Happy Holidays and New year from the EMDB! Please be advised that the EMDB team will be operating at reduced capacity between December 15th - January 12th. With this in mind we would ask that you be prepared for longer reply times through both our helpdesk system and the OneDep deposition system. well done on a productive 2025, wishing you all the best and we will see you in 2026!

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grant_code:"JP21fk0108465"

Filter By

Current Database

  • EMDB [23]

Current status

  • REL [23]

Sample type

  • Complex [23]
  • Protein [14]
  • Ligand [4]

Organism

  • Severe acute respiratory syndrome coronavirus [23]
  • Homo sapiens [14]

EM Method

  • Single-particle [23]

Resolution

  • ≥ 2Å and < 3Å [1]
  • ≥ 3Å and < 4Å [19]
  • ≥ 4Å and < 5Å [3]

Model molecular weight

  • 0-50 kDa [1]
  • 100-250 kDa [2]
  • 250-500 kDa [1]
  • 500-1000 kDa [1]

Release Date

  • 2023 [23]

Author by name

  • Higuchi Y [23]
  • Hoshino A [23]
  • Suzuki T [23]
  • Adachi Y [13]
  • Anraku Y [13]
  • Fukuhara H [13]
  • Fukushi S [13]
  • Hashiguchi T [13]
  • Kirita Y [13]
  • Kita S [13]
  • Kotaki R [13]
  • Kuroda D [13]
  • Kuroda Y [13]
  • Maeda K [13]
  • Maenaka K [13]
  • Moriyama S [13]
  • Muranishi S [13]
  • Nakamura-uchiyama F [13]
  • Onodera T [13]
  • Someya T [13]
  • Takahashi Y [13]
  • Taminishi S [13]
  • Tonouchi K [13]
  • Yamamoto T [13]
  • Yumoto K [13]
  • Akamatsu K [10]
  • Arase H [10]
  • Hara E [10]
  • Hirose M [10]
  • Itoh Y [10]
  • Kanda Y [10]
  • Kato T [10]
  • Kimura M [10]
  • Kishikawa J [10]
  • Kishikawa JI [10]
  • Koketsu R [10]
  • Matoba S [10]
  • Matsuura Y [10]
  • Mitoma S [10]
  • Nakao S [10]
  • Okada M [10]
  • Okamoto T [10]
  • Okamura T [10]
  • Saito A [10]
  • Sakai Y [10]
  • Sasaki T [10]
  • Shioda T [10]
  • Sugihara F [10]
  • Takada A [10]
  • Takagi J [10]
  • Tsuji S [10]
  • Urano E [10]
  • Yanagida S [10]
  • Yasutomi Y [10]

Author by ORCID

  • Hoshino A [23]
  • Takahashi Y [13]
  • Hashiguchi T [13]
  • Kotaki R [13]
  • Maeda K [13]
  • Kirita Y [13]
  • Maenaka K [13]
  • Anraku Y [13]
  • Fukuhara H [13]
  • Yumoto K [13]
  • Moriyama S [13]
  • Kuroda D [13]
  • Kita S [13]
  • Itoh Y [10]
  • Urano E [10]
  • Higuchi Y [10]
  • Hara E [10]
  • Yasutomi Y [10]
  • Hirose M [10]
  • Matsuura Y [10]
  • Okada M [10]
  • Sasaki T [10]
  • Arase H [10]
  • Takagi J [10]
  • Saito A [10]
  • Shioda T [10]
  • Kato T [10]
  • Matoba S [10]
  • Sakai Y [10]
  • Kanda Y [10]
  • Sasaki T [10]
  • Kishikawa JI [10]
  • Okamoto T [10]
  • Mitoma S [10]
  • Akamatsu K [10]
  • Tsuji S [10]

Journal

  • NAT COMMUN [13]
  • SCI TRANSL MED [10]

Software

  • CRYOSPARC [23]
  • RELION [3]

Microscope

  • TFS KRIOS [13]
  • FEI TITAN KRIOS [10]

Electron Source

  • FIELD EMISSION GUN [23]

Film or detector model

  • GATAN K3 BIOQUANTUM 6K X 4K [23]

External links

  • AlphaFold DB [14]
  • Complex Portal [14]
  • PDBe-Kb [14]
  • UniProt [14]
  • InterPro [5]
  • PDB [5]
  • Pfam [5]
  • ChEBI [4]
  • ChEMBL [4]
  • Gene Ontology [4]
  • DrugBank [1]
Sort by: Download
Showing 1 - 10 of 23. Page 1 of 3
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EMD-35029
Download Map
3D View
SARS-CoV2 spike protein with ACE2, no ACE2 binding.
Release date: Dec. 27, 2023
Resolution: 3.3 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35030
Download Map
3D View
SARS-CoV2 spike protein with ACE2. 1 ACE2 bound form.
Release date: Dec. 27, 2023
Resolution: 3.7 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35031
Download Map
3D View
SARS-CoV2 spike protein with ACE2. 2 ACE2 bound form.
Release date: Dec. 27, 2023
Resolution: 3.2 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35032
Download Map
3D View
SARS-CoV2 spike protein with ACE2. 3 ACE2 bound form.
Release date: Dec. 27, 2023
Resolution: 3.7 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35036
Download Map
3D View
SARS-CoV2 spike protein with ACE2 decoy.no ACE2 decoy binding
Release date: Dec. 27, 2023
Resolution: 3.9 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35037
Download Map
3D View
SARS-CoV2 spike protein with ACE2 decoy. 1 ACE2 decoy bound form.
Release date: Dec. 27, 2023
Resolution: 3.7 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35038
Download Map
3D View
SARS-CoV2 spike protein with ACE2 decoy. 1 ACE2 decoy bound and 2 RBD up form.
Release date: Dec. 27, 2023
Resolution: 3.8 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35039
Download Map
3D View
SARS-CoV2 spike protein with ACE2 decoy. 2 ACE2 decoy bound form.
Release date: Dec. 27, 2023
Resolution: 3.3 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-35040
Download Map
3D View
SARS-CoV2 spike protein with ACE2 decoy. 3 ACE2 decoy bound form.
Release date: Dec. 27, 2023
Resolution: 3.5 Å
EM Method: Single-particle

