SARS-CoV-2 XBB 1.0 closed conformation.
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8psd
Q-score: 0.562
Fenwick C, Turelli P, Duhoo Y, Lau K, Herate C, Marlin R, Lamrayah M, Campos J, Esteves-Leuenberger L, Farina A, Raclot C, Genet V, Fiscalini F, Cesborn J, Perez L, Dereuddre-Bosquet N, Contreras V, Lheureux K, Relouzat F, Abdelnabi R, Leyssen P, Levy Y, Pojer F, Le Grand R, Trono D, Pantaleo G
J Infect (2023) 87 pp. 524-537 [ Pubmed: 37852477 DOI: doi:10.1016/j.jinf.2023.10.008 ]
cryo-EM structure of omicron spike in complex with de novo designed binder, full map
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7zrv
Q-score: 0.4
Gainza P, Wehrle S, Van Hall-Beauvais A, Marchand A, Scheck A, Harteveld Z, Buckley S, Ni D, Tan S, Sverrisson F, Goverde C, Turelli P, Raclot C, Teslenko A, Pacesa M, Rosset S, Georgeon S, Marsden J, Petruzzella A, Liu K, Xu Z, Chai Y, Han P, Gao GF, Oricchio E, Fierz B, Trono D, Stahlberg H, Bronstein M, Correia BE
Nature (2023) 617 pp. 176-184 [ Pubmed: 37100904 DOI: doi:10.1038/s41586-023-05993-x ]
- Spike glycoprotein,envelope glycoprotein (142 kDa, Protein from Tequatrovirus T4)
- De novo designed binder (8 kDa, Protein from Drosophila melanogaster)
- Omicron spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Omicron spike in complex with de novo designed binder, full map (Complex)
- De novo designed binder (Complex from Drosophila melanogaster)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 7zss
Q-score: 0.453
Gainza P, Wehrle S, Van Hall-Beauvais A, Marchand A, Scheck A, Harteveld Z, Buckley S, Ni D, Tan S, Sverrisson F, Goverde C, Turelli P, Raclot C, Teslenko A, Pacesa M, Rosset S, Georgeon S, Marsden J, Petruzzella A, Liu K, Xu Z, Chai Y, Han P, Gao GF, Oricchio E, Fierz B, Trono D, Stahlberg H, Bronstein M, Correia BE
Nature (2023) 617 pp. 176-184 [ Pubmed: 37100904 DOI: doi:10.1038/s41586-023-05993-x ]
- Spike glycoprotein (126 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- D614g spike in complex with de novo designed binder (450 kDa, Complex)
- De novo designed binder (8 kDa, Protein from Drosophila melanogaster)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- De novo designed binder (Complex from Drosophila melanogaster)
- D614g spike (Complex from Severe acute respiratory syndrome coronavirus 2)
BA.4/5 SARS-CoV-2 Spike bound to human ACE2 (local)
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 8aqs
Q-score: 0.549
Ni D, Turelli P, Beckert B, Nazarov S, Uchikawa E, Myasnikov A, Pojer F, Trono D, Stahlberg H, Lau K
PLoS Pathog (2023) 19 pp. e1011206-e1011206 [ DOI: doi:10.1371/journal.ppat.1011206 Pubmed: 37018380 ]
- Water (18 Da, Ligand)
- Ba.4/5 sars-cov-2 spike bound to human ace2 (local) (430 kDa, Complex)
- Processed angiotensin-converting enzyme 2 (101 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sars-cov-2 ba.4/5 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human ace2 (Complex from Homo sapiens)
BA.2.12.1 SARS-CoV-2 Spike bound to mouse ACE2 (local)
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 8aqv
Q-score: 0.513
Ni D, Turelli P, Beckert B, Nazarov S, Uchikawa E, Myasnikov A, Pojer F, Trono D, Stahlberg H, Lau K
PLoS Pathog (2023) 19 pp. e1011206-e1011206 [ DOI: doi:10.1371/journal.ppat.1011206 Pubmed: 37018380 ]
- Sars-cov-2 ba.2.12.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2,ig gamma-2a chain c region, membrane-bound form (101 kDa, Protein from Mus musculus)
- Mouse ace2 (Complex from Mus musculus)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sars-cov2 ba.2.12.1 bound to mouse ace2 (430 kDa, Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)