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author:"Makarova KS"

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Current Database

  • EMDB [12]
  • EMPIAR [2]

Current status

  • REL [14]

Sample type

  • Complex [12]
  • Protein [9]
  • Ligand [7]
  • RNA [7]
  • DNA [3]

Organism

  • Escherichia phage phiv-1 [5]
  • Synthetic construct [3]
  • Desulfonema ishimotonii [3]
  • Escherichia coli [3]
  • Salmonella enterica [2]
  • Desulfovirgula thermocuniculi [2]
  • Metagenome [1]
  • Uncultured prevotellaceae bacterium [1]
  • (no species) [1]

EM Method

  • Single-particle [12]

Resolution

  • ≥ 2Å and < 3Å [5]
  • ≥ 3Å and < 4Å [6]
  • ≥ 6Å and < 8Å [1]

Model molecular weight

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

Release Date

  • 2025 [2]
  • 2024 [1]
  • 2022 [11]

Author by name

  • Koonin EV [12]
  • Makarova KS [12]
  • Zhang F [10]
  • Macrae RK [9]
  • Wilkinson ME [9]
  • Gao L [5]
  • Gao LA [5]
  • Isayama Y [5]
  • Ishikawa J [5]
  • Kato K [5]
  • Nishimasu H [5]
  • Nishizawa T [5]
  • Okazaki S [5]
  • Strecker J [5]
  • Altae-tran H [4]
  • Kannan S [4]
  • Abudayyeh OO [3]
  • Adachi S [3]
  • Gootenberg JS [3]
  • Jiang K [3]
  • Schmitt-ulms C [3]
  • Zhou W [3]
  • Demircioglu FE [2]
  • Faure G [2]
  • Hirano S [2]
  • Kappel K [2]
  • Seiichi H [2]
  • Shiozaki M [2]
  • Yan R [2]
  • Yu Z [2]
  • Edmonds KK [1]
  • Esra Demircioglu F [1]
  • Fukuda M [1]
  • Mears KS [1]
  • Okazaki O [1]
  • Shmakov S [1]
  • Strebinger D [1]
  • Vo SC [1]
  • Yao CJ [1]
  • Zilberzwige-tal S [1]

Author by ORCID

  • Makarova KS [11]
  • Koonin EV [11]
  • Zhang F [9]
  • Wilkinson ME [8]
  • Strecker J [5]
  • Gao LA [5]
  • Macrae RK [5]
  • Nishizawa T [4]
  • Nishimasu H [4]
  • Ishikawa J [4]
  • Adachi S [3]
  • Okazaki S [3]
  • Kannan S [3]
  • Abudayyeh OO [3]
  • Jiang K [3]
  • Kato K [3]
  • Schmitt-ulms C [3]
  • Zhou W [3]
  • Gootenberg JS [3]
  • Faure G [2]
  • Hirano S [2]
  • Kappel K [2]
  • Yu Z [2]
  • Zilberzwige-tal S [1]
  • Altae-tran H [1]

Journal

  • SCIENCE [9]
  • NATURE [2]
  • CELL [1]
  • NAT COMMUN [1]
  • TO BE PUBLISHED [1]

Software

  • RELION [6]

Microscope

  • FEI TITAN KRIOS [10]
  • FEI TALOS ARCTICA [1]
  • TFS KRIOS [1]

Electron Source

  • FIELD EMISSION GUN [12]

Film or detector model

  • GATAN K3 6K X 4K [10]
  • FEI FALCON III 4K X 4K [1]
  • GATAN K3 BIOQUANTUM 6K X 4K [1]

EMPIAR Experiment type

  • EMDB [2]

EMPIAR Image category

  • MICROGRAPHS - MULTIFRAME [2]

External links

  • PDB [12]
  • ChEBI [7]
  • DrugBank [7]
  • ChEMBL [6]
  • InterPro [6]
  • PDBe-Kb [6]
  • UniProt [6]
  • Pfam [5]
  • AlphaFold DB [4]
  • EMPIAR [4]
  • Gene Ontology [3]
  • EMDB [2]
Sort by: Download
Showing 1 - 10 of 14. Page 1 of 2
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EMPIAR-12962
Related EMDB
EMD-43682
Cryo-EM micrographs of PbAbiF dimer bound to ncRNA
Release date: Dec. 7, 2025
Dataset size: 587.8 GB
Experiment type: EMDB

Zilberzwige-Tal S, Altae-Tran H, Kannan S, Wilkinson ME, Vo SC, Strebinger D, Edmonds KK, Yao CJ, Mears KS, Shmakov SA, Makarova KS, Macrae RK, Koonin EV, Zhang F

Cell (2025) 188 pp. 1925-1940.e20 [ Pubmed: 39970912 DOI: 10.1016/j.cell.2025.01.034 ]

