EMPIAR-PDBj - Electron Microscopy Public Image Archive

ストレージ復旧に関する情報 (Updated: 2026年6月5日19:05)

現在、ストレージの障害により、一部データセットがアクセスできないか不完全な状態（Marked: Incomplete dataset）になっています。
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大阪大学のEMPIAR-PDBjチームでは、アジアの電顕研究者が、EMPIARデータベースに大きな電顕画像を転送するお手伝いをしています。ネットワークでイギリスに転送する代わりに、ハードディスク自体を郵送・宅配便で大阪大学に送付、あるいは阪大のサーバまでネットワーク転送していただければ、こちらで仲介して登録サイトへの転送を代行します。 EMPIARへの登録を希望する方で、阪大へのデータ送付・転送をご希望の方は、まず、e-mail で、登録したい電顕画像データについて、ご相談ください。

Release date	Imageset	Title	Authors and references	Size	Resolution
2026-05-18	EMPIAR-13250	E. coli 70S ribosome bound to Sarecycline [3818 multi-frame micrographs composed of 40 frames each in TIFF format]	Devarkar SC, Lomakin IB, Wang J, Grada A, Bunick CG [DOI: 10.1038/s41467-026-72788-9] EMD-71668 9pii	1.7 TB	2.4 Å
2026-05-18	EMPIAR-13251	E. coli 70S ribosome bound to Minocycline [4976 multi-frame micrographs composed of 35 frames each in TIFF format]	Devarkar SC, Lomakin IB, Wang J, Grada A, Bunick CG [DOI: 10.1038/s41467-026-72788-9] EMD-71669 9pij	2.2 TB	2.2 Å
2026-05-18	EMPIAR-13538	Raw data used for CS polymerase structure determination (CHSY3-CHPF) [12169 multi-frame micrographs composed of 66 frames each in TIFF format]	Dutta P, Cordeiro RL, Friedel-Arboleas M, Bourgeais M, Vallet SD, Weber M, Molinas M, Shu H, Gronset MNN, Miller RL, Boeri Erba E, Wild R [Pubmed: 41298522] [DOI: 10.1038/s41467-025-66787-5] EMD-52913 9q8z	2.3 TB	3.0 Å
2026-05-15	EMPIAR-12839	CryoEM structure of phospholipid-independent cyclised RP4 pilus [3405 multi-frame micrographs composed of 43 frames each in TIFF format]	Ishimoto N, Beis K	543.1 GB	—
2026-05-15	EMPIAR-13097	High-resolution cryo-EM structure of Maltose Binding Protein [3328 multi-frame micrographs composed of 60 frames each in EER format]	Park K, Yoo Y, Jeon H, Choi K, Kwon E, Lim H, Kim DY, No KT [Pubmed: 41980966] [DOI: 10.1038/s41467-026-71934-7] EMD-66973 9xko	2.2 TB	2.35 Å
2026-05-13	EMPIAR-13326	Cryo-electron tomography of the actin cortex of NIH 3T3 fibroblasts upon regulation of membrane-to-cortex attachment [multiple data sets in TIFF and MRC formats]	Gérard SF, Cheng DCW, Toro-Nahuelpan M, Mahamid J, Diz-Munoz A [DOI: 10.1038/s41467-026-72845-3]	804.3 GB	—
2026-05-13	EMPIAR-13466	CryoEM reconstruction of coxsackievirus B1 virus-like particle with VP4 deletion [8020 multi-frame micrographs composed of 40 frames each in EER format]	Levanova AA, Ahmad KLL, Gurianov S, Butcher SJ [Pubmed: 41888844] [DOI: 10.1186/s12929-026-01229-y] EMD-56033 9tkm	4.9 TB	2.7 Å
2026-05-13	EMPIAR-13474	Cryo-EM raw movies of 2'-F-pyrimidine RNA origami - 'Traptamer' origami device with dye DFHBI-1T present [3360 multi-frame micrographs composed of 56 frames each in TIFF format]	Kristoffersen EL, Hansen K, Zwergius NH, Andersen ES EMD-55635	1.5 TB	9.9 Å
2026-05-13	EMPIAR-13477	Cryo-EM raw movies of 2'-F-pyrimidine RNA origami - 6-helix bundle (6HB) origami monomer [3360 multi-frame micrographs composed of 56 frames each in TIFF format]	Kristoffersen EL, Hansen K, Zwergius NH, Andersen ES EMD-53803 9r82	628.8 GB	9.33 Å
2026-05-13	EMPIAR-13536	Single particle raw data of falcilysin in the absence of MK-4815 [18180 multi-frame micrographs composed of 765 frames each in EER format]	LIN J.Q., Yan X, Lescar J [Pubmed: 39217277] [DOI: 10.1038/s42003-024-06774-6] EMD-37940 EMD-37941 8wyx 8wyy	5.1 TB	3.1 - 3.5 Å
2026-05-13	EMPIAR-13546	Single particle raw data of falcilysin in the presence of MK-4815 [6764 multi-frame micrographs composed of 783 frames each in EER format]	LIN J.Q., Yan X, Lescar J [Pubmed: 39217277] [DOI: 10.1038/s42003-024-06774-6] EMD-37938 EMD-37939 8wyt 8wyu	1.9 TB	2.7 - 3.2 Å
2026-05-05	EMPIAR-13098	High-resolution cryo-EM structure of human Polo-like kinase 1 in complex with onvansertib [13011 multi-frame micrographs composed of 36 frames each in TIFF format]	Park K, Yoo Y, Jeon H, Choi K, Kwon E, Lim H, Kim DY, No KT [Pubmed: 41980966] [DOI: 10.1038/s41467-026-71934-7] EMD-68616 22rd	1.8 TB	3.38 Å
