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subtomograms

Filter By

Current Database

  • EMDB [16]
  • EMPIAR [10]

Current status

  • REL [26]

Sample type

  • Complex [9]
  • Protein [5]
  • Cellular component [4]
  • Sample [4]
  • Virus [2]
  • Cell [1]

Organism

  • Homo sapiens [6]
  • Rattus norvegicus [5]
  • Adeno-associated dependoparvovirus b [3]
  • Mus musculus [1]
  • Helicobacter pylori [1]
  • Chlamydomonas reinhardtii [1]

EM Method

  • Subtomogram averaging [16]

Resolution

  • ≥ 8Å and < 12Å [1]
  • ≥ 12Å and < 16Å [3]
  • ≥ 16Å and < 20Å [2]
  • ≥ 20Å and < 30Å [4]
  • ≥ 30Å [6]

Model molecular weight

  • 250-500 kDa [1]
  • 1-2 MDa [4]

Release Date

  • 2026 [1]
  • 2025 [1]
  • 2024 [4]
  • 2023 [1]
  • 2022 [7]
  • 2021 [1]
  • 2018 [5]
  • 2017 [1]
  • 2016 [1]
  • 2014 [1]
  • 2010 [2]
  • 2009 [1]

Author by name

  • Baumeister W [6]
  • Beck F [5]
  • Edbauer D [5]
  • Fernandez-busnadiego R [5]
  • Frottin F [5]
  • Guo Q [5]
  • Hartl FU [5]
  • Hartmann H [5]
  • Hipp MS [5]
  • Lehmer C [5]
  • Martinez-sanchez A [5]
  • Perez-berlanga M [5]
  • Rudack T [5]
  • Chapman MS [4]
  • Hu G [4]
  • Hu GQ [4]
  • Silveria MA [4]
  • Stagg SM [4]
  • Zane GM [4]
  • Chiu W [2]
  • Danev R [2]
  • Engel BD [2]
  • Ishikawa T [2]
  • Jakana J [2]
  • King J [2]
  • Liu X [2]
  • Murata K [2]
  • Nagayama K [2]
  • Righetto RD [2]
  • Schmid MF [2]
  • Al-amoudi A [1]
  • Alford LM [1]
  • Alvarez Viar G [1]
  • Betts MJ [1]
  • Blikstad C [1]
  • Bondy AL [1]
  • Bui KH [1]
  • Cai S [1]
  • Castano Diez D [1]
  • Chong WG [1]
  • Davis J.H. [1]
  • Dietrich HM [1]
  • Diez DC [1]
  • Dohrke JN [1]
  • Dutcher S [1]
  • Dutcher SK [1]
  • Eltsov M [1]
  • Erdmann PS [1]
  • Franco AT [1]
  • Frangakis AS [1]
  • Gan L [1]
  • Geimer S [1]
  • Grubmüller H [1]
  • Guichard P [1]
  • Hallberg BM [1]
  • Hamel V [1]
  • Harastani M [1]
  • Howe A [1]
  • Huang YX [1]
  • Hwang J [1]
  • Ide T [1]
  • Igaev M [1]
  • Ilgen P [1]
  • Imai Y [1]
  • Inaba K [1]
  • Jakobs S [1]
  • James N [1]
  • Jensen GJ [1]
  • Jonic S [1]
  • Jordan MA [1]
  • Kalutskii M [1]
  • King SM [1]
  • Klena N [1]
  • Kon T [1]
  • Kumar A [1]
  • Lange F [1]
  • Laughlin T [1]
  • Le Vasseur M [1]
  • Lee JKE [1]
  • Leforestier A [1]
  • Lin WT [1]
  • Liu J [1]
  • Ma OX [1]
  • Metskas LA [1]
  • Müller V [1]
  • Ni T [1]
  • Noliyanda J [1]
  • Obbineni JM [1]
  • Oltrogge LM [1]
  • Ortega D [1]
  • Owa M [1]
  • Pacheco-fiallos B [1]
  • Pigino G [1]
  • Plaschka C [1]
  • Plitzko JM [1]
  • Powell B.M. [1]
  • Qin Z [1]
  • Ratz M [1]
  • Riedel D [1]
  • Sale WS [1]

