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image_reconstruction_software:"TOM Toolbox"

Filter By

Current Database

  • EMDB [76]

Current status

  • REL [76]

Sample type

  • Protein [62]
  • Virus [43]
  • Sample [26]
  • Complex [16]
  • Cellular component [10]

Organism

  • Human immunodeficiency virus 1 [39]
  • Streptococcus pneumoniae [9]
  • Synthetic construct [9]
  • Saccharomyces cerevisiae [9]
  • Homo sapiens [9]
  • Neurospora crassa [7]
  • Mus musculus [5]
  • Canis lupus [5]
  • Equine infectious anemia virus [4]
  • Saccharomyces cerevisiae [2]
  • Escherichia coli [2]
  • Rattus norvegicus [1]
  • Equine infectious anemia virus [1]
  • Human immunodeficiency virus 1 [1]

EM Method

  • Subtomogram averaging [66]
  • Single-particle [9]
  • Tomography [1]

Resolution

  • ≥ 3Å and < 4Å [7]
  • ≥ 4Å and < 5Å [5]
  • ≥ 5Å and < 6Å [1]
  • ≥ 6Å and < 8Å [2]
  • ≥ 8Å and < 12Å [33]
  • ≥ 12Å and < 16Å [8]
  • ≥ 16Å and < 20Å [3]
  • ≥ 20Å and < 30Å [8]
  • ≥ 30Å [7]

Model molecular weight

  • 50-100 kDa [3]
  • 100-250 kDa [18]
  • 250-500 kDa [2]
  • 500-1000 kDa [7]
  • 1-2 MDa [2]

Release Date

  • 2021 [7]
  • 2020 [4]
  • 2019 [2]
  • 2018 [8]
  • 2017 [7]
  • 2016 [22]
  • 2015 [7]
  • 2014 [9]
  • 2013 [1]
  • 2012 [7]
  • 2010 [1]
  • 2009 [1]

Author by name

  • Krausslich HG [31]
  • Briggs JA [28]
  • Glass B [28]
  • Hagen WJ [28]
  • Mattei S [28]
  • Briggs JAG [24]
  • Tan A [15]
  • Tan AWK [15]
  • Morado DR [11]
  • Baumeister W [9]
  • Gilbert RJC [9]
  • Plitzko JM [9]
  • Sonnen AF-P [9]
  • Kraeusslich HG [8]
  • Mueller B [8]
  • Muller B [8]
  • Schur FKM [8]
  • Dodonova SO [7]
  • Foerster F [7]
  • Imhof A [7]
  • Israel L [7]
  • Klein A [7]
  • Lackey SW [7]
  • Lackey SWK [7]
  • Nargang FE [7]
  • Neupert W [7]
  • Pak AJ [7]
  • Pfeffer S [7]
  • Thomas DR [7]
  • Voth GA [7]
  • Aderhold P [5]
  • Beckmann R [5]
  • Burbaum L [5]
  • Chen Y [5]
  • Ganeva I [5]
  • Kopp J [5]
  • Pech M [5]
  • Rohling S [5]
  • Sinning I [5]
  • Unverdorben P [5]
  • Wieland F [5]
  • Zimmermann R [5]
  • Broad AM [4]
  • Dick RA [4]
  • Feathers JR [4]
  • Johnson MC [4]
  • Kravchuk V [4]
  • Lyddon TD [4]
  • Perilla JR [4]
  • Ricana CL [4]
  • Vogt VM [4]
  • Wan W [4]
  • Xu C [4]
  • Jakobi AJ [3]
  • Kirkpatrick JM [3]
  • Obr M [3]
  • Sachse C [3]
  • Schur FK [3]
  • Arjen JJ [2]
  • Bilanchone V [2]
  • Brandt F [2]
  • Hagen WJH [2]
  • Hartl FU [2]
  • Herrmann JM [2]
  • Kraeusslich H-G [2]
  • Ortiz JO [2]
  • Prinz S [2]
  • Sandmeyer S [2]
  • Woellhaf MW [2]
  • Dahan I [1]
  • Eibauer M [1]
  • Elad N [1]
  • Elcock AH [1]
  • Etchells SA [1]
  • Maimon T [1]
  • Matias VR [1]
  • Medalia O [1]
  • Rappsilber J [1]
  • Scheres SH [1]
  • Scheres SHW [1]
  • Sennels L [1]
  • Turonova B [1]
  • Valerio M [1]

