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Current Database

  • EMDB [22]

Current status

  • REL [22]

Sample type

  • Protein [18]
  • Complex [15]
  • Cell [6]
  • Ligand [6]
  • DNA [3]
  • Cellular component [1]
  • RNA [1]

Organism

  • Homo sapiens [17]
  • Synthetic construct [2]
  • Human herpesvirus 1 [1]
  • Rabbit hemorrhagic disease virus [1]
  • Streptomyces avidinii [1]
  • Escherichia coli [1]
  • Aeromonas salmonicida [1]

EM Method

  • Single-particle [21]
  • Helical reconstruction [1]

Resolution

  • < 2Å [7]
  • ≥ 2Å and < 3Å [3]
  • ≥ 3Å and < 4Å [7]
  • ≥ 4Å and < 5Å [4]
  • ≥ 5Å and < 6Å [1]

Model molecular weight

  • 0-50 kDa [6]
  • 50-100 kDa [4]
  • 100-250 kDa [6]
  • 500-1000 kDa [1]

Release Date

  • 2026 [1]
  • 2025 [5]
  • 2024 [8]
  • 2023 [5]
  • 2022 [1]
  • 2021 [1]
  • 2020 [1]

Author by name

  • Kikkawa M [6]
  • Arai H [5]
  • Miyazawa H [5]
  • Oda T [5]
  • Wang T [5]
  • Yanagisawa H [5]
  • Afonin D [3]
  • Afonin DA [3]
  • Armeev GA [3]
  • Feofanov AV [3]
  • Glukhov GS [3]
  • Moiseenko A [3]
  • Moiseenko AV [3]
  • Motorin NA [3]
  • Nureki O [3]
  • Oleinikov P [3]
  • Oleinikov PD [3]
  • Peters GS [3]
  • Shaytan A [3]
  • Shaytan AK [3]
  • Shi X [3]
  • Sokolova O [3]
  • Sokolova OS [3]
  • Studitsky V [3]
  • Studitsky VM [3]
  • Vasilev VA [3]
  • Vasiliev V [3]
  • Zhao L [3]
  • Sano FK [2]
  • Shihoya W [2]
  • Akasaka H [1]
  • Akoury E [1]
  • Aoki J [1]
  • Barcena J [1]
  • Bodrug T [1]
  • Boo ZZ [1]
  • Budhathoki J [1]
  • Cali T [1]
  • Callahan R [1]
  • Caston JR [1]
  • Chen L [1]
  • Chen Z [1]
  • Chong KHC [1]
  • Clarke OB [1]
  • Dederer V [1]
  • Elias P [1]
  • Fujiyoshi Y [1]
  • Gai W [1]
  • Gang D [1]
  • Goh WI [1]
  • Gong Q [1]
  • Grunewald K [1]
  • Gustavsson E [1]
  • Hallberg BM [1]
  • Hao W [1]
  • Hatch KS [1]
  • Hiraizumi M [1]
  • Hou F [1]
  • Hsieh SC [1]
  • Hu W [1]
  • Huynh PT [1]
  • Iwasa J [1]
  • Izume T [1]
  • Johnston JD [1]
  • Kamegawa A [1]
  • Kawahara R [1]
  • Kawana H [1]
  • Ke A [1]
  • Kellogg EH [1]
  • Kim K [1]
  • Kise Y [1]
  • Knapp S [1]
  • Kobayashi K [1]
  • Lay K [1]
  • Leschziner A [1]
  • Leschziner AE [1]
  • Liam B [1]
  • Lim JSY [1]
  • Luo B [1]
  • Manolaridis I [1]
  • Martinez-romero JM [1]
  • Mathea S [1]
  • Mehrotra E [1]
  • Moussikhina E [1]
  • Mukhopadhyay S [1]
  • Nguyen KHV [1]
  • Nishikawa K [1]
  • Nishizawa T [1]
  • Noble AJ [1]
  • Novoa G [1]
  • Numoto N [1]
  • O Donnell G [1]
  • Ohwada T [1]
  • Okamoto HH [1]
  • Omi J [1]
  • Park JU [1]
  • Perez-mata C [1]
  • Petassi MT [1]
  • Peters JE [1]
  • Ramos D [1]