Author by ORCID

  • Hipp MS [5]
  • Frottin F [5]
  • Martinez-sanchez A [5]
  • Edbauer D [5]
  • Fernandez-busnadiego R [5]
  • Guo Q [5]
  • Chapman MS [4]
  • Stagg SM [4]
  • Murata K [2]
  • Chiu W [2]
  • Schmid MF [2]
  • Dutcher SK [1]
  • Hwang J [1]
  • Obbineni JM [1]
  • Qin Z [1]
  • Kon T [1]
  • Franco AT [1]
  • Ishikawa T [1]
  • Owa M [1]
  • Imai Y [1]
  • King SM [1]
  • Jakobs S [1]
  • Frangakis AS [1]
  • Ratz M [1]
  • Zhu S [1]
  • Bui KH [1]
  • Riedel D [1]
  • Betts MJ [1]
  • Sale WS [1]
  • Ilgen P [1]

Journal

  • CELL [5]
  • J VIROL [4]
  • NATURE [3]
  • BIORXIV [2]
  • STRUCTURE [2]
  • CYTOSKELETON [1]
  • FRONT MOL BIOSCI [1]
  • J BACTERIOL [1]
  • NAT CELL BIOL [1]
  • NAT COMMUN [1]
  • PLOS GENET [1]
  • PLOS ONE [1]
  • PNAS [1]
  • SCIENCE [1]

Software

  • RELION [6]
  • PYTOM [5]
  • TOM TOOLBOX [5]
  • EMAN [4]
  • IMOD [2]
  • BSOFT [1]
  • CTFFIND [1]
  • DYNAMO [1]
  • SPIDER [1]
  • WARP [1]
  • XMIPP [1]

Microscope

  • FEI TITAN KRIOS [10]
  • JEOL 2200FS [3]
  • FEI POLARA 300 [1]
  • FEI TECNAI F20 [1]
  • FEI TECNAI F30 [1]

Electron Source

  • FIELD EMISSION GUN [16]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [6]
  • GATAN K3 6K X 4K [4]
  • GATAN K3 BIOQUANTUM 6K X 4K [1]
  • GATAN ULTRASCAN 1000 2K X 2K [1]
  • GENERIC CCD [1]
  • TVIPS TEMCAM-F416 4K X 4K [1]

EMPIAR Experiment type

  • EMDB [8]
  • FIB-SEM [1]
  • SSET [1]

EMPIAR Image category

  • SUBTOMOGRAMS [7]
  • MICROGRAPHS - MULTIFRAME [5]
  • TILT SERIES [5]
  • RECONSTRUCTED VOLUMES [4]
  • MICROGRAPHS - SINGLE FRAME [1]
  • PICKED PARTICLES - MULTIFRAME - PROCESSED [1]
  • PICKED PARTICLES - MULTIFRAME - UNPROCESSED [1]

External links

  • PDB [16]
  • EMDB [8]
  • AlphaFold DB [5]
  • Gene Ontology [5]
  • InterPro [5]
  • PDBe-Kb [5]
  • Pfam [5]
  • UniProt [5]
  • Complex Portal [4]
  • SCOP2 [1]
Sort by: Download
Showing 1 - 10 of 26. Page 1 of 3
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EMPIAR-13298
Cryo electron tomography of yeast FIB-milled lamella after sublimation
Release date: March 23, 2026
Dataset size: 857.7 GB
Experiment type: FIB-SEM

Bondy AL, Valentin Gese G, Thersleff T, Hallberg BM

To Be Published

Image sets:
  • Unaligned multi-frame micrographs of FIB-milled yeast lamella
EMPIAR-12555
Related EMDB
EMD-52025
Microtubule dynamics are defined by conformations and stability of clustered protofilaments - growing microtubules
Release date: June 12, 2025
Dataset size: 152.7 GB
Experiment type: EMDB

Kalutskii M, Grubmüller H, Volkov VA, Igaev M

Proc Natl Acad Sci U S A (2025) 122 [ DOI: 10.1073/pnas.2424263122 Pubmed: 40440074 ]

Image sets:
  • Unaligned multiframe micrographs / tilt series of growing microtubules, repeat 2
  • Reconstructed tomographic densities of growing microtubules, repeat 3
  • Unaligned multiframe micrographs / tilt series of growing microtubules, repeat 1
  • Unaligned multiframe micrographs / tilt series of growing microtubules, repeat 4
[Show more]
EMD-19459
Download Map
3D View
The human prohibitin complex
CryoEM
Release date: Dec. 18, 2024
Resolution: 16.3 Å
EM Method: Subtomogram averaging
Fitted PDBs: 8rrh
Q-score: 0.025

