SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 1 YB9-258 Fab (1 RBD up)
Resolution: 6.21 Å
EM Method: Single-particle
Fitted PDBs: 8hc2
Q-score: 0.154
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Heavy chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
- Yb9-258 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike trimer with one rbd up in complex with one yb9-258 fab (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Light chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 2 YB9-258 Fabs (2 RBD up)
Resolution: 4.35 Å
EM Method: Single-particle
Fitted PDBs: 8hc3
Q-score: 0.224
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Yb9-258 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike trimer with two rbd up in complex with two yb9-258 fab (Complex)
- Heavy chain of yb9-258 (23 kDa, Protein from Homo sapiens)
- Light chain of yb9-258 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 wildtype spike trimer (6P) in complex with 3 YB9-258 Fabs and 3 R1-32 Fabs (3 RBD up)
Resolution: 3.54 Å
EM Method: Single-particle
Fitted PDBs: 8hc4
Q-score: 0.221
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Yb9-258 fab and r1-32 fab (Complex from Homo sapiens)
- Heavy chain of r1-32 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 wildtype spike trimer with three rbd up in complex with three yb9-258 fab and three r1-32 fab (Complex)
- Light chain of r1-32 fab (22 kDa, Protein from Homo sapiens)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 wildtype spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of yb9-258 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Light chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 wildtype S1 in complex with YB9-258 Fab and R1-32 Fab
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8hc5
Q-score: 0.282
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Spike glycoprotein (75 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov_2 wildtype s1 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Yb9-258 fab and r1-32 fab (Complex from Homo sapiens)
- Heavy chain of r1-32 fab (23 kDa, Protein from Homo sapiens)
- Light chain of r1-32 fab (22 kDa, Protein from Homo sapiens)
- Light chain of yb9-258 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 wildtype s1 in complex with yb9-258 fab and r1-32 fab (Complex)
Resolution: 4.69 Å
EM Method: Single-particle
Fitted PDBs: 8hc6
Q-score: 0.221
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Heavy chain of yb9-258 fab (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (30 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike (6p) in complex with yb13-292 fab, focused refinement of rbd region (Complex)
- Spike protein s1 (31 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb13-292 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of yb9-258 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 4.54 Å
EM Method: Single-particle
Fitted PDBs: 8hc7
Q-score: 0.234
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Light chain variable region of yb9-258 (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Yb9-258 fab (Complex from Homo sapiens)
- Spike protein s1 (30 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike trimer with in complex with yb9-258 fab, focused refinement of 2 rbd region (Complex)
- Sars-cov_2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain variable region of yb9-258 (12 kDa, Protein from Homo sapiens)
- Spike protein s1 (58 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 8hc8
Q-score: 0.367
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Spike protein s1 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb13-292 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike trimer with in complex with yb13-292 fab, focused refinement of fab region (Complex)
- Heavy chain of yb13-292 fab (25 kDa, Protein from Homo sapiens)
- Light chain of yb13-292 fab (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 3 YB13-292 Fabs (3 RBD down)
Resolution: 6.03 Å
EM Method: Single-particle
Fitted PDBs: 8hc9
Q-score: 0.156
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb13-292 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of yb13-292 fab (23 kDa, Protein from Homo sapiens)
- Heavy chain of yb13-292 fab (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.1 spike trimer with three rbd down in complex with three yb13-292 fab (Complex)
SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 3 YB13-292 Fabs (1 RBD up)
Resolution: 4.35 Å
EM Method: Single-particle
Fitted PDBs: 8hca
Q-score: 0.217
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb13-292 fab (Complex from Homo sapiens)
- Light chain of yb13-292 fab (23 kDa, Protein from Homo sapiens)
- Heavy chain of yb13-292 fab (25 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 ba.1 variant spike protein with one rbd up in complex with three yb13-292 fab (Complex)
SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 3 YB13-292 Fabs (2 RBD up)
Resolution: 4.18 Å
EM Method: Single-particle
Fitted PDBs: 8hcb
Q-score: 0.256
Yu H, Liu B, Zhang Y, Gao X, Wang Q, Xiang H, Peng X, Xie C, Wang Y, Hu P, Shi J, Shi Q, Zheng P, Feng C, Tang G, Liu X, Guo L, Lin X, Li J, Liu C, Huang Y, Yang N, Chen Q, Li Z, Su M, Yan Q, Pei R, Chen X, Liu L, Hu F, Liang D, Ke B, Ke C, Li F, He J, Wang M, Chen L, Xiong X, Tang X
Nat Commun (2023) 14 pp. 1058-1058 [ Pubmed: 36828833 DOI: doi:10.1038/s41467-023-36761-0 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Yb13-292 fab (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike trimer with two rbd up in complex with three yb13-292 fab (Complex)
- Sars-cov-2 omicron ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of yb13-292 fab (23 kDa, Protein from Homo sapiens)
- Heavy chain of yb13-292 fab (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)