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

EMD-36345
Download Map
3D View
RBD of SARS-CoV2 spike protein with ACE2 decoy
Release date: Dec. 27, 2023
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8jje
Q-score: 0.488

Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T

Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]

Sort by: Download
Showing 1 - 10 of 23. Page 1 of 3
Display:
Statistics
×

Download











































Preview first 10
Download

Filter By

Current Database

  • EMDB [23]

Current status

  • REL [23]

Sample type

  • Complex [23]
  • Protein [14]
  • Ligand [4]

Organism

  • Severe acute respiratory syndrome coronavirus [23]
  • Homo sapiens [14]

EM Method

  • Single-particle [23]

Resolution

  • ≥ 2Å and < 3Å [1]
  • ≥ 3Å and < 4Å [19]
  • ≥ 4Å and < 5Å [3]

Model molecular weight

  • 0-50 kDa [1]
  • 100-250 kDa [2]
  • 250-500 kDa [1]
  • 500-1000 kDa [1]

Release Date

  • 2023 [23]

Author by name

  • Higuchi Y [23]
  • Hoshino A [23]
  • Suzuki T [23]
  • Adachi Y [13]
  • Anraku Y [13]
  • Fukuhara H [13]
  • Fukushi S [13]
  • Hashiguchi T [13]
  • Kirita Y [13]
  • Kita S [13]
  • Kotaki R [13]
  • Kuroda D [13]
  • Kuroda Y [13]
  • Maeda K [13]
  • Maenaka K [13]
  • Moriyama S [13]
  • Muranishi S [13]
  • Nakamura-uchiyama F [13]
  • Onodera T [13]
  • Someya T [13]
  • Takahashi Y [13]
  • Taminishi S [13]
  • Tonouchi K [13]
  • Yamamoto T [13]
  • Yumoto K [13]
  • Akamatsu K [10]
  • Arase H [10]
  • Hara E [10]
  • Hirose M [10]
  • Itoh Y [10]
  • Kanda Y [10]
  • Kato T [10]
  • Kimura M [10]
  • Kishikawa J [10]
  • Kishikawa JI [10]
  • Koketsu R [10]
  • Matoba S [10]
  • Matsuura Y [10]
  • Mitoma S [10]
  • Nakao S [10]
  • Okada M [10]
  • Okamoto T [10]
  • Okamura T [10]
  • Saito A [10]
  • Sakai Y [10]
  • Sasaki T [10]
  • Shioda T [10]
  • Sugihara F [10]
  • Takada A [10]
  • Takagi J [10]
  • Tsuji S [10]
  • Urano E [10]
  • Yanagida S [10]
  • Yasutomi Y [10]

Author by ORCID

  • Hoshino A [23]
  • Takahashi Y [13]
  • Hashiguchi T [13]
  • Kotaki R [13]
  • Maeda K [13]
  • Kirita Y [13]
  • Maenaka K [13]
  • Anraku Y [13]
  • Fukuhara H [13]
  • Yumoto K [13]
  • Moriyama S [13]
  • Kuroda D [13]
  • Kita S [13]
  • Itoh Y [10]
  • Urano E [10]
  • Higuchi Y [10]
  • Hara E [10]
  • Yasutomi Y [10]
  • Hirose M [10]
  • Matsuura Y [10]
  • Okada M [10]
  • Sasaki T [10]
  • Arase H [10]
  • Takagi J [10]
  • Saito A [10]
  • Shioda T [10]
  • Kato T [10]
  • Matoba S [10]
  • Sakai Y [10]
  • Kanda Y [10]
  • Sasaki T [10]
  • Kishikawa JI [10]
  • Okamoto T [10]
  • Mitoma S [10]
  • Akamatsu K [10]
  • Tsuji S [10]

Journal

  • NAT COMMUN [13]
  • SCI TRANSL MED [10]

Software

  • CRYOSPARC [23]
  • RELION [3]

Microscope

  • TFS KRIOS [13]
  • FEI TITAN KRIOS [10]

Electron Source

  • FIELD EMISSION GUN [23]

Film or detector model

  • GATAN K3 BIOQUANTUM 6K X 4K [23]

External links

  • AlphaFold DB [14]
  • Complex Portal [14]
  • PDBe-Kb [14]
  • UniProt [14]
  • InterPro [5]
  • PDB [5]
  • Pfam [5]
  • ChEBI [4]
  • ChEMBL [4]
  • Gene Ontology [4]
  • DrugBank [1]