Image sets:
  • Unaligned multi-frame movies of PbAbiF RNP
EMD-43682
Download Map
3D View
Raw data
EMPIAR-12962
PbAbiF dimer bound to ncRNA
CryoEM
Release date: Feb. 12, 2025
Resolution: 3.56 Å
EM Method: Single-particle
Fitted PDBs: 8vz6
Q-score: 0.48

Zilberzwige-Tal S, Altae-Tran H, Kannan S, Wilkinson ME, Vo SC, Shmakov S, Yao CJ, Strebinger D, Edmonds KK, Mears KS, Makarova KS, Macrae RK, Koonin EV, Zhang F

To Be Published

EMPIAR-11824
Related EMDB
EMD-33695 EMD-33696 EMD-34218
RNA-triggered protein cleavage and cell growth arrest by the type III-E CRISPR nuclease-protease
Release date: Feb. 6, 2024
Dataset size: 2.6 TB
Experiment type: EMDB

Kato K, Okazaki S, Schmitt-Ulms C, Jiang K, Zhou W, Ishikawa J, Isayama Y, Adachi S, Nishizawa T, Makarova KS, Koonin EV, Abudayyeh OO, Gootenberg JS, Nishimasu H

Science (2022) 378 pp. 882-889 [ DOI: 10.1126/science.add7347 Pubmed: 36423304 ]

Image sets:
  • EMD-33695
  • EMD-33696
  • EMD-34218
EMD-33198
Download Map
3D View
Structure of the OgeuIscB-omega RNA-target DNA complex
CryoEM
Release date: Dec. 14, 2022
Resolution: 2.55 Å
EM Method: Single-particle
Fitted PDBs: 7xht
Q-score: 0.619

Kato K, Okazaki S, Kannan S, Altae-Tran H, Esra Demircioglu F, Isayama Y, Ishikawa J, Fukuda M, Macrae RK, Nishizawa T, Makarova KS, Koonin EV, Zhang F, Nishimasu H

Nat Commun (2022) 13 pp. 6719-6719 [ DOI: doi:10.1038/s41467-022-34378-3 Pubmed: 36344504 ]

EMD-33695
Download Map
3D View
Raw data
EMPIAR-11824
Structure of the Cas7-11-Csx29-guide RNA complex
CryoEM
Release date: Nov. 9, 2022
Resolution: 2.49 Å
EM Method: Single-particle
Fitted PDBs: 7y9x
Q-score: 0.59

Kato K, Okazaki S, Schmitt-Ulms C, Jiang K, Zhou W, Ishikawa J, Isayama Y, Adachi S, Nishizawa T, Makarova KS, Koonin EV, Abudayyeh OO, Gootenberg JS, Nishimasu H

Science (2022) 378 pp. 882-889 [ Pubmed: 36423304 DOI: doi:10.1126/science.add7347 ]

EMD-33696
Download Map
3D View
Raw data
EMPIAR-11824
Structure of the Cas7-11-Csx29-guide RNA-target RNA no PFS complex
CryoEM
Release date: Nov. 9, 2022
Resolution: 2.77 Å
EM Method: Single-particle
Fitted PDBs: 7y9y
Q-score: 0.564

Kato K, Okazaki S, Schmitt-Ulms C, Jiang K, Zhou W, Ishikawa J, Isayama Y, Adachi S, Nishizawa T, Makarova KS, Koonin EV, Abudayyeh OO, Gootenberg JS, Nishimasu H

Science (2022) 378 pp. 882-889 [ Pubmed: 36423304 DOI: doi:10.1126/science.add7347 ]

EMD-34218
Download Map
3D View
Raw data
EMPIAR-11824
Structure of the Cas7-11-Csx29-guide RNA-target RNA non-matching PFS complex
CryoEM
Release date: Nov. 9, 2022
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8gs2
Q-score: 0.571

Kato K, Okazaki S, Schmitt-Ulms C, Jiang K, Zhou W, Ishikawa J, Isayama Y, Adachi S, Nishizawa T, Makarova KS, Koonin EV, Abudayyeh OO, Gootenberg JS, Nishimasu H

Science (2022) 378 pp. 882-889 [ Pubmed: 36423304 DOI: doi:10.1126/science.add7347 ]

EMD-26723
Download Map
3D View
Structure of IsrB ternary complex with RNA mutant and target DNA
CryoEM
Release date: Oct. 19, 2022
Resolution: 6.9 Å
EM Method: Single-particle

Hirano S, Kappel K, Altae-Tran H, Faure G, Wilkinson ME, Kannan S, Demircioglu FE, Yan R, Shiozaki M, Yu Z, Makarova KS, Koonin EV, Macrae RK, Zhang F

Nature (2022) 610 pp. 575-581 [ DOI: doi:10.1038/s41586-022-05324-6 Pubmed: 36224386 ]

EMD-27533
Download Map
3D View
Structure of Desulfovirgula thermocuniculi IsrB DtIsrB in complex with omega RNA and target DNA
CryoEM
Release date: Oct. 19, 2022
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8dmb
Q-score: 0.523