2026-05-05	EMPIAR-13508	Mouse heavy-chain apoferritin on continuous carbon from 300 kV Titan Krios [3417 multi-frame micrographs composed of 414 frames each in EER format]	Fromm SA, Mattei S EMD-57470	678.7 GB	1.09 Å
2026-05-05	EMPIAR-13509	Mouse heavy-chain apoferritin on continuous carbon from 200 kV Glacios [3033 multi-frame micrographs composed of 648 frames each in EER format]	Fromm SA, Mattei S EMD-57471	866.3 GB	1.62 Å
2026-05-05	EMPIAR-13511	33,592 raw cryo-EM images of B. megaterium gas vesicles at 1.518 A per pixel [multiple data sets in EER, MRC and JPEG formats]	Huber ST, Jakobi AJ [Pubmed: 36868215] [DOI: 10.1016/j.cell.2023.01.041] EMD-14238 7r1c	16.7 TB	3.2 Å
2026-05-05	EMPIAR-13517	Raw multi-frame images of SUR1/Kir6.2 ATP-sensitive potassium channel in the presence of Aekatperone and ATP [31513 multi-frame micrographs composed of 74 frames each in TIFF format]	Driggers CM, Elsheikh A, Shyng SL [Pubmed: 40135739] [DOI: 10.7554/eLife.103159] EMD-46820 9dfx	16.3 TB	4.1 Å
2026-05-02	EMPIAR-13388	Cryo-EM micrographs of the clathrin adaptor complex AP-2 and the assembly chaperone CCDC32; dataset contains multiple assembly and conformational states [multiple data sets in TIFF format]	Sloan DE, Yanagisawa H, Kikkawa M, Baker RW [Pubmed: 40799577] [DOI: 10.1101/2025.08.05.668722] EMD-71905 EMD-71906 EMD-71907 EMD-71909 EMD-71910 EMD-71911 EMD-71912 EMD-71913 EMD-71914 9pwa 9pwb 9pwc	17.7 TB	2.55 - 3.06 Å
2026-05-01	EMPIAR-12944	Unbend:Local correction of beam-induced sample motion in cryo-EM images using 3D spline model [1 multi-frame micrographs composed of 75 frames each in TIFF format]	Lingli Kong XZ, Johannes Elferich JE, Ximena Zottig XZ, Nikolaus Grigorieff NG	42.7 GB	—
2026-05-01	EMPIAR-12991	Single-particle cryo-EM dataset of H. neapolitanus CsoSCA in oxidizing conditions (active) [multiple data sets in TIFF and MRC formats]	Gaullier G, Vogiatzi N, Blikstad C [DOI: 10.64898/2026.04.02.716132] EMD-54972 EMD-54973 EMD-54974 9skr 9sks 9skt	1.3 TB	2.13 - 2.45 Å
2026-05-01	EMPIAR-12992	Single-particle cryo-EM dataset of H. neapolitanus CsoSCA in reducing conditions (inactive) [multiple data sets in TIFF and MRC formats]	Gaullier G, Vogiatzi N, Blikstad C [DOI: 10.64898/2026.04.02.716132] EMD-54975 EMD-54976 EMD-54977 9sku 9skv 9skw	1.3 TB	2.06 - 2.27 Å
2026-05-01	EMPIAR-12993	Single-particle cryo-EM dataset of H. neapolitanus CsoSCA C283A/C284A inactive mutant [multiple data sets in TIFF and MRC formats]	Gaullier G, Vogiatzi N, Blikstad C [DOI: 10.64898/2026.04.02.716132] EMD-54978 EMD-54979 EMD-54980 9skx 9sky 9skz	1.7 TB	2.08 - 2.22 Å
2026-04-28	EMPIAR-12940	Human Argonaute1 WT with BS3 [2453 multi-frame micrographs composed of 50 frames each in TIFF format]	Savidge A, Nakanishi K, Shen Z, Fu T, Adhav V [Pubmed: 41237208] [DOI: 10.1073/pnas.2524644122] EMD-72193 9q3g	1.2 TB	3.3 Å
2026-04-28	EMPIAR-13380	Structure of Mycobacterium tuberculosis pyruvate dehydrogenase complex E2p core subunit DlaT [17054 multi-frame micrographs composed of 75 frames each in TIFF format]	Hsu HC, Li H [Pubmed: 41690596] [DOI: 10.1016/j.jbc.2026.111284] EMD-72630 EMD-72639 9y6t 9y72	—	2.51 - 2.65 Å
2026-04-28	EMPIAR-13496	Cryo-EM of SARS-CoV-2 frame shift stimulation element [multiple data sets in MRC format]	Zhang K, Zheludev IN, Hagey RJ, Haslecker R, Hou YJ, Kretsch R, Pintilie GD, Rangan R, Kladwang W, Li S, Wu MT, Pham EA, Bernardin-Souibgui C, Baric RS, Sheahan TP, D'Souza V, Glenn JS, Chiu W, Das R [Pubmed: 32743589] [DOI: 10.1101/2020.07.18.209270] EMD-22296 EMD-22297 6xrz	3.7 TB	6.4 - 6.9 Å
2026-04-27	EMPIAR-12942	Unbend:Local correction of beam-induced sample motion in cryo-EM images using 3D spline model [1 multi-frame micrographs composed of 30 frames each in TIFF format]	Lingli Kong XZ, Johannes Elferich JE, Ximena Zottig XZ, Nikolaus Grigorieff NG	18.1 GB	—