Author by ORCID

  • Oda T [5]
  • Wang T [5]
  • Arai H [5]
  • Afonin DA [3]
  • Shi X [3]
  • Glukhov GS [3]
  • Oleinikov PD [3]
  • Sano FK [2]
  • Nureki O [2]
  • Shihoya W [2]
  • Akoury E [1]
  • Zheng H [1]
  • Ohwada T [1]
  • Tanaka T [1]
  • Barcena J [1]
  • Goh WI [1]
  • Peters JE [1]
  • Noble AJ [1]
  • Chen L [1]
  • Lay K [1]
  • Aoki J [1]
  • Kamegawa A [1]
  • Kim K [1]
  • Hu W [1]
  • Warren C [1]
  • Martinez-romero JM [1]
  • Zhong FL [1]
  • Wu B [1]
  • Mukhopadhyay S [1]
  • Liam B [1]
  • Novoa G [1]
  • Kobayashi K [1]
  • Reversade B [1]
  • Okamoto HH [1]
  • Grunewald K [1]
  • Hallberg BM [1]
  • Hao W [1]
  • Cali T [1]
  • Chen Z [1]
  • Hsieh SC [1]
  • Gustavsson E [1]
  • Staupe RP [1]
  • Gang D [1]
  • Robinson K [1]
  • Clarke OB [1]
  • Akasaka H [1]
  • Caston JR [1]
  • Wright G [1]
  • Johnston JD [1]
  • Perez-mata C [1]
  • Vallese F [1]

Journal

  • NAT COMMUN [8]
  • STRUCTURE [3]
  • TO BE PUBLISHED [2]
  • CELL [1]
  • ELIFE [1]
  • J STRUCT BIOL [1]
  • MOL CELL [1]
  • NAT STRUCT MOL BIOL [1]
  • NATURE [1]
  • NUCLEIC ACIDS RES [1]
  • SCI REP [1]
  • VACCINES (BASEL) [1]

Software

  • CRYOSPARC [7]
  • RELION [4]

Microscope

  • FEI TITAN KRIOS [12]
  • JEOL CRYO ARM 300 [6]
  • TFS KRIOS [4]

Electron Source

  • FIELD EMISSION GUN [22]

Film or detector model

  • GATAN K3 6K X 4K [13]
  • GATAN K3 BIOQUANTUM 6K X 4K [4]
  • GATAN K2 SUMMIT 4K X 4K [3]
  • TFS FALCON 4I 4K X 4K [1]
  • TVIPS TEMCAM-F816 8K X 8K [1]

External links

  • PDB [21]
  • PDBe-Kb [17]
  • UniProt [17]
  • InterPro [16]
  • AlphaFold DB [15]
  • Gene Ontology [9]
  • Pfam [8]
  • ChEBI [4]
  • ChEMBL [4]
  • DrugBank [4]
  • Complex Portal [3]
  • EMPIAR [2]
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Showing 1 - 10 of 22. Page 1 of 3
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EMD-72649
Download Map
3D View
Leucine Rich Repeat Kinase 2 bound to GMP-PNP inactive
CryoEM
Release date: Aug. 19, 2026
Resolution: 4.39 Å
EM Method: Single-particle
Fitted PDBs: 9y7a
Q-score: 0.331
Similar entry percentile: 58%

Villagran Suarez A, Hatch KS, Bodrug T, Gai W, Surridge KJ, Moussikhina E, Nguyen KHV, Sanz-Murillo M, Callahan R, Xiong E, Ramos D, Zhu L, Dederer V, Mathea S, Iwasa J, Knapp S, Shokat KM, Reck-Peterson SL, Leschziner AE

Cell (2026) [ DOI: doi:10.1016/j.cell.2026.07.027 Pubmed: 42575089 ]

