SARS-CoV2 Omicron BA.1 RBD in complex with CAB-A17 antibody
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8c0y
Q-score: 0.491
Sheward DJ, Pushparaj P, Das H, Greaney AJ, Kim C, Kim S, Hanke L, Hyllner E, Dyrdak R, Lee J, Dopico XC, Dosenovic P, Peacock TP, McInerney GM, Albert J, Corcoran M, Bloom JD, Murrell B, Karlsson Hedestam GB, Hallberg BM
Cell Rep Med (2024) 5 pp. 101577-101577 [ DOI: doi:10.1016/j.xcrm.2024.101577 Pubmed: 38761799 ]
- Sars-cov2 omicron ba.1 spike in complex with cab-a17 antibody (95 kDa, Complex)
- Cab-a17 antibody (variable) (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (fab) (Complex from Enterobacteria phage T4)
- Spike protein s2' (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (variable) (12 kDa, Protein from Homo sapiens)
The interface structure of Omicron RBD binding to 5817 Fab
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8khd
Q-score: 0.393
Wang Y, Zhang Z, Yang M, Xiong X, Yan Q, Cao L, Wei P, Zhang Y, Zhang L, Lv K, Chen J, Liu X, Zhao X, Xiao J, Zhang S, Zhu A, Gan M, Zhang J, Cai R, Zhuo J, Zhang Y, Rao H, Qu B, Zhang Y, Chen L, Dai J, Cheng L, Hu Q, Chen Y, Lv H, So RTY, Peiris M, Zhao J, Liu X, Mok CKP, Wang X, Zhao J
Cell Rep (2024) 43 pp. 113653-113653 [ Pubmed: 38175758 DOI: doi:10.1016/j.celrep.2023.113653 ]
- Heavy chain of 5817 (13 kDa, Protein from Homo sapiens)
- The interface structure of omicron rbd binding to 5817 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of 5817 (11 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron 1-RBD up Spike trimer complexed with three XG005 molecules
Resolution: 3.74 Å
EM Method: Single-particle
Fitted PDBs: 7ycy
Q-score: 0.26
To Be Published
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Xg005-vl (11 kDa, Protein from Homo sapiens)
- Xg005-vh (13 kDa, Protein from Homo sapiens)
- Omicron rbd with xg005 (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron 2-RBD up Spike trimer complexed with three XG005 molecules
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 7ycz
Q-score: 0.352
To Be Published
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Xg005-vh (23 kDa, Protein from Homo sapiens)
- Xg005-vl (21 kDa, Protein from Homo sapiens)
- Omicron rbd with xg005 (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron 1-RBD up spike trimer complexed with two XG005 Fab
Resolution: 3.58 Å
EM Method: Single-particle
Fitted PDBs: 7yd0
Q-score: 0.267
To Be Published
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Xg005-vh (23 kDa, Protein from Homo sapiens)
- Xg005-vl (21 kDa, Protein from Homo sapiens)
- Omicron rbd with xg005 (Complex from Severe acute respiratory syndrome coronavirus 2)
Local refinement of SARS-CoV-2 Omicron S trimer complexed with XG005
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 7yd1
Q-score: 0.432
To Be Published
- Xg005-vh (13 kDa, Protein from Homo sapiens)
- Omicron rbd with xg005 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Xg005-vl (11 kDa, Protein from Homo sapiens)
Local structure of BD55-3500 and omicron RBD complex
Resolution: 3.78 Å
EM Method: Single-particle
Fitted PDBs: 7wsc
Q-score: 0.444
To Be Published
- 3500h (14 kDa, Protein from Homo sapiens)
- Bd55-3500 (Complex from Homo sapiens)
- 3500l (11 kDa, Protein from Homo sapiens)
- Omicron rbd (Complex from Severe acute respiratory syndrome coronavirus)
- Spike protein s1 (26 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Local structure of bd55-3500 and omicron rbd (Complex)
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 ]
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Spike glycoprotein (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cryo-em structure of sars-cov-2 omicron rbd in complex with human ace2 ectodomain(local refinement) (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron rbd (Complex)
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 ]
- Spike protein s1 (30 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) (Complex from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex)
- S309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- S309 heavy chain (24 kDa, Protein from Homo sapiens)
- S309 light chain (23 kDa, Protein from Homo sapiens)
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 ]
- Ace2 (Complex from Homo sapiens)
- Omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Lignt chain of 304 fab (23 kDa, Protein from Homo sapiens)
- 304 fab (Complex from Homo sapiens)
- Heavy chain of 304 fab (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryoem structure of omicron rbd complexed with ace2 and 304 fab (Complex)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)