Lange F, Ratz M, Dohrke JN, Le Vasseur M, Wenzel D, Ilgen P, Riedel D, Jakobs S

Nat Cell Biol (2025) 27 pp. 633-640 [ DOI: doi:10.1038/s41556-025-01620-1 Pubmed: 40119201 ]

EMPIAR-12038
Cryo-ET dataset of purified SARS-CoV-2 double membrane vesicles formed by nsp3-4
Release date: July 19, 2024
Dataset size: 10.3 TB
Experiment type: ssET

Ni T, Huang YX, Zhong LJ

To Be Published

Image sets:
  • Tilt-series of purified SARS-CoV-2 double membrane vesicles formed by nsp3-4
EMPIAR-11843
Related EMDB
EMD-43287
Cryo electron tomography image- and volume-series subtomograms of chloramphenicol-treated mycoplasma pneumoniae
Release date: March 18, 2024
Dataset size: 788.5 GB
Experiment type: EMDB

Powell BM, Davis JH

bioRxiv (2023) [ DOI: 10.1101/2023.05.31.542975 ]

Image sets:
  • Image tilt-series of ribosomes extracted from EMPIAR-10499 at intramolecular scale, small box, large pixel
  • Image tilt-series subtomograms of ribosomes extracted from EMPIAR-10499 at intramolecular scale, large box, small pixel
  • Image tilt-series subtomograms of ribosomes extracted from EMPIAR-10499 at intramolecular scale, medium box, small pixel
  • Image tilt-series subtomograms of ribosomes extracted from EMPIAR-10499 at intermolecular scale
  • Volumetric subtomograms of ribosomes extracted from EMPIAR-10499 at intramolecular scale
  • Volumetric subtomograms of ribosome•SecDF complex extracted from EMPIAR-10499 at intramolecular scale
[Show more]
EMPIAR-10670
Related EMDB
EMD-31081
Cryo-ET detects bundled triple helices but not ladders in meiotic budding yeast
Release date: Jan. 11, 2024
Dataset size: 291.6 GB
Experiment type: EMDB

Ma OX, Chong WG, Lee JKE, Cai S, Siebert CA, Howe A, Zhang P, Shi J, Surana U, Gan L

PLoS One (2022) 17 [ DOI: 10.1371/journal.pone.0266035 Pubmed: 35421110 ]

Image sets:
  • Tomograms of yeast cells
  • Tilt series of yeast cells
EMPIAR-11465
Related EMDB
EMD-16753
Cryo electron tomography dataset of purified human TREX-mRNPs
Release date: May 11, 2023
Dataset size: 1.1 TB
Experiment type: EMDB

Pacheco-Fiallos B, Vorländer MK, Riabov-Bassat D, Fin L, O'Reilly FJ, Ayala FI, Schellhaas U, Rappsilber J, Plaschka C

Nature (2023) 616 pp. 828-835 [ DOI: 10.1038/s41586-023-05904-0 Pubmed: 37020021 ]

Image sets:
  • Denoised, reconstructed tomograms, binned to a pixel size of 10 Å/px
  • Motion corrected tilt exposures
  • Extracted subtomograms that were used in the final reconstruction
  • Reconstructed tomograms, binned to a pixel size of 10 Å/px
  • Unbinned, unaligned tilt series as output by SerialEM.
  • Compressed movies of individual tilt exposures
[Show more]
EMPIAR-11078
Related EMDB
EMD-15262
In situ cryo-electron tomography of the C. reinhardtii ciliary transition zone
Release date: Aug. 12, 2022
Dataset size: 302.0 GB
Experiment type: EMDB

van den Hoek H, Klena N, Jordan MA, Alvarez Viar G, Righetto RD, Schaffer M, Erdmann PS, Wan W, Geimer S, Plitzko JM, Baumeister W, Pigino G, Hamel V, Guichard P, Engel BD

Science (2022) 377 pp. 543-548 [ Pubmed: 35901159 DOI: 10.1126/science.abm6704 ]

Image sets:
  • Unaligned tilt series raw frames
  • CTF-corrected bin2 tomograms
  • Deconvoluted bin4 tomograms for visualization
  • Subtomograms at bin2
  • Aligned tilt series stacks
  • CTF-corrected bin4 tomograms
[Show more]
EMPIAR-11125
Related EMDB
EMD-27654
Cryo electron tomography of H. neapolitanus alpha-carboxysomes
Release date: Aug. 12, 2022
Dataset size: 483.4 GB
Experiment type: EMDB

