto A, Lin Y, Rögner M, Nowaczyk MM, Lee YH, Namba K, Gerle C, Kurisu G
[Pubmed: 36097054]
[DOI: 10.1038/s42003-022-03926-4]
EMD-31605,7fix
598.2 GB 1.97 Å
2022-09-26
no image
In situ cryo-electron tomography of autophagic structures in S. cerevisiae [84 tilt series in MRC format] Bieber A, Capitanio C, Erdmann PS, Schulman BA, Baumeister W, Wilfling F
[Pubmed: 36122245]
[DOI: 10.1073/pnas.2209823119]
249.0 GB
2022-09-23
no image
Structure of pre-60S particle bound to DRG1(AFG2) [multiple data sets in TIFF format] Prattes M, Grishkovskaya I, Hodirnau VV, Bergler H, Haselbach D
[Pubmed: 36097293]
[DOI: 10.1038/s41594-022-00832-5]
EMD-14471,EMD-14437,7z34,7z11
3.8 TB 3.2 - 3.8 Å
2022-09-23
no image
CryoEM structure of the A.aeolicus WzmWzt transporter bound to the native O antigen [4604 multi-frame micrographs composed of 40 frames each in TIFF format] Spellmon N
[Pubmed: 36064941]
[DOI: 10.1038/s41467-022-32597-2]
EMD-27491,8dku
1.2 TB 3.2 Å
2022-09-23
no image
CryoEM structure of the nucleotide-free and open channel A.aeolicus WzmWzt transporter [3048 multi-frame micrographs composed of 40 frames each in TIFF format] Spellmon N
[Pubmed: 36064941]
[DOI: 10.1038/s41467-022-32597-2]
EMD-27494,8dl0
776.8 GB 4.1 Å
2022-09-23
no image
CryoEM structure of the A.aeolicus WzmWzt transporter bound to 3-O-methyl-D-mannose [3799 multi-frame micrographs composed of 40 frames each in TIFF format] Spellmon N
[Pubmed: 36064941]
[DOI: 10.1038/s41467-022-32597-2]
EMD-27556,8dn8
1.0 TB 3.7 Å
2022-09-23
no image
CryoEM structure of the A.aeolicus WzmWzt transporter in the presence of the native O antigen and ATP [8625 multi-frame micrographs composed of 40 frames each in TIFF format] Spellmon N
[Pubmed: 36064941]
[DOI: 10.1038/s41467-022-32597-2]
EMD-27563,EMD-27564,8dnc,8dne
2.2 TB 3.3 - 3.5 Å
2022-09-23
no image
Single particle reconstruction of the MAPK p38alpha in complex with its activating MAP2K MKK6 [multiple data sets in TIFF format] Bowler MW, Juyoux P, Pellegrini E
EMD-15233,8a8m
4.0 TB 4.0 Å
2022-09-20
no image
Human amino acid transporter EAAT2 [multiple data sets in TIFF format] Kato T, Kusakizako T, Yamashita K, Nishizawa T, Nureki O
[Pubmed: 35953475]
[DOI: 10.1038/s41467-022-32442-6]
EMD-32098,EMD-32097,7vr8,7vr7
1.5 TB 3.49 - 3.58 Å
2022-09-20
no image
Cryo-electron tomography of Cryo-FIB milled dividing E. coli ftsN SPOR domain deletion strain. [60 multi-frame micrographs composed of 4 frames each in MRC format] Navarro PP, Vettiger A, Ananda VY, Llopis PM, Allolio C, Bernhardt TG, Chao LH
[Pubmed: 36097171]
[DOI: 10.1038/s41564-022-01210-z]
EMD-27484
189.1 GB
2022-09-20
no image
Cryo-electron tomography of Cryo-FIB milled dividing E. coli ftsL* strain. [60 multi-frame micrographs composed of 4 frames each in MRC format] Navarro PP, Vettiger A, Ananda VY, Llopis PM, Allolio C, Bernhardt TG, Chao LH
[Pubmed: 36097171]
[DOI: 10.1038/s41564-022-01210-z]
EMD-27486
67.2 GB
2022-09-20
no image
Cryo-electron tomography of Cryo-FIB milled dividing E. coli envC and/or nlpD deletion strain. [60 multi-frame micrographs composed of 4 frames each in TIFF format] Navarro PP, Vettiger A, Ananda VY, Llopis PM, Allolio C, Bernhardt TG, Chao LH
[Pubmed: 36097171]
[DOI: 10.1038/s41564-022-01210-z]
EMD-27485
73.0 GB
2022-09-20
no image
Cryo-electron tomography of Cryo-FIB milled dividing E. coli. [60 multi-frame micrographs composed of 4 frames each in TIFF format] Navarro PP, Vettiger A, Ananda VY, Llopis PM, Allolio C, Bernhardt TG, Chao LH
[Pubmed: 36097171]
[DOI: 10.1038/s41564-022-01210-z]
EMD-27479
81.5 GB
2022-09-20
no image
Cryo-EM structure of Cas13bt3–guide RNA–target RNA complex [2772 multi-frame micrographs composed of 48 frames each in TIFF format] Nakagawa R, Kannan S, Altae-Tran H, Takeda SN, Tomita A, Hirano H, Kusakizako T, Nishizawa T, Yamashita K, Zhang F, Nishimasu H, Nureki O
[Pubmed: 36027912]
[DOI: 10.1016/j.molcel.2022.08.001]
EMD-32118,7vtn
616.9 GB 3.38 Å
2022-09-20