EMD-52727
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3D View
AB Spike of RHDV mutant N15
CryoEM
Release date: Dec. 3, 2025
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9i8j
Q-score: 0.397
Similar entry percentile: 13%

Novoa G, Martinez-Romero JM, Perez-Mata C, Barcena J, Caston JR

To Be Published

EMD-48404
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3D View
RB1 Fab bound to 1D4 anti-idiotype Fab
CryoEM
Release date: Jan. 15, 2025
Resolution: 3.79 Å
EM Method: Single-particle
Fitted PDBs: 9mmv
Q-score: 0.571
Similar entry percentile: 100%

Mukhopadhyay S, Manolaridis I, Warren C, Tang A, O'Donnell G, Luo B, Staupe RP, Vora KA, Chen Z

Vaccines (Basel) (2025) 13 [ DOI: doi:10.3390/vaccines13010035 Pubmed: 39852814 ]

EMD-19134
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Cryo-EM structure of nucleosome containing Widom603 DNA
CryoEM
Release date: Jan. 1, 2025
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8rgm
Q-score: 0.352
Similar entry percentile: 42%

Armeev GA, Moiseenko AV, Motorin NA, Afonin DA, Zhao L, Vasilev VA, Oleinikov PD, Glukhov GS, Peters GS, Studitsky VM, Feofanov AV, Shaytan AK, Shi X, Sokolova OS

Structure (2025) 33 pp. 948- [ Pubmed: 40101710 DOI: doi:10.1016/j.str.2025.02.007 ]

EMD-19169
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Cryo-EM structure of hexasome containing Widom601 DNA
CryoEM
Release date: Jan. 1, 2025
Resolution: 3.3 Å
EM Method: Single-particle

Armeev GA, Moiseenko AV, Motorin NA, Afonin DA, Zhao L, Vasilev VA, Oleinikov PD, Glukhov GS, Peters GS, Studitsky VM, Feofanov AV, Shaytan AK, Shi X, Sokolova OS

Structure (2025) 33 pp. 948-959.e5 [ Pubmed: 40101710 DOI: doi:10.1016/j.str.2025.02.007 ]

EMD-19170
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Cryo-EM structure of nucleosome containing Widom601 DNA
CryoEM
Release date: Jan. 1, 2025
Resolution: 3.6 Å
EM Method: Single-particle

Armeev GA, Moiseenko AV, Motorin NA, Afonin DA, Zhao L, Vasilev VA, Oleinikov PD, Glukhov GS, Peters GS, Studitsky VM, Feofanov AV, Shaytan AK, Shi X, Sokolova OS

Structure (2025) 33 pp. 948-959.e5 [ Pubmed: 40101710 DOI: doi:10.1016/j.str.2025.02.007 ]

EMD-61782
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Wild-type native PMEL amyloid - polymorph 1
CryoEM
Release date: Oct. 9, 2024
Resolution: 1.79 Å
EM Method: Single-particle
Fitted PDBs: 9jst
Q-score: 0.777
Similar entry percentile: 88%

Yanagisawa H, Arai H, Wang T, Miyazawa H, Kikkawa M, Oda T

Nat Commun (2025) 16 pp. 5411-5411 [ Pubmed: 40595665 DOI: doi:10.1038/s41467-025-61233-y ]

EMD-61783
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3D View
Wild-type native PMEL amyloid - polymorph 2
CryoEM
Release date: Oct. 9, 2024
Resolution: 1.79 Å
EM Method: Single-particle
Fitted PDBs: 9jsu
Q-score: 0.758
Similar entry percentile: 85%

Yanagisawa H, Arai H, Wang T, Miyazawa H, Kikkawa M, Oda T

Nat Commun (2025) 16 pp. 5411-5411 [ Pubmed: 40595665 DOI: doi:10.1038/s41467-025-61233-y ]

EMD-61784
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G175S mutant native PMEL amyloid
CryoEM
Release date: Oct. 9, 2024
Resolution: 1.79 Å
EM Method: Single-particle
Fitted PDBs: 9jsv
Q-score: 0.79
Similar entry percentile: 90%