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Citations

CryoFSL: an annotation-efficient, few-shot learning framework for robust protein particle picking in cryo-electron microscopy micrographs.

Poudel B, Gyawali R, Dhakal A, Cheng J, Xu D. (2026)

CryoSIP: unleashing protein high-resolution Cryo-EM via semantic-instance collaborative picking.

Deng Y, Wang S, Xiang M, Li Y, Zhuo L, Cao D, Fu X, Zou Q. (2026)

prismPYP: Power-spectrum and image domain learning for self-supervised micrograph evaluation.

He L, Bartesaghi A. (2026)

Unbend, correction of local beam-induced sample motion in cryo-EM images using a 3D spline model.

Kong L, Zottig X, Elferich J, Grigorieff N. (2026)

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Fonseca N, Duraisamy AK, Wang Z, Somasundharam S, Tayebinia M, de Oliveira LC, Ma M, Turner J, Patwardhan A, Kleywegt GJ, Hartley M, Morris KL. (2026)

CryoVirusDB: An Annotated Dataset for AI-Based Virus Particle Identification in Cryo-EM Micrographs.

Gyawali R, Dhakal A, Wang L, Cheng J. (2026)

Dual site targeting of the bacterial 70S ribosome by tetracyclines.

Devarkar SC, Lomakin IB, Wang J, Grada A, Bunick CG. (2026)

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements.

Jones HN, Deshmukh A, Pande K. (2026)

CryoGS: High-Quality Cryo-EM Homogeneous Reconstruction by Gaussian Splatting

Zeng B, Liu S, Cheng S, Xu G, Fan H. (2026)

Point cloud deformation modeling for particle selection following cryo-EM 2D classification.

Wang X, Mo Z, Li F, Zhang F, Wan X. (2026)

See all citations

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