Author by ORCID

  • Krausslich HG [31]
  • Hagen WJ [28]
  • Mattei S [28]
  • Briggs JA [28]
  • Briggs JAG [22]
  • Tan A [15]
  • Morado DR [11]
  • Sonnen AF-P [9]
  • Gilbert RJC [9]
  • Plitzko JM [9]
  • Muller B [8]
  • Voth GA [7]
  • Dodonova SO [7]
  • Pak AJ [7]
  • Imhof A [7]
  • Kopp J [5]
  • Pfeffer S [5]
  • Foerster F [5]
  • Schur FKM [5]
  • Broad AM [4]
  • Kravchuk V [4]
  • Feathers JR [4]
  • Johnson MC [4]
  • Ricana CL [4]
  • Xu C [4]
  • Perilla JR [4]
  • Wan W [4]
  • Dick RA [4]
  • Sachse C [3]
  • Jakobi AJ [3]
  • Schur FK [3]
  • Ortiz JO [2]
  • Bilanchone V [2]
  • Rappsilber J [1]
  • Elad N [1]
  • Scheres SH [1]
  • Turonova B [1]
  • Elcock AH [1]

Journal

  • SCIENCE [23]
  • PNAS [17]
  • OPEN BIOL [9]
  • J CELL BIOL [8]
  • NAT COMMUN [7]
  • ELIFE [5]
  • PLOS PATHOG [4]
  • CELL [1]
  • J STRUCT BIOL [1]
  • STRUCTURE [1]

Software

  • TOM TOOLBOX [52]
  • AV3 [41]
  • CTFFIND [19]
  • CTFPHASEFLIP [18]
  • MATLAB [12]
  • NOVACTF [10]
  • TOM, TOOLBOX, BSOFT, XMIPP [9]
  • PYTOM, TOM_TOOLBOX, AV3_TOOLBOX [7]
  • SPIDER, TOM_TOOLBOX [7]
  • AMIRA [5]
  • AMIRAFPM [3]
  • UCSF CHIMERA [3]
  • CHIMERA [2]
  • RELION [2]
  • MDFF [1]
  • TOM_TOOLBOX_SOFTWARE_PACKAGE [1]

Microscope

  • FEI TITAN KRIOS [57]
  • FEI POLARA 300 [10]
  • FEI TECNAI F20 [7]
  • FEI/PHILIPS CM200FEG [2]

Electron Source

  • FIELD EMISSION GUN [76]

Film or detector model

  • GATAN K2 QUANTUM 4K X 4K [41]
  • GATAN MULTISCAN [9]
  • FEI EAGLE 4K X 4K [7]
  • GATAN K2 4K X 4K [7]
  • GATAN K2 SUMMIT 4K X 4K [7]
  • FEI FALCON II 4K X 4K [2]
  • GENERIC TVIPS 4K X 4K [1]

External links

  • UniProt [40]
  • PDB [32]
  • PDBe-Kb [22]
  • AlphaFold DB [16]
  • InterPro [13]
  • Pfam [13]
  • Gene Ontology [10]
  • EMPIAR [2]
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Showing 1 - 10 of 76. Page 1 of 8
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EMD-12147
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 1 Gag subunit missing, obtained by wedge-masked difference map PCA classification
Release date: Jan. 13, 2021
Resolution: 11.8 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12148
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 2 Gag subunits missing, obtained by wedge-masked difference map PCA classification
Release date: Jan. 13, 2021
Resolution: 11.2 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12149
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 3 Gag subunits missing, obtained by wedge-masked difference map PCA classification
Release date: Jan. 13, 2021
Resolution: 16.2 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12150
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 1 Gag subunit missing, obtained by multi-reference classification
Release date: Jan. 13, 2021
Resolution: 10.2 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12151
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 2 Gag subunits missing, obtained by multi-reference classification
Release date: Jan. 13, 2021
Resolution: 10.9 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12152
Download Map
3D View
Immature HIV-1 Gag partial hexamer with 3 Gag subunits missing, obtained by multi-reference classification
Release date: Jan. 13, 2021
Resolution: 11.7 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-12153
Download Map
3D View
Immature HIV-1 Gag complete hexamer obtained by multi-reference classification
Release date: Jan. 13, 2021
Resolution: 9.2 Å
EM Method: Subtomogram averaging

Tan A, Pak AJ, Morado DR, Voth GA, Briggs JAG

PNAS (2021) 118 [ Pubmed: 33397805 DOI: doi:10.1073/pnas.2020054118 ]

EMD-10381
Download Map
3D View
A 3.7 Angstrom structure of the EIAV CA-SP hexamer C2 from Gag-deltaMA tubes assembled at pH8
Release date: Jan. 15, 2020
Resolution: 3.7 Å
EM Method: Subtomogram averaging
Fitted PDBs: 6t61
Q-score: 0.419