Yanagisawa H, Arai H, Wang T, Miyazawa H, Kikkawa M, Oda T

Nat Commun (2025) 16 pp. 5411-5411 [ Pubmed: 40595665 DOI: doi:10.1038/s41467-025-61233-y ]

EMD-61785
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3D View
Wild-type PMEL CAF amyloid -in vitro polymerized
CryoEM
Release date: Oct. 9, 2024
Resolution: 1.94 Å
EM Method: Single-particle
Fitted PDBs: 9jsw
Q-score: 0.735
Similar entry percentile: 88%

Yanagisawa H, Arai H, Wang T, Miyazawa H, Kikkawa M, Oda T

Nat Commun (2025) 16 pp. 5411-5411 [ Pubmed: 40595665 DOI: doi:10.1038/s41467-025-61233-y ]

Sort by: Download
Showing 1 - 10 of 22. Page 1 of 3
Display:
Statistics
×

Download


Preview 10 entries View All Download file

Filter By

Current Database

  • EMDB [22]

Current status

  • REL [22]

Sample type

  • Protein [18]
  • Complex [15]
  • Cell [6]
  • Ligand [6]
  • DNA [3]
  • Cellular component [1]
  • RNA [1]

Organism

  • Homo sapiens [17]
  • Synthetic construct [2]
  • Human herpesvirus 1 [1]
  • Rabbit hemorrhagic disease virus [1]
  • Streptomyces avidinii [1]
  • Escherichia coli [1]
  • Aeromonas salmonicida [1]

EM Method

  • Single-particle [21]
  • Helical reconstruction [1]

Resolution

  • < 2Å [7]
  • ≥ 2Å and < 3Å [3]
  • ≥ 3Å and < 4Å [7]
  • ≥ 4Å and < 5Å [4]
  • ≥ 5Å and < 6Å [1]

Model molecular weight

  • 0-50 kDa [6]
  • 50-100 kDa [4]
  • 100-250 kDa [6]
  • 500-1000 kDa [1]

Release Date

  • 2026 [1]
  • 2025 [5]
  • 2024 [8]
  • 2023 [5]
  • 2022 [1]
  • 2021 [1]
  • 2020 [1]

Author by name

  • Kikkawa M [6]
  • Arai H [5]
  • Miyazawa H [5]
  • Oda T [5]
  • Wang T [5]
  • Yanagisawa H [5]
  • Afonin D [3]
  • Afonin DA [3]
  • Armeev GA [3]
  • Feofanov AV [3]
  • Glukhov GS [3]
  • Moiseenko A [3]
  • Moiseenko AV [3]
  • Motorin NA [3]
  • Nureki O [3]
  • Oleinikov P [3]
  • Oleinikov PD [3]
  • Peters GS [3]
  • Shaytan A [3]
  • Shaytan AK [3]
  • Shi X [3]
  • Sokolova O [3]
  • Sokolova OS [3]
  • Studitsky V [3]
  • Studitsky VM [3]
  • Vasilev VA [3]
  • Vasiliev V [3]
  • Zhao L [3]
  • Sano FK [2]
  • Shihoya W [2]
  • Akasaka H [1]
  • Akoury E [1]
  • Aoki J [1]
  • Barcena J [1]
  • Bodrug T [1]
  • Boo ZZ [1]
  • Budhathoki J [1]
  • Cali T [1]
  • Callahan R [1]
  • Caston JR [1]
  • Chen L [1]
  • Chen Z [1]
  • Chong KHC [1]
  • Clarke OB [1]
  • Dederer V [1]
  • Elias P [1]
  • Fujiyoshi Y [1]
  • Gai W [1]
  • Gang D [1]
  • Goh WI [1]
  • Gong Q [1]
  • Grunewald K [1]
  • Gustavsson E [1]
  • Hallberg BM [1]
  • Hao W [1]
  • Hatch KS [1]
  • Hiraizumi M [1]
  • Hou F [1]
  • Hsieh SC [1]
  • Hu W [1]
  • Huynh PT [1]
  • Iwasa J [1]
  • Izume T [1]
  • Johnston JD [1]
  • Kamegawa A [1]
  • Kawahara R [1]
  • Kawana H [1]
  • Ke A [1]
  • Kellogg EH [1]
  • Kim K [1]
  • Kise Y [1]
  • Knapp S [1]
  • Kobayashi K [1]
  • Lay K [1]
  • Leschziner A [1]
  • Leschziner AE [1]
  • Liam B [1]
  • Lim JSY [1]
  • Luo B [1]
  • Manolaridis I [1]
  • Martinez-romero JM [1]
  • Mathea S [1]
  • Mehrotra E [1]
  • Moussikhina E [1]
  • Mukhopadhyay S [1]
  • Nguyen KHV [1]
  • Nishikawa K [1]
  • Nishizawa T [1]
  • Noble AJ [1]
  • Novoa G [1]
  • Numoto N [1]
  • O Donnell G [1]
  • Ohwada T [1]
  • Okamoto HH [1]
  • Omi J [1]
  • Park JU [1]
  • Perez-mata C [1]
  • Petassi MT [1]
  • Peters JE [1]
  • Ramos D [1]

