Cryo-EM of tetrameric collagenase-cleaved Xenopus ZP2-N2N3 (cleaved xZP2-N2N3) (C1)
Nishio S, Emori C, Wiseman B, Fahrenkamp D, Dioguardi E, Zamora-Caballero S, Bokhove M, Han L, Stsiapanava A, Algarra B, Lu Y, Kodani M, Bainbridge RE, Komondor KM, Carlson AE, Landreh M, de Sanctis D, Yasumasu S, Ikawa M, Jovine L
Cell (2024) 187 pp. 1440-1459.e24 [ DOI: doi:10.1016/j.cell.2024.02.013 Pubmed: 38490181 ]
Cryo-EM of tetrameric collagenase-cleaved Xenopus ZP2-N2N3 (cleaved xZP2-N2N3) (C2)
Nishio S, Emori C, Wiseman B, Fahrenkamp D, Dioguardi E, Zamora-Caballero S, Bokhove M, Han L, Stsiapanava A, Algarra B, Lu Y, Kodani M, Bainbridge RE, Komondor KM, Carlson AE, Landreh M, de Sanctis D, Yasumasu S, Ikawa M, Jovine L
Cell (2024) 187 pp. 1440-1459.e24 [ DOI: doi:10.1016/j.cell.2024.02.013 Pubmed: 38490181 ]
Omicron spike trimer with 6m6 antibody
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 7wjy
Q-score: 0.31
Wang Y, Zhan W, Liu J, Wang Y, Zhang X, Zhang M, Han L, Ma Y, Lu L, Wen Y, Chen Z, Zhao J, Wu F, Sun L, Huang J
Cell Res (2022) 32 pp. 862-865 [ DOI: doi:10.1038/s41422-022-00684-0 Pubmed: 35768499 ]
- 6m6 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 6m6 light chain (22 kDa, Protein from Homo sapiens)
- Omicron spike with 6m6 (Complex)
- 6m6 heavy chain (24 kDa, Protein from Homo sapiens)
- Omicron spike (Complex from Severe acute respiratory syndrome coronavirus 2)
Omicron Spike bitrimer with 6m6 antibody
Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 7wjz
Q-score: 0.288
Wang Y, Zhan W, Liu J, Wang Y, Zhang X, Zhang M, Han L, Ma Y, Lu L, Wen Y, Chen Z, Zhao J, Wu F, Sun L, Huang J
Cell Res (2022) 32 pp. 862-865 [ DOI: doi:10.1038/s41422-022-00684-0 Pubmed: 35768499 ]
- 6m6 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 6m6 light chain (22 kDa, Protein from Homo sapiens)
- Omicron spike with 6m6 (Complex)
- 6m6 heavy chain (24 kDa, Protein from Homo sapiens)
- Omicron spike (Complex from Severe acute respiratory syndrome coronavirus 2)
Local refine of Omicron spike bitrimer with 6m6 antibody
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 7wk0
Q-score: 0.431
Wang Y, Zhan W, Liu J, Wang Y, Zhang X, Zhang M, Han L, Ma Y, Lu L, Wen Y, Chen Z, Zhao J, Wu F, Sun L, Huang J
Cell Res (2022) 32 pp. 862-865 [ DOI: doi:10.1038/s41422-022-00684-0 Pubmed: 35768499 ]
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 6m6 light chain (22 kDa, Protein from Homo sapiens)
- Bn03 (Complex from Homo sapiens)
- Omicron spike with bn03 (Complex)
- Omicron spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- 6m6 heavy chain (24 kDa, Protein from Homo sapiens)
Resolution: 6.1 Å
EM Method: Single-particle
Fitted PDBs: 7pfp
Q-score: 0.182
Stsiapanava A, Xu C, Nishio S, Han L, Yamakawa N, Carroni M, Tunyasuvunakool K, Jumper J, de Sanctis D, Wu B, Jovine L
Nat Struct Mol Biol (2022) 29 pp. 190-193 [ Pubmed: 35273390 DOI: doi:10.1038/s41594-022-00729-3 ]
- Uromodulin (umod)/tamm-horsfall protein (thp) (Complex from Homo sapiens)
- Uromodulin (69 kDa, Protein from Homo sapiens)
Cryo-EM of native human uromodulin (UMOD)/Tamm-Horsfall protein (THP) filament
Resolution: 3.35 Å
EM Method: Helical reconstruction
Fitted PDBs: 6tqk
Q-score: 0.391
Stsiapanava A, Xu C, Brunati M, Zamora-Caballero S, Schaeffer C, Bokhove M, Han L, Hebert H, Carroni M, Yasumasu S, Rampoldi L, Wu B, Jovine L
EMBO J (2020) 39 pp. e106807-e106807 [ DOI: doi:10.15252/embj.2020106807 Pubmed: 33196145 ]
- Uromodulin (61 kDa, Protein from Homo sapiens)
- Uromodulin (umod)/tamm-horsfall protein (thp) (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM of elastase-treated human uromodulin (UMOD)/Tamm-Horsfall protein (THP) filament
Resolution: 3.96 Å
EM Method: Helical reconstruction
Fitted PDBs: 6tql
Q-score: 0.289
Stsiapanava A, Xu C, Brunati M, Zamora-Caballero S, Schaeffer C, Bokhove M, Han L, Hebert H, Carroni M, Yasumasu S, Rampoldi L, Wu B, Jovine L
EMBO J (2020) 39 pp. e106807-e106807 [ DOI: doi:10.15252/embj.2020106807 Pubmed: 33196145 ]
- Uromodulin (umod)/tamm-horsfall protein (thp) (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Uromodulin (33 kDa, Protein from Homo sapiens)