Dick RA, Xu C, Morado DR, Kravchuk V, Ricana CL, Lyddon TD, Broad AM, Feathers JR, Johnson MC, Vogt VM, Perilla JR, Briggs JAG, Schur FKM

PLoS Pathog (2020) 16 pp. e1008277-e1008277 [ DOI: doi:10.1371/journal.ppat.1008277 Pubmed: 31986188 ]

EMD-10382
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3D View
A 3.9 Angstrom structure of the EIAV CA-SP hexamer C6 from Gag-dMA spheres assembled at pH8
Release date: Jan. 15, 2020
Resolution: 3.9 Å
EM Method: Subtomogram averaging

Dick RA, Xu C, Morado DR, Kravchuk V, Ricana CL, Lyddon TD, Broad AM, Feathers JR, Johnson MC, Vogt VM, Perilla JR, Briggs JAG, Schur FKM

PLoS Pathog (2020) 16 pp. e1008277-e1008277 [ DOI: doi:10.1371/journal.ppat.1008277 Pubmed: 31986188 ]

EMD-10383
Download Map
3D View
A structure of the EIAV CA-SP hexamer C2 from Gag-deltaMA tubes assembled at pH6
Release date: Jan. 15, 2020
Resolution: 3.8 Å
EM Method: Subtomogram averaging
Fitted PDBs: 6t63
Q-score: 0.435

Dick RA, Xu C, Morado DR, Kravchuk V, Ricana CL, Lyddon TD, Broad AM, Feathers JR, Johnson MC, Vogt VM, Perilla JR, Briggs JAG, Schur FKM

PLoS Pathog (2020) 16 pp. e1008277-e1008277 [ DOI: doi:10.1371/journal.ppat.1008277 Pubmed: 31986188 ]

Sort by: Download
Showing 1 - 10 of 76. Page 1 of 8
Display:
Statistics
×

Download











































Preview first 10
Download

Filter By

Current Database

  • EMDB [76]

Current status

  • REL [76]

Sample type

  • Protein [62]
  • Virus [43]
  • Sample [26]
  • Complex [16]
  • Cellular component [10]

Organism

  • Human immunodeficiency virus 1 [39]
  • Streptococcus pneumoniae [9]
  • Synthetic construct [9]
  • Saccharomyces cerevisiae [9]
  • Homo sapiens [9]
  • Neurospora crassa [7]
  • Mus musculus [5]
  • Canis lupus [5]
  • Equine infectious anemia virus [4]
  • Saccharomyces cerevisiae [2]
  • Escherichia coli [2]
  • Rattus norvegicus [1]
  • Equine infectious anemia virus [1]
  • Human immunodeficiency virus 1 [1]

EM Method

  • Subtomogram averaging [66]
  • Single-particle [9]
  • Tomography [1]

Resolution

  • ≥ 3Å and < 4Å [7]
  • ≥ 4Å and < 5Å [5]
  • ≥ 5Å and < 6Å [1]
  • ≥ 6Å and < 8Å [2]
  • ≥ 8Å and < 12Å [33]
  • ≥ 12Å and < 16Å [8]
  • ≥ 16Å and < 20Å [3]
  • ≥ 20Å and < 30Å [8]
  • ≥ 30Å [7]

Model molecular weight

  • 50-100 kDa [3]
  • 100-250 kDa [18]
  • 250-500 kDa [2]
  • 500-1000 kDa [7]
  • 1-2 MDa [2]

Release Date

  • 2021 [7]
  • 2020 [4]
  • 2019 [2]
  • 2018 [8]
  • 2017 [7]
  • 2016 [22]
  • 2015 [7]
  • 2014 [9]
  • 2013 [1]
  • 2012 [7]
  • 2010 [1]
  • 2009 [1]

