Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 8dt8
Q-score: 0.443
Misson Mindrebo L, Liu H, Ozorowski G, Tran Q, Woehl J, Khalek I, Smith JM, Barman S, Zhao F, Keating C, Limbo O, Verma M, Liu J, Stanfield RL, Zhu X, Turner HL, Sok D, Huang PS, Burton DR, Ward AB, Wilson IA, Jardine JG
PNAS (2023) 120 pp. e2216612120-e2216612120 [ Pubmed: 37276407 DOI: doi:10.1073/pnas.2216612120 ]
- Lm18 nanobody (14 kDa, Protein from synthetic construct)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lm18/nb136 bispecific tetra-nanobody immunoglobulin in complex with sars-cov-2-6p-mut7 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Nb136 nanobody (13 kDa, Protein from synthetic construct)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2-6P-Mut7 S protein (C3 symmetry)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7ru1
Q-score: 0.563
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
SARS-CoV-2-6P-Mut7 S protein (asymmetric)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7ru2
Q-score: 0.521
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
CC6.33 IgG in complex with SARS-CoV-2-6P-Mut7 S protein (non-uniform refinement)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7ru3
Q-score: 0.413
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cc6.33 igg (Complex from Homo sapiens)
- Cc6.33 igg in complex with sars-2-cov-6p-mut7 s protein (Complex)
- Cc6.33 igg heavy chain fv (12 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cc6.33 igg kappa chain fv (11 kDa, Protein from Homo sapiens)
CC6.33 IgG in complex with SARS-CoV-2-6P-Mut7 S protein (RBD/Fv local refinement)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7ru4
Q-score: 0.457
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cc6.33 igg (Complex from Homo sapiens)
- Cc6.33 igg in complex with sars-2-cov-6p-mut7 s protein (Complex)
- Cc6.33 igg heavy chain fv (12 kDa, Protein from Homo sapiens)
- Cc6.33 igg kappa chain fv (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7ru5
Q-score: 0.315
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
- Cc6.30 fab in complex with sars-cov-2-6p-mut7 s protein (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cc6.30 fab heavy chain fv (13 kDa, Protein from Homo sapiens)
- Cc6.30 fab (Complex from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Cc6.30 fab kappa chain fv (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7ru8
Q-score: 0.334
Zhao F, Keating C, Ozorowski G, Shaabani N, Francino-Urdaniz IM, Barman S, Limbo O, Burns A, Zhou P, Ricciardi MJ, Woehl J, Tran Q, Turner HL, Peng L, Huang D, Nemazee D, Andrabi R, Sok D, Teijaro JR, Whitehead TA, Ward AB, Burton DR, Jardine JG
iScience (2022) 25 pp. 104914-104914 [ Pubmed: 35971553 DOI: doi:10.1016/j.isci.2022.104914 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cc6.30 fab in complex with sars-2-cov-6p-mut7 s protein (Complex)
- Cc6.30 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Cc6.30 fab kappa chain fv (11 kDa, Protein from Homo sapiens)
- Cc6.30 fab heavy chain fv (13 kDa, Protein from Homo sapiens)
- Cc6.30 fab (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
BG505 MD39 SOSIP trimer in complex with mature BG18 fragment antigen binding
Resolution: 4.42 Å
EM Method: Single-particle
Fitted PDBs: 6dfg
Q-score: 0.348
Steichen JM, Lin YC, Havenar-Daughton C, Pecetta S, Ozorowski G, Willis JR, Toy L, Sok D, Liguori A, Kratochvil S, Torres JL, Kalyuzhniy O, Melzi E, Kulp DW, Raemisch S, Hu X, Bernard SM, Georgeson E, Phelps N, Adachi Y, Kubitz M, Landais E, Umotoy J, Robinson A, Briney B, Wilson IA, Burton DR, Ward AB, Crotty S, Batista FD, Schief WR
Science (2019) 366 [ DOI: doi:10.1126/science.aax4380 Pubmed: 31672916 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sosip trimer (Complex from Human immunodeficiency virus 1)
- Mature bg18 fragment antigen binding heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 md39 sosip trimer in complex with mature bg18 fragment antigen binding (570 kDa, Complex)
- Mature bg18 fragment antigen binding light chain (22 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (18 kDa, Protein from Human immunodeficiency virus 1)
- Bg18 fragment (Complex from Homo sapiens)
- Envelope glycoprotein gp160 (53 kDa, Protein from Human immunodeficiency virus 1)
BG505 MD64 N332-GT2 SOSIP trimer in complex with germline-reverted BG18 fragment antigen binding
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 6dfh
Q-score: 0.392
Steichen JM, Lin YC, Havenar-Daughton C, Pecetta S, Ozorowski G, Willis JR, Toy L, Sok D, Liguori A, Kratochvil S, Torres JL, Kalyuzhniy O, Melzi E, Kulp DW, Raemisch S, Hu X, Bernard SM, Georgeson E, Phelps N, Adachi Y, Kubitz M, Landais E, Umotoy J, Robinson A, Briney B, Wilson IA, Burton DR, Ward AB, Crotty S, Batista FD, Schief WR
Science (2019) 366 [ DOI: doi:10.1126/science.aax4380 Pubmed: 31672916 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg18 fragment antigen (Complex from Homo sapiens)
- Sosip trimer (Complex from Human immunodeficiency virus 1)
- Bg505 md64 n332-gt2 sosip trimer in complex with germline-reverted bg18 fragment antigen binding (570 kDa, Complex)
- Envelope glycoprotein gp160 (18 kDa, Protein from Human immunodeficiency virus 1)
- Germline-reverted bg18 fragment antigen binding light chain (22 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (53 kDa, Protein from Human immunodeficiency virus 1)
- Germline-reverted bg18 fragment antigen binding heavy chain (24 kDa, Protein from Homo sapiens)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6mar
Q-score: 0.361
Cao L, Pauthner M, Andrabi R, Rantalainen K, Berndsen Z, Diedrich JK, Menis S, Sok D, Bastidas R, Park SR, Delahunty CM, He L, Guenaga J, Wyatt RT, Schief WR, Ward AB, Yates JR, Burton DR, Paulson JC
Nat Commun (2018) 9 pp. 3693-3693 [ DOI: doi:10.1038/s41467-018-06121-4 Pubmed: 30209313 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Hiv-1 envelope glycoprotein clone bg505 delct n332t in complex with broadly neutralizing antibody fab pgt151 (Complex from Human immunodeficiency virus 1)
- Immunoglobulin g pgt151 fab, heavy chain (26 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (55 kDa, Protein from Human immunodeficiency virus 1)
- Immunoglobulin g pgt151, light chain (24 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (24 kDa, Protein from Human immunodeficiency virus 1)