Metskas LA, Ortega D, Oltrogge LM, Blikstad C, Laughlin T, Savage DF, Jensen GJ

bioRxiv (2022) [ DOI: 10.1101/2022.01.24.477598 ]

Image sets:
  • Complete set of subtomograms for Rubisco subtomogram average
  • Reconstructed sample tomograms of purified alpha-carboxysomes, plus frames
  • Reconstructed sample tomograms of wild-type H. neapolitanus cells, plus frames
EMPIAR-11058
Related EMDB
EMD-15053
In situ cryo-electron tomography of T. kivui cells
Release date: July 12, 2022
Dataset size: 373.4 GB
Experiment type: EMDB

Dietrich HM, Righetto RD, Kumar A, Wietrzynski W, Trischler R, Schuller SK, Wagner J, Schwarz FM, Engel BD, Müller V, Schuller JM

Nature (2022) 607 pp. 823-830 [ DOI: 10.1038/s41586-022-04971-z Pubmed: 35859174 ]

Image sets:
  • Subtomograms of T. kivui ribosome particles at bin1
  • Tilt series of T. kivui FIB-milled cells - session 2020-10-22
  • Unaligned raw frames of T. kivui FIB-milled cells tilt series - session 2020-10-22
  • Subtomograms of HDCR filament particles at bin2
  • Denoised tomograms of T. kivui FIB-milled cells at bin4
  • Tilt series of T. kivui FIB-milled cells - session 2021-02-12
  • Unaligned raw frames of T. kivui FIB-milled cells tilt series - session 2021-02-12
[Show more]
Sort by: Download
Showing 1 - 10 of 26. Page 1 of 3
Display:
Statistics
×

Download











































Preview first 10
Download

Filter By

Current Database

  • EMDB [16]
  • EMPIAR [10]

Current status

  • REL [26]

Sample type

  • Complex [9]
  • Protein [5]
  • Cellular component [4]
  • Sample [4]
  • Virus [2]
  • Cell [1]

Organism

  • Homo sapiens [6]
  • Rattus norvegicus [5]
  • Adeno-associated dependoparvovirus b [3]
  • Mus musculus [1]
  • Helicobacter pylori [1]
  • Chlamydomonas reinhardtii [1]

EM Method

  • Subtomogram averaging [16]

Resolution

  • ≥ 8Å and < 12Å [1]
  • ≥ 12Å and < 16Å [3]
  • ≥ 16Å and < 20Å [2]
  • ≥ 20Å and < 30Å [4]
  • ≥ 30Å [6]

Model molecular weight

  • 250-500 kDa [1]
  • 1-2 MDa [4]

Release Date

  • 2026 [1]
  • 2025 [1]
  • 2024 [4]
  • 2023 [1]
  • 2022 [7]
  • 2021 [1]
  • 2018 [5]
  • 2017 [1]
  • 2016 [1]
  • 2014 [1]
  • 2010 [2]
  • 2009 [1]

Author by name

  • Baumeister W [6]
  • Beck F [5]
  • Edbauer D [5]
  • Fernandez-busnadiego R [5]
  • Frottin F [5]
  • Guo Q [5]
  • Hartl FU [5]
  • Hartmann H [5]
  • Hipp MS [5]
  • Lehmer C [5]
  • Martinez-sanchez A [5]
  • Perez-berlanga M [5]
  • Rudack T [5]
  • Chapman MS [4]
  • Hu G [4]
  • Hu GQ [4]
  • Silveria MA [4]
  • Stagg SM [4]
  • Zane GM [4]
  • Chiu W [2]
  • Danev R [2]
  • Engel BD [2]
  • Ishikawa T [2]
  • Jakana J [2]
  • King J [2]
  • Liu X [2]
  • Murata K [2]
  • Nagayama K [2]
  • Righetto RD [2]
  • Schmid MF [2]
  • Al-amoudi A [1]
  • Alford LM [1]
  • Alvarez Viar G [1]
  • Betts MJ [1]
  • Blikstad C [1]
  • Bondy AL [1]
  • Bui KH [1]
  • Cai S [1]
  • Castano Diez D [1]
  • Chong WG [1]
  • Davis J.H. [1]
  • Dietrich HM [1]
  • Diez DC [1]
  • Dohrke JN [1]
  • Dutcher S [1]
  • Dutcher SK [1]
  • Eltsov M [1]
  • Erdmann PS [1]
  • Franco AT [1]
  • Frangakis AS [1]
  • Gan L [1]
  • Geimer S [1]
  • Grubmüller H [1]
  • Guichard P [1]
  • Hallberg BM [1]
  • Hamel V [1]
  • Harastani M [1]
  • Howe A [1]
  • Huang YX [1]
  • Hwang J [1]
  • Ide T [1]
  • Igaev M [1]
  • Ilgen P [1]
  • Imai Y [1]
  • Inaba K [1]
  • Jakobs S [1]
  • James N [1]
  • Jensen GJ [1]
  • Jonic S [1]
  • Jordan MA [1]
  • Kalutskii M [1]
  • King SM [1]
  • Klena N [1]
  • Kon T [1]
  • Kumar A [1]
  • Lange F [1]
  • Laughlin T [1]
  • Le Vasseur M [1]
  • Lee JKE [1]
  • Leforestier A [1]
  • Lin WT [1]
  • Liu J [1]
  • Ma OX [1]
  • Metskas LA [1]
  • Müller V [1]
  • Ni T [1]
  • Noliyanda J [1]
  • Obbineni JM [1]
  • Oltrogge LM [1]
  • Ortega D [1]
  • Owa M [1]
  • Pacheco-fiallos B [1]
  • Pigino G [1]
  • Plaschka C [1]
  • Plitzko JM [1]
  • Powell B.M. [1]
  • Qin Z [1]
  • Ratz M [1]
  • Riedel D [1]
  • Sale WS [1]