no image
Single particle cryo-EM of Saccharomyces cerevisiae virus L-BC [unaligned 30-frame TIFFs+mdocs] [10480 multi-frame micrographs composed of 30 frames each in TIFF format] Grybchuk D, Procházková M, Füzik T, Konovalovas A, Serva S, Yurchenko V, Plevka P
[Pubmed: 35986212]
[DOI: 10.1038/s42003-022-03793-z]
EMD-14194,EMD-14195,EMD-14975,EMD-14963,7qwx,7qwz,7zuf,7zts
1.1 TB 2.9 - 16.0 Å
2022-09-20
no image
Cryo-EM structure of DfgA-B at 2.54 angstrom resolution [1664 multi-frame micrographs composed of 62 frames each in TIFF format] Mori T, Moriya T, Adachi N, Kawasaki M, Senda T, Abe I
[Pubmed: 34728636]
[DOI: 10.1038/s41467-021-26585-1]
EMD-30809
1.7 TB 2.54 Å
2022-09-20
no image
Cryo-EM dataset of Candida albicans CIII, inhibitor free [3634 micrographs in MRC format] Di Trani J, Rubinstein JL
[Pubmed: 34525326]
[DOI: 10.1016/j.str.2021.08.006]
EMD-24482,7rja
227.1 GB 3.0 Å
2022-09-13
no image
Cryo-EM of ADP-F-actin [multiple data sets in TIFF and MRCS formats] Reynolds MJ, Hachicho C, Carl AG, Gong R, Alushin GM
EMD-27114,EMD-27116,EMD-27118,EMD-27119,8d13,8d15,8d17,8d18
938.5 GB 2.43 - 3.69 Å
2022-09-13
no image
Cryo-EM of ADP-Pi-F-actin [multiple data sets in TIFF and MRCS formats] Reynolds MJ, Hachicho C, Carl AG, Gong R, Alushin GM
EMD-27115,EMD-27117,8d14,8d16
2.5 TB 2.51 - 3.71 Å
2022-09-12
no image
Structures of the Cyanobacterial Phycobilisome in the Light-harvesting and Photoprotected States [multiple data sets in MRC and TIFF formats] Sauer PV, Dominguez-Martin MA, Kerfeld CA
[Pubmed: 36045294]
[DOI: 10.1038/s41586-022-05156-4]
EMD-25029,EMD-25028,EMD-25069,EMD-25070,EMD-25071,EMD-25030,EMD-25031,EMD-25032,EMD-25033,EMD-25068,7sc8,7sc7,7sc9,7sca,7scb,7scc
16.7 TB 2.1 - 3.5 Å
2022-09-09
no image
E. coli 70S-RNAP expressome complex in collided state (with NusG, 34nt intervening mRNA) [7712 multi-frame micrographs in TIFF format] [7712 multi-frame micrographs composed of 41 frames each in TIFF format] Webster MW, Takacs M, Zhu C, Vidmar V, Eduljee A, Abdelkareem M, Weixlbaumer A
[Pubmed: 32820062]
[DOI: 10.1126/science.abb5036]
EMD-11419,6ztl
2.3 TB 3.5 Å
2022-09-09
no image
Tiltseries of Coxiella burnetii [35 tilt series in MRC format] Park D, Steiner S, Shao M, Roy CR, Liu J
EMD-27105
1.1 TB 11.0 Å
2022-09-09
no image
cryo-EM structure of the rigor state wild type myosin-15-F-actin complex [1485 multi-frame micrographs composed of 40 frames each in TIFF format] Gong R, Bird JE, Alushin GM
[Pubmed: 35857845]
[DOI: 10.1126/sciadv.abl4733]
EMD-24322,EMD-26459,EMD-26462,7r91,7udt
506.7 GB 2.83 - 3.17 Å
2022-09-09
no image
cryo-EM structure of the ADP state wild type myosin-15-F-actin complex [1624 multi-frame micrographs composed of 24 frames each in TIFF format] Gong R, Bird JE, Alushin GM
[Pubmed: 35857845]
[DOI: 10.1126/sciadv.abl4733]
EMD-24399,EMD-26460,EMD-26461,7rb8,7udu
313.4 GB 3.63 - 4.15 Å
2022-09-09
no image
Cryo-EM structure of the rigor state Jordan myosin-15-F-actin complex [2641 multi-frame micrographs composed of 24 frames each in TIFF format] Gong R, Bird JE, Alushin GM
[Pubmed: 35857845]
[DOI: 10.1126/sciadv.abl4733]
EMD-24400,EMD-26464,7rb9
519.5 GB 3.76 - 4.18 Å


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Citations
Milazzo FM, Chaves-Sanjuan A, Minenkova O, Santapaola D, Anastasi AM, Battistuzzi G, Chiapparino C, Rosi A, Pich EM, Albertoni C, Marra E, Luberto L, Viollet C, Spagnoli LG, Riccio A, Rossi A, Santoro MG, Ballabio F, Paissoni C, Camilloni C, Bolognesi M, De Santis R. (2022)
Li J, Hamaoka N, Makino F, Kawamoto A, Lin Y, Rögner M, Nowaczyk MM, Lee YH, Namba K, Gerle C, Kurisu G. (2022)
Lazić I, Wirix M, Leidl ML, de Haas F, Mann D, Beckers M, Pechnikova EV, Müller-Caspary K, Egoavil R, Bosch EGT, Sachse C. (2022)
Gupta T, He X, Uddin MR, Zeng X, Zhou A, Zhang J, Freyberg Z, Xu M. (2022)
Hajarolasvadi N, Sunkara V, Khavnekar S, Beck F, Brandt R, Baum D. (2022)
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