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subtomogram_extraction_software_ft:TOM

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Current Database

  • EMDB [17]

Current status

  • REL [17]

Sample type

  • Cellular component [9]
  • Complex [8]
  • Protein [3]
  • Virus [2]
  • Ligand [1]

Organism

  • Chlamydomonas reinhardtii [9]
  • Homo sapiens [4]
  • Sus scrofa [4]
  • Rattus norvegicus [2]
  • Influenza a virus [2]
  • Mus musculus [1]
  • Influenza a virus [1]

EM Method

  • Subtomogram averaging [17]

Resolution

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

Model molecular weight

  • 100-250 kDa [2]
  • 1-2 MDa [1]

Release Date

  • 2020 [8]
  • 2017 [9]

Author by name

  • Briggs JAG [17]
  • Albert S [9]
  • Baumeister W [9]
  • Briggs JA [9]
  • Bykov YS [9]
  • Dodonova SO [9]
  • Engel BD [9]
  • Plitzko JM [9]
  • Schaffer M [9]
  • Dickson VK [6]
  • Kane Dickson V [6]
  • Kelly BT [6]
  • Kovtun O [6]
  • Owen DJ [6]
  • Owen D [4]
  • Calder LJ [2]
  • Erlendsson S [2]
  • Freund SMV [2]
  • Krausslich HG [2]
  • Kummer S [2]
  • Peukes J [2]
  • Qu K [2]
  • Schraidt O [2]
  • Wan W [2]
  • Xiong X [2]
  • Kraeusslich H-G [1]

Author by ORCID

  • Kovtun O [2]
  • Owen DJ [2]
  • Dickson VK [2]
  • Kelly BT [2]
  • Briggs JAG [2]

Journal

  • ELIFE [9]
  • SCI ADV [6]
  • NATURE [2]

Software

  • TOM [17]
  • AV3 [15]
  • CTFFIND [10]
  • CTFPHASEFLIP [9]
  • NOVACTF [6]
  • DYNAMO [3]
  • PEET [3]
  • MATLAB [2]
  • UCSF CHIMERA [2]

Microscope

  • FEI TITAN KRIOS [17]

Electron Source

  • FIELD EMISSION GUN [17]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [9]
  • GATAN K2 QUANTUM 4K X 4K [8]

External links

  • PDB [17]
  • Gene Ontology [3]
  • InterPro [3]
  • PDBe-Kb [3]
  • UniProt [3]
  • AlphaFold DB [2]
  • Pfam [2]
  • ChEBI [1]
  • ChEMBL [1]
  • DrugBank [1]
  • SCOP2 [1]
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Showing 1 - 10 of 17. Page 1 of 2
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EMD-11077
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3D View
Structure of the influenza A matrix protein M1 from influenza A/Hong Kong/1/1968 virions
CryoEM
Release date: Oct. 14, 2020
Resolution: 8.0 Å
EM Method: Subtomogram averaging

Peukes J, Xiong X, Erlendsson S, Qu K, Wan W, Calder LJ, Schraidt O, Kummer S, Freund SMV, Krausslich HG, Briggs JAG

Nature (2020) 587 pp. 495-498 [ Pubmed: 32908308 DOI: doi:10.1038/s41586-020-2696-8 ]

EMD-11078
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3D View
The structure of the matrix protein M1 from influenza A/Hong Kong/1/1968 VLPs HA,NA,M1,M2
CryoEM
Release date: Oct. 14, 2020
Resolution: 8.0 Å
EM Method: Subtomogram averaging
Fitted PDBs: 6z5j
Q-score: 0.128

Peukes J, Xiong X, Erlendsson S, Qu K, Wan W, Calder LJ, Schraidt O, Kummer S, Freund SMV, Krausslich HG, Briggs JAG

Nature (2020) 587 pp. 495-498 [ Pubmed: 32908308 DOI: doi:10.1038/s41586-020-2696-8 ]

EMD-10748
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3D View
AP2 on a membrane containing tyrosine-based cargo peptide
CryoEM
Release date: July 29, 2020
Resolution: 9.1 Å
EM Method: Subtomogram averaging
Fitted PDBs: 6yaf
Q-score: 0.198

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-10749
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3D View
AP2 dimer on a membrane containing tyrosine-based cargo peptide
CryoEM
Release date: July 29, 2020
Resolution: 10.2 Å
EM Method: Subtomogram averaging

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-10750
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3D View
AP2 in clathrin coats assembled on a membrane containing tyrosine-based cargo peptide
CryoEM
Release date: July 29, 2020
Resolution: 11.9 Å
EM Method: Subtomogram averaging

