Dam KA, Barnes CO, Gristick HB, Schoofs T, Gnanapragasam PNP, Nussenzweig MC, Bjorkman PJ
Nat Commun (2022) 13 pp. 6123-6123 [ DOI: doi:10.1038/s41467-022-33860-2 Pubmed: 36253376 ]
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7ugq
Q-score: 0.47
Dam KA, Barnes CO, Gristick HB, Schoofs T, Gnanapragasam PNP, Nussenzweig MC, Bjorkman PJ
Nat Commun (2022) 13 pp. 6123-6123 [ DOI: doi:10.1038/s41467-022-33860-2 Pubmed: 36253376 ]
- Bg24 with an inferred germline cdrl1 fab light chain (11 kDa, Protein from Homo sapiens)
- Cryo-em map of bg24 fabs with an inferred germline cdrl1 and 10-1074 fabs in complex with hiv-1 env 6405-sosip.664 (Complex from Human immunodeficiency virus 1)
- 10-1074 fab light chain (11 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (50 kDa, Protein from Human immunodeficiency virus 1)
- Bg24 with an inferred germline cdrl1 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (14 kDa, Protein from Human immunodeficiency virus 1)
- 10-1074 fab heavy chain (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7ugn
Q-score: 0.477
Dam KA, Barnes CO, Gristick HB, Schoofs T, Gnanapragasam PNP, Nussenzweig MC, Bjorkman PJ
Nat Commun (2022) 13 pp. 6123-6123 [ DOI: doi:10.1038/s41467-022-33860-2 Pubmed: 36253376 ]
- Envelope glycoprotein gp120 (50 kDa, Protein from Human immunodeficiency virus 1)
- Bg24 inferred germline fab with germline cdr3s light chain (11 kDa, Protein from Homo sapiens)
- Cryo-em map of bg24-igl cdr3igl and 10-1074 fabs in complex with bg505 sosip.664v4.1-gt1 env trimer immunogen (Complex from Human immunodeficiency virus 1)
- Alpha-d-mannopyranose (180 Da, Ligand)
- 10-1074 fab light chain (11 kDa, Protein from Homo sapiens)
- Bg24 inferred germline fab with germline cdr3s heavy chain (13 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (14 kDa, Protein from Human immunodeficiency virus 1)
- 10-1074 fab heavy chain (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7k8s
Q-score: 0.409
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- Ternary complex of sars-cov-2 s 2p glycoprotein with fab fragments of the human neutralizing antibody c002 (700 kDa, Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Neutralizing antibody c002 (Complex from Homo sapiens)
- C002 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- C002 fab heavy chain (25 kDa, Protein from Homo sapiens)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7k8t
Q-score: 0.407
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- Ternary complex of sars-cov-2 s 2p glycoprotein with fab fragments of the human neutralizing antibody c002 (700 kDa, Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Neutralizing antibody c002 (Complex from Homo sapiens)
- C002 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- C002 fab heavy chain (25 kDa, Protein from Homo sapiens)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7k8u
Q-score: 0.38
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- C104 fab light chain (23 kDa, Protein from Homo sapiens)
- Neutralizing antibody c104 (Complex from Homo sapiens)
- C104 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ternary complex of sars-cov-2 s 2p glycoprotein with fab fragments of the human neutralizing antibody c104 (700 kDa, Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7k8v
Q-score: 0.262
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- C110 fab light chain (23 kDa, Protein from Homo sapiens)
- Ternary complex of sars-cov-2 s 2p trimer with human neutralizing antibody fab fragment c110 (720 kDa, Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- C110 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Neutralizing antibody fab fragment c110 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7k8w
Q-score: 0.344
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- Neutralizing antibody c119 (Complex from Homo sapiens)
- Ternary complex of sars-cov-2 s 2p glycoprotein with fab fragments of the human neutralizing antibody c119 (700 kDa, Complex)
- C119 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- C119 fab light chain (22 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7k8x
Q-score: 0.29
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- Ternary complex of sars-cov-2 s 2p trimer with human neutralizing antibody fab fragment c121 (Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- C121 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Neutralizing antibody fab fragment c121 (Complex from Homo sapiens)
- C121 fab light chain (22 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7k8z
Q-score: 0.395
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West Jr AP, Bjorkman PJ
Nature (2020) 588 pp. 682-687 [ Pubmed: 33045718 DOI: doi:10.1038/s41586-020-2852-1 ]
- C135 fab light chain (23 kDa, Protein from Homo sapiens)
- Neutralizing antibody c135 (Complex from Homo sapiens)
- C135 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ternary complex of sars-cov-2 s 2p glycoprotein with fab fragments of the human neutralizing antibody c135 (700 kDa, Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s 2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)