Author by name

  • Krausslich HG [31]
  • Briggs JA [28]
  • Glass B [28]
  • Hagen WJ [28]
  • Mattei S [28]
  • Briggs JAG [24]
  • Tan A [15]
  • Tan AWK [15]
  • Morado DR [11]
  • Baumeister W [9]
  • Gilbert RJC [9]
  • Plitzko JM [9]
  • Sonnen AF-P [9]
  • Kraeusslich HG [8]
  • Mueller B [8]
  • Muller B [8]
  • Schur FKM [8]
  • Dodonova SO [7]
  • Foerster F [7]
  • Imhof A [7]
  • Israel L [7]
  • Klein A [7]
  • Lackey SW [7]
  • Lackey SWK [7]
  • Nargang FE [7]
  • Neupert W [7]
  • Pak AJ [7]
  • Pfeffer S [7]
  • Thomas DR [7]
  • Voth GA [7]
  • Aderhold P [5]
  • Beckmann R [5]
  • Burbaum L [5]
  • Chen Y [5]
  • Ganeva I [5]
  • Kopp J [5]
  • Pech M [5]
  • Rohling S [5]
  • Sinning I [5]
  • Unverdorben P [5]
  • Wieland F [5]
  • Zimmermann R [5]
  • Broad AM [4]
  • Dick RA [4]
  • Feathers JR [4]
  • Johnson MC [4]
  • Kravchuk V [4]
  • Lyddon TD [4]
  • Perilla JR [4]
  • Ricana CL [4]
  • Vogt VM [4]
  • Wan W [4]
  • Xu C [4]
  • Jakobi AJ [3]
  • Kirkpatrick JM [3]
  • Obr M [3]
  • Sachse C [3]
  • Schur FK [3]
  • Arjen JJ [2]
  • Bilanchone V [2]
  • Brandt F [2]
  • Hagen WJH [2]
  • Hartl FU [2]
  • Herrmann JM [2]
  • Kraeusslich H-G [2]
  • Ortiz JO [2]
  • Prinz S [2]
  • Sandmeyer S [2]
  • Woellhaf MW [2]
  • Dahan I [1]
  • Eibauer M [1]
  • Elad N [1]
  • Elcock AH [1]
  • Etchells SA [1]
  • Maimon T [1]
  • Matias VR [1]
  • Medalia O [1]
  • Rappsilber J [1]
  • Scheres SH [1]
  • Scheres SHW [1]
  • Sennels L [1]
  • Turonova B [1]
  • Valerio M [1]

Author by ORCID

  • Krausslich HG [31]
  • Hagen WJ [28]
  • Mattei S [28]
  • Briggs JA [28]
  • Briggs JAG [22]
  • Tan A [15]
  • Morado DR [11]
  • Sonnen AF-P [9]
  • Gilbert RJC [9]
  • Plitzko JM [9]
  • Muller B [8]
  • Voth GA [7]
  • Dodonova SO [7]
  • Pak AJ [7]
  • Imhof A [7]
  • Kopp J [5]
  • Pfeffer S [5]
  • Foerster F [5]
  • Schur FKM [5]
  • Broad AM [4]
  • Kravchuk V [4]
  • Feathers JR [4]
  • Johnson MC [4]
  • Ricana CL [4]
  • Xu C [4]
  • Perilla JR [4]
  • Wan W [4]
  • Dick RA [4]
  • Sachse C [3]
  • Jakobi AJ [3]
  • Schur FK [3]
  • Ortiz JO [2]
  • Bilanchone V [2]
  • Rappsilber J [1]
  • Elad N [1]
  • Scheres SH [1]
  • Turonova B [1]
  • Elcock AH [1]

Journal

  • SCIENCE [23]
  • PNAS [17]
  • OPEN BIOL [9]
  • J CELL BIOL [8]
  • NAT COMMUN [7]
  • ELIFE [5]
  • PLOS PATHOG [4]
  • CELL [1]
  • J STRUCT BIOL [1]
  • STRUCTURE [1]

Software

  • TOM TOOLBOX [52]
  • AV3 [41]
  • CTFFIND [19]
  • CTFPHASEFLIP [18]
  • MATLAB [12]
  • NOVACTF [10]
  • TOM, TOOLBOX, BSOFT, XMIPP [9]
  • PYTOM, TOM_TOOLBOX, AV3_TOOLBOX [7]
  • SPIDER, TOM_TOOLBOX [7]
  • AMIRA [5]
  • AMIRAFPM [3]
  • UCSF CHIMERA [3]
  • CHIMERA [2]
  • RELION [2]
  • MDFF [1]
  • TOM_TOOLBOX_SOFTWARE_PACKAGE [1]

Microscope

  • FEI TITAN KRIOS [57]
  • FEI POLARA 300 [10]
  • FEI TECNAI F20 [7]
  • FEI/PHILIPS CM200FEG [2]

Electron Source

  • FIELD EMISSION GUN [76]

Film or detector model

  • GATAN K2 QUANTUM 4K X 4K [41]
  • GATAN MULTISCAN [9]
  • FEI EAGLE 4K X 4K [7]
  • GATAN K2 4K X 4K [7]
  • GATAN K2 SUMMIT 4K X 4K [7]
  • FEI FALCON II 4K X 4K [2]
  • GENERIC TVIPS 4K X 4K [1]

External links

  • UniProt [40]
  • PDB [32]
  • PDBe-Kb [22]
  • AlphaFold DB [16]
  • InterPro [13]
  • Pfam [13]
  • Gene Ontology [10]
  • EMPIAR [2]