Hirano S, Kappel K, Altae-Tran H, Faure G, Wilkinson ME, Kannan S, Demircioglu FE, Yan R, Shiozaki M, Yu Z, Makarova KS, Koonin EV, Macrae RK, Zhang F

Nature (2022) 610 pp. 575-581 [ DOI: doi:10.1038/s41586-022-05324-6 Pubmed: 36224386 ]

EMD-27421
Download Map
3D View
Avs3 bound to phage PhiV-1 terminase, C2 refinement of Cap4 nuclease domain
CryoEM
Release date: Aug. 3, 2022
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8dgc
Q-score: 0.218

Gao LA, Wilkinson ME, Strecker J, Makarova KS, Macrae RK, Koonin EV, Zhang F

Science (2022) 377 pp. eabm4096-eabm4096 [ Pubmed: 35951700 DOI: doi:10.1126/science.abm4096 ]

Sort by: Download
Showing 1 - 10 of 14. Page 1 of 2
Display:
Statistics
×

Download












































Preview first 10
Download

Filter By

Current Database

  • EMDB [12]
  • EMPIAR [2]

Current status

  • REL [14]

Sample type

  • Complex [12]
  • Protein [9]
  • Ligand [7]
  • RNA [7]
  • DNA [3]

Organism

  • Escherichia phage phiv-1 [5]
  • Synthetic construct [3]
  • Desulfonema ishimotonii [3]
  • Escherichia coli [3]
  • Salmonella enterica [2]
  • Desulfovirgula thermocuniculi [2]
  • Metagenome [1]
  • Uncultured prevotellaceae bacterium [1]
  • (no species) [1]

EM Method

  • Single-particle [12]

Resolution

  • ≥ 2Å and < 3Å [5]
  • ≥ 3Å and < 4Å [6]
  • ≥ 6Å and < 8Å [1]

Model molecular weight

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

Release Date

  • 2025 [2]
  • 2024 [1]
  • 2022 [11]

Author by name

  • Koonin EV [12]
  • Makarova KS [12]
  • Zhang F [10]
  • Macrae RK [9]
  • Wilkinson ME [9]
  • Gao L [5]
  • Gao LA [5]
  • Isayama Y [5]
  • Ishikawa J [5]
  • Kato K [5]
  • Nishimasu H [5]
  • Nishizawa T [5]
  • Okazaki S [5]
  • Strecker J [5]
  • Altae-tran H [4]
  • Kannan S [4]
  • Abudayyeh OO [3]
  • Adachi S [3]
  • Gootenberg JS [3]
  • Jiang K [3]
  • Schmitt-ulms C [3]
  • Zhou W [3]
  • Demircioglu FE [2]
  • Faure G [2]
  • Hirano S [2]
  • Kappel K [2]
  • Seiichi H [2]
  • Shiozaki M [2]
  • Yan R [2]
  • Yu Z [2]
  • Edmonds KK [1]
  • Esra Demircioglu F [1]
  • Fukuda M [1]
  • Mears KS [1]
  • Okazaki O [1]
  • Shmakov S [1]
  • Strebinger D [1]
  • Vo SC [1]
  • Yao CJ [1]
  • Zilberzwige-tal S [1]

Author by ORCID

  • Makarova KS [11]
  • Koonin EV [11]
  • Zhang F [9]
  • Wilkinson ME [8]
  • Strecker J [5]
  • Gao LA [5]
  • Macrae RK [5]
  • Nishizawa T [4]
  • Nishimasu H [4]
  • Ishikawa J [4]
  • Adachi S [3]
  • Okazaki S [3]
  • Kannan S [3]
  • Abudayyeh OO [3]
  • Jiang K [3]
  • Kato K [3]
  • Schmitt-ulms C [3]
  • Zhou W [3]
  • Gootenberg JS [3]
  • Faure G [2]
  • Hirano S [2]
  • Kappel K [2]
  • Yu Z [2]
  • Zilberzwige-tal S [1]
  • Altae-tran H [1]

Journal

  • SCIENCE [9]
  • NATURE [2]
  • CELL [1]
  • NAT COMMUN [1]
  • TO BE PUBLISHED [1]

Software

  • RELION [6]

Microscope

  • FEI TITAN KRIOS [10]
  • FEI TALOS ARCTICA [1]
  • TFS KRIOS [1]

Electron Source

  • FIELD EMISSION GUN [12]

Film or detector model

  • GATAN K3 6K X 4K [10]
  • FEI FALCON III 4K X 4K [1]
  • GATAN K3 BIOQUANTUM 6K X 4K [1]

EMPIAR Experiment type

  • EMDB [2]

EMPIAR Image category

  • MICROGRAPHS - MULTIFRAME [2]

External links

  • PDB [12]
  • ChEBI [7]
  • DrugBank [7]
  • ChEMBL [6]
  • InterPro [6]
  • PDBe-Kb [6]
  • UniProt [6]
  • Pfam [5]
  • AlphaFold DB [4]
  • EMPIAR [4]
  • Gene Ontology [3]
  • EMDB [2]