Author by ORCID

  • Hipp MS [5]
  • Frottin F [5]
  • Martinez-sanchez A [5]
  • Edbauer D [5]
  • Fernandez-busnadiego R [5]
  • Guo Q [5]
  • Chapman MS [4]
  • Stagg SM [4]
  • Murata K [2]
  • Chiu W [2]
  • Schmid MF [2]
  • Dutcher SK [1]
  • Hwang J [1]
  • Obbineni JM [1]
  • Qin Z [1]
  • Kon T [1]
  • Franco AT [1]
  • Ishikawa T [1]
  • Owa M [1]
  • Imai Y [1]
  • King SM [1]
  • Jakobs S [1]
  • Frangakis AS [1]
  • Ratz M [1]
  • Zhu S [1]
  • Bui KH [1]
  • Riedel D [1]
  • Betts MJ [1]
  • Sale WS [1]
  • Ilgen P [1]

Journal

  • CELL [5]
  • J VIROL [4]
  • NATURE [3]
  • BIORXIV [2]
  • STRUCTURE [2]
  • CYTOSKELETON [1]
  • FRONT MOL BIOSCI [1]
  • J BACTERIOL [1]
  • NAT CELL BIOL [1]
  • NAT COMMUN [1]
  • PLOS GENET [1]
  • PLOS ONE [1]
  • PNAS [1]
  • SCIENCE [1]

Software

  • RELION [6]
  • PYTOM [5]
  • TOM TOOLBOX [5]
  • EMAN [4]
  • IMOD [2]
  • BSOFT [1]
  • CTFFIND [1]
  • DYNAMO [1]
  • SPIDER [1]
  • WARP [1]
  • XMIPP [1]

Microscope

  • FEI TITAN KRIOS [10]
  • JEOL 2200FS [3]
  • FEI POLARA 300 [1]
  • FEI TECNAI F20 [1]
  • FEI TECNAI F30 [1]

Electron Source

  • FIELD EMISSION GUN [16]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [6]
  • GATAN K3 6K X 4K [4]
  • GATAN K3 BIOQUANTUM 6K X 4K [1]
  • GATAN ULTRASCAN 1000 2K X 2K [1]
  • GENERIC CCD [1]
  • TVIPS TEMCAM-F416 4K X 4K [1]

EMPIAR Experiment type

  • EMDB [8]
  • FIB-SEM [1]
  • SSET [1]

EMPIAR Image category

  • SUBTOMOGRAMS [7]
  • MICROGRAPHS - MULTIFRAME [5]
  • TILT SERIES [5]
  • RECONSTRUCTED VOLUMES [4]
  • MICROGRAPHS - SINGLE FRAME [1]
  • PICKED PARTICLES - MULTIFRAME - PROCESSED [1]
  • PICKED PARTICLES - MULTIFRAME - UNPROCESSED [1]

External links

  • PDB [16]
  • EMDB [8]
  • AlphaFold DB [5]
  • Gene Ontology [5]
  • InterPro [5]
  • PDBe-Kb [5]
  • Pfam [5]
  • UniProt [5]
  • Complex Portal [4]
  • SCOP2 [1]