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-10752
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3D View
Hexagon bounding clathrin leg in clathrin coats assembled on a membrane
CryoEM
Release date: July 29, 2020
Resolution: 7.7 Å
EM Method: Subtomogram averaging

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-10753
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3D View
Pentagon bounding clathrin legs in clathrin coats assembled on a membrane
CryoEM
Release date: July 29, 2020
Resolution: 7.7 Å
EM Method: Subtomogram averaging

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-10754
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3D View
Clathrin with bound beta2 appendage of AP2
CryoEM
Release date: July 29, 2020
Resolution: 9.2 Å
EM Method: Subtomogram averaging
Fitted PDBs: 6yai
Q-score: 0.171

Kovtun O, Dickson VK, Kelly BT, Owen DJ, Briggs JAG

Sci Adv (2020) 6 pp. eaba8381-eaba8381 [ DOI: doi:10.1126/sciadv.aba8381 Pubmed: 32743075 ]

EMD-3968
Download Map
3D View
The in situ structure of the Chlamydomonas COPI coat: average of all data
CryoEM
Release date: Nov. 29, 2017
Resolution: 20.0 Å
EM Method: Subtomogram averaging

Bykov YS, Schaffer M, Dodonova SO, Albert S, Plitzko JM, Baumeister W, Engel BD, Briggs JA

eLife (2017) 6 [ Pubmed: 29148969 DOI: doi:10.7554/eLife.32493 ]

EMD-3969
Download Map
3D View
The in situ structure of the Chlamydomonas COPI coat: average from buds
CryoEM
Release date: Nov. 29, 2017
Resolution: 23.0 Å
EM Method: Subtomogram averaging

Bykov YS, Schaffer M, Dodonova SO, Albert S, Plitzko JM, Baumeister W, Engel BD, Briggs JA

eLife (2017) 6 [ Pubmed: 29148969 DOI: doi:10.7554/eLife.32493 ]

Sort by: Download
Showing 1 - 10 of 17. Page 1 of 2
Display:
Statistics
×

Download











































Preview first 10
Download

Filter By

Current Database

  • EMDB [17]

Current status

  • REL [17]

Sample type

  • Cellular component [9]
  • Complex [8]
  • Protein [3]
  • Virus [2]
  • Ligand [1]

Organism

  • Chlamydomonas reinhardtii [9]
  • Homo sapiens [4]
  • Sus scrofa [4]
  • Rattus norvegicus [2]
  • Influenza a virus [2]
  • Mus musculus [1]
  • Influenza a virus [1]

EM Method

  • Subtomogram averaging [17]

Resolution

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

Model molecular weight

  • 100-250 kDa [2]
  • 1-2 MDa [1]

Release Date

  • 2020 [8]
  • 2017 [9]

Author by name

  • Briggs JAG [17]
  • Albert S [9]
  • Baumeister W [9]
  • Briggs JA [9]
  • Bykov YS [9]
  • Dodonova SO [9]
  • Engel BD [9]
  • Plitzko JM [9]
  • Schaffer M [9]
  • Dickson VK [6]
  • Kane Dickson V [6]
  • Kelly BT [6]
  • Kovtun O [6]
  • Owen DJ [6]
  • Owen D [4]
  • Calder LJ [2]
  • Erlendsson S [2]
  • Freund SMV [2]
  • Krausslich HG [2]
  • Kummer S [2]
  • Peukes J [2]
  • Qu K [2]
  • Schraidt O [2]
  • Wan W [2]
  • Xiong X [2]
  • Kraeusslich H-G [1]

Author by ORCID

  • Kovtun O [2]
  • Owen DJ [2]
  • Dickson VK [2]
  • Kelly BT [2]
  • Briggs JAG [2]

Journal

  • ELIFE [9]
  • SCI ADV [6]
  • NATURE [2]

Software

  • TOM [17]
  • AV3 [15]
  • CTFFIND [10]
  • CTFPHASEFLIP [9]
  • NOVACTF [6]
  • DYNAMO [3]
  • PEET [3]
  • MATLAB [2]
  • UCSF CHIMERA [2]

Microscope

  • FEI TITAN KRIOS [17]

Electron Source

  • FIELD EMISSION GUN [17]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [9]
  • GATAN K2 QUANTUM 4K X 4K [8]

External links

  • PDB [17]
  • Gene Ontology [3]
  • InterPro [3]
  • PDBe-Kb [3]
  • UniProt [3]
  • AlphaFold DB [2]
  • Pfam [2]
  • ChEBI [1]
  • ChEMBL [1]
  • DrugBank [1]
  • SCOP2 [1]