SARS-CoV-2 spike in complex with the ZB8 neutralizing antibody Fab (focused refinement on Fab-RBD)
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 7wh8
Q-score: 0.523
Zhou B, Zhou R, Chan JF, Zeng J, Zhang Q, Yuan S, Liu L, Robinot R, Shan S, Liu N, Ge J, Kwong HY, Zhou D, Xu H, Chan CC, Poon VK, Chu H, Yue M, Kwan KY, Chan CY, Chan CC, Chik KK, Du Z, Au KK, Huang H, Man HO, Cao J, Li C, Wang Z, Zhou J, Song Y, Yeung ML, To KK, Ho DD, Chakrabarti LA, Wang X, Zhang L, Yuen KY, Chen Z
Emerg Microbes Infect (2023) 12 pp. 2245921-2245921 [ Pubmed: 37542391 DOI: doi:10.1080/22221751.2023.2245921 ]
- Spike glycoprotein (31 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike (Complex)
- Antibody zb8 heavy chain (23 kDa, Protein from Homo sapiens)
- Fab-spike (Complex from Homo sapiens)
- Fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Antibody zb8 light chain (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with the ZB8 neutralizing antibody Fab (3U)
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 7whb
Q-score: 0.479
Zhou B, Zhou R, Chan JF, Zeng J, Zhang Q, Yuan S, Liu L, Robinot R, Shan S, Liu N, Ge J, Kwong HY, Zhou D, Xu H, Chan CC, Poon VK, Chu H, Yue M, Kwan KY, Chan CY, Chan CC, Chik KK, Du Z, Au KK, Huang H, Man HO, Cao J, Li C, Wang Z, Zhou J, Song Y, Yeung ML, To KK, Ho DD, Chakrabarti LA, Wang X, Zhang L, Yuen KY, Chen Z
Emerg Microbes Infect (2023) 12 pp. 2245921-2245921 [ Pubmed: 37542391 DOI: doi:10.1080/22221751.2023.2245921 ]
- Antibody zb8 heavy chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Fab (Complex)
- Fab-spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody zb8 light chain (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with the ZB8 neutralizing antibody Fab (2u1d)
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 7whd
Q-score: 0.128
Zhou B, Zhou R, Chan JF, Zeng J, Zhang Q, Yuan S, Liu L, Robinot R, Shan S, Liu N, Ge J, Kwong HY, Zhou D, Xu H, Chan CC, Poon VK, Chu H, Yue M, Kwan KY, Chan CY, Chan CC, Chik KK, Du Z, Au KK, Huang H, Man HO, Cao J, Li C, Wang Z, Zhou J, Song Y, Yeung ML, To KK, Ho DD, Chakrabarti LA, Wang X, Zhang L, Yuen KY, Chen Z
Emerg Microbes Infect (2023) 12 pp. 2245921-2245921 [ Pubmed: 37542391 DOI: doi:10.1080/22221751.2023.2245921 ]
- Antibody zb8 heavy chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Fab (Complex)
- Fab-spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody zb8 light chain (23 kDa, Protein from Homo sapiens)
Omicron spike trimer bound with P3E6 (Local Refinement)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7ykj
Q-score: 0.369
Luo M, Zhou B, Reddem ER, Tang B, Chen B, Zhou R, Liu H, Liu L, Katsamba PS, Au KK, Man HO, To KK, Yuen KY, Shapiro L, Dang S, Ho DD, Chen Z
Emerg Microbes Infect (2023) 12 pp. 2146538-2146538 [ DOI: doi:10.1080/22221751.2022.2146538 Pubmed: 36354024 ]
- P3e6 heavy chain,p3e6 light chain (Complex)
- P3e6 light chain (11 kDa, Protein from Homo sapiens)
- The complex of omicron spike trimer bound with p3e6 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P3e6 heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Homo sapiens)
Omicron Spike trimer bound with up P3E6 Fab (2 RBDs up and 1 RBD down)
Omicron Spike trimer bound with side P3E6 Fab (1 RBD up and 2 RBDs down)
Resolution: 3.76 Å
EM Method: Single-particle
Fitted PDBs: 8dxs
Q-score: 0.291
Luo M, Zhou B, Reddem ER, Tang B, Chen B, Zhou R, Liu H, Liu L, Katsamba PS, Au KK, Man HO, To KK, Yuen KY, Shapiro L, Dang S, Ho DD, Chen Z
Emerg Microbes Infect (2023) 12 pp. 2146538-2146538 [ DOI: doi:10.1080/22221751.2022.2146538 Pubmed: 36354024 ]
- Prefusion sars-cov-2 spike glycoprotein in complex with p2b4 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- P2b4 light chain (22 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P2b4 heavy chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
The structure of ZCB11 Fab against SARS-CoV-2 Omicron Spike
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 7xh8
Q-score: 0.255
Zhou B, Zhou R, Tang B, Chan JF, Luo M, Peng Q, Yuan S, Liu H, Mok BW, Chen B, Wang P, Poon VK, Chu H, Chan CC, Tsang JO, Chan CC, Au KK, Man HO, Lu L, To KK, Chen H, Yuen KY, Dang S, Chen Z
Nat Commun (2022) 13 pp. 3589-3589 [ DOI: doi:10.1038/s41467-022-31259-7 Pubmed: 35739114 ]
- The zcb11 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- The light chain of zcb11 antibody (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The spike protein of sars-cov-2 omicron variant (Complex)
- The heavy chain of zcb11 antibody (23 kDa, Protein from Homo sapiens)
- The complex of zcb11 against fab sars-cov-2 omicron spike (Complex from Homo sapiens)
The Cryo-EM structure of SARS-CoV-2 Omicron 2-RBD up spike protein complexed with ZCB11 fab
The Cryo-EM structure of SARS-CoV-2 Omicron 3-RBD up spike protein complexed with ZCB11 fab