The complex structure of Omicron BA.4 RBD with BD604, S309, and S304
Resolution: 2.36 Å
EM Method: Single-particle
Fitted PDBs: 8hws
Q-score: 0.472
He Q, Wu L, Xu Z, Wang X, Xie Y, Chai Y, Zheng A, Zhou J, Qiao S, Huang M, Shang G, Zhao X, Feng Y, Qi J, Gao GF, Wang Q
Cell Rep Med (2023) 4 pp. 100991-100991 [ DOI: doi:10.1016/j.xcrm.2023.100991 Pubmed: 37019110 ]
- Spike protein s2' (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S304 fab light chain (23 kDa, Protein from Homo sapiens)
- S304 fab heavy chain (24 kDa, Protein from Homo sapiens)
- S309 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Omicron ba.4/5 rbd in complex with fabs of bd-604, s304 and s309 (Complex from Homo sapiens)
- Bd-604 fab heavy chain (24 kDa, Protein from Homo sapiens)
- S309 fab light chain (23 kDa, Protein from Homo sapiens)
- Bd-604 fab light chain (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.2 RBD complexed with BD-604 and S304 Fab
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8hwt
Q-score: 0.448
He Q, Wu L, Xu Z, Wang X, Xie Y, Chai Y, Zheng A, Zhou J, Qiao S, Huang M, Shang G, Zhao X, Feng Y, Qi J, Gao GF, Wang Q
Cell Rep Med (2023) 4 pp. 100991-100991 [ DOI: doi:10.1016/j.xcrm.2023.100991 Pubmed: 37019110 ]
- Spike protein s2' (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Bd-604 heavy chain (24 kDa, Protein from Homo sapiens)
- S304 heavy chain (24 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.2 rbd complexed with bd-604 and s304 fab (Complex from Homo sapiens)
- S304 light chain (23 kDa, Protein from Homo sapiens)
- Bd-604 light chain (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 Omicron BA.1 spike protein in complex with mouse ACE2
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 7wrh
Q-score: 0.468
Li L, Han P, Huang B, Xie Y, Li W, Zhang D, Han P, Xu Z, Bai B, Zhou J, Kang X, Li X, Zheng A, Zhang R, Qiao S, Zhao X, Qi J, Wang Q, Liu K, Gao GF
Cell Discov (2022) 8 pp. 65-65 [ Pubmed: 35821014 DOI: doi:10.1038/s41421-022-00431-0 ]
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Complex of sars-cov-2 omicron ba.1 spike protein with mouse ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Mouse ace2 (Complex)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 Omicron spike protein (S-6P-RRAR) in complex with S309 fab
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7xco
Q-score: 0.433
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Sars-cov-2 omicron spike protein (Complex from Homo sapiens)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S309 fab (Complex)
- S309 fab heavy chain (24 kDa, Protein from Homo sapiens)
- S309 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with s309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 7y9z
Q-score: 0.365
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ Pubmed: 36002453 DOI: doi:10.1038/s41467-022-32665-7 ]
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with human ace2 ectodomain (one-rbd-up state) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (Complex)
- Spike glycoprotein (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ya0
Q-score: 0.327
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ Pubmed: 36002453 DOI: doi:10.1038/s41467-022-32665-7 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cryo-em structure of hace2-bound sars-cov-2 omicron spike protein with l371s, p373s and f375s mutations (local refinement) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (Complex)
- Spike glycoprotein (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7xch
Q-score: 0.31
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Sars-cov-2 omicron spike protein (Complex from Homo sapiens)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ace2 ectodomain (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with human ace2 ectodomain (two-rbd-up state) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 Omicron RBD in complex with human ACE2 ectodomain (local refinement)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xci
Q-score: 0.478
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Cryo-em structure of sars-cov-2 omicron rbd in complex with human ace2 ectodomain(local refinement) (Complex from Homo sapiens)
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex)
- Zinc ion (65 Da, Ligand)
- Spike glycoprotein (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Omicron RBD in complex with S309 fab (local refinement)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7xck
Q-score: 0.548
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- S309 heavy chain (24 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron rbd in complex with s309 fab (local refinement) (Complex from Homo sapiens)
- S309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s1 (30 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S309 light chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex)
Cryo-EM structure of Omicron RBD complexed with ACE2 and 304 Fab
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7xcp
Q-score: 0.457
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Lignt chain of 304 fab (23 kDa, Protein from Homo sapiens)
- Omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ace2 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryoem structure of omicron rbd complexed with ace2 and 304 fab (Complex)
- 304 fab (Complex from Homo sapiens)
- Heavy chain of 304 fab (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)