Author by ORCID

  • Oda T [5]
  • Wang T [5]
  • Arai H [5]
  • Afonin DA [3]
  • Shi X [3]
  • Glukhov GS [3]
  • Oleinikov PD [3]
  • Sano FK [2]
  • Nureki O [2]
  • Shihoya W [2]
  • Akoury E [1]
  • Zheng H [1]
  • Ohwada T [1]
  • Tanaka T [1]
  • Barcena J [1]
  • Goh WI [1]
  • Peters JE [1]
  • Noble AJ [1]
  • Chen L [1]
  • Lay K [1]
  • Aoki J [1]
  • Kamegawa A [1]
  • Kim K [1]
  • Hu W [1]
  • Warren C [1]
  • Martinez-romero JM [1]
  • Zhong FL [1]
  • Wu B [1]
  • Mukhopadhyay S [1]
  • Liam B [1]
  • Novoa G [1]
  • Kobayashi K [1]
  • Reversade B [1]
  • Okamoto HH [1]
  • Grunewald K [1]
  • Hallberg BM [1]
  • Hao W [1]
  • Cali T [1]
  • Chen Z [1]
  • Hsieh SC [1]
  • Gustavsson E [1]
  • Staupe RP [1]
  • Gang D [1]
  • Robinson K [1]
  • Clarke OB [1]
  • Akasaka H [1]
  • Caston JR [1]
  • Wright G [1]
  • Johnston JD [1]
  • Perez-mata C [1]
  • Vallese F [1]

Journal

  • NAT COMMUN [8]
  • STRUCTURE [3]
  • TO BE PUBLISHED [2]
  • CELL [1]
  • ELIFE [1]
  • J STRUCT BIOL [1]
  • MOL CELL [1]
  • NAT STRUCT MOL BIOL [1]
  • NATURE [1]
  • NUCLEIC ACIDS RES [1]
  • SCI REP [1]
  • VACCINES (BASEL) [1]

Software

  • CRYOSPARC [7]
  • RELION [4]

Microscope

  • FEI TITAN KRIOS [12]
  • JEOL CRYO ARM 300 [6]
  • TFS KRIOS [4]

Electron Source

  • FIELD EMISSION GUN [22]

Film or detector model

  • GATAN K3 6K X 4K [13]
  • GATAN K3 BIOQUANTUM 6K X 4K [4]
  • GATAN K2 SUMMIT 4K X 4K [3]
  • TFS FALCON 4I 4K X 4K [1]
  • TVIPS TEMCAM-F816 8K X 8K [1]

External links

  • PDB [21]
  • PDBe-Kb [17]
  • UniProt [17]
  • InterPro [16]
  • AlphaFold DB [15]
  • Gene Ontology [9]
  • Pfam [8]
  • ChEBI [4]
  • ChEMBL [4]
  • DrugBank [4]
  • Complex Portal [3]
  • EMPIAR [2]