HIV-1 BG505 Env SOSIP in complex with bovine Fab Bess4 and non-human primate Fab RM20A3
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8tq1
Q-score: 0.512
Altman PX, Ozorowski G, Stanfield RL, Haakenson J, Appel M, Parren M, Lee WH, Sang H, Woehl J, Saye-Francisco K, Sewall LM, Joyce C, Song G, Porter K, Landais E, Andrabi R, Wilson IA, Ward AB, Mwangi W, Smider VV, Burton DR, Sok D
PLoS Pathog (2024) 20 pp. e1012042-e1012042 [ DOI: doi:10.1371/journal.ppat.1012042 Pubmed: 39250525 ]
- Nhp rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Nhp rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 bg505 sosip env in complex with bovine bess4 fab and nhp rm20a3 fab (Complex from Human immunodeficiency virus 1)
- Transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bovine bess4 fab heavy chain (17 kDa, Protein from Bos taurus)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
HIV Env BG505_MD39_B11 SOSIP boosting trimer in complex with B11_d77.7 mouse Fab and RM20A3 Fab
Resolution: 3.14 Å
EM Method: Single-particle
Fitted PDBs: 8f92
Q-score: 0.516
Xie Z, Lin YC, Steichen JM, Ozorowski G, Kratochvil S, Ray R, Torres JL, Liguori A, Kalyuzhniy O, Wang X, Warner JE, Weldon SR, Dale GA, Kirsch KH, Nair U, Baboo S, Georgeson E, Adachi Y, Kubitz M, Jackson AM, Richey ST, Volk RM, Lee JH, Diedrich JK, Prum T, Falcone S, Himansu S, Carfi A, Yates 3rd JR, Paulson JC, Sok D, Ward AB, Schief WR, Batista FD
Science (2024) 384 pp. eadk0582-eadk0582 [ DOI: doi:10.1126/science.adk0582 Pubmed: 38753770 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- B11_d77.7 fab heavy chain (14 kDa, Protein from Mus musculus)
- Bg505_md39_b11 gp41 (18 kDa, Protein from Human immunodeficiency virus)
- Bg505_md39_b11 gp120 (54 kDa, Protein from Human immunodeficiency virus)
- Hiv-1 env bg505_md39_b11 sosip in complex with fabs b11_d77.7 and rm20a3 (Complex)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- B11_d77.7 fab kappa light chain (11 kDa, Protein from Mus musculus)
HIV Env BG505_MD39_B16 SOSIP boosting trimer in complex with B16_d77.5 mouse Fab and RM20A3 Fab
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8vfv
Q-score: 0.495
Xie Z, Lin YC, Steichen JM, Ozorowski G, Kratochvil S, Ray R, Torres JL, Liguori A, Kalyuzhniy O, Wang X, Warner JE, Weldon SR, Dale GA, Kirsch KH, Nair U, Baboo S, Georgeson E, Adachi Y, Kubitz M, Jackson AM, Richey ST, Volk RM, Lee JH, Diedrich JK, Prum T, Falcone S, Himansu S, Carfi A, Yates 3rd JR, Paulson JC, Sok D, Ward AB, Schief WR, Batista FD
Science (2024) 384 pp. eadk0582-eadk0582 [ DOI: doi:10.1126/science.adk0582 Pubmed: 38753770 ]
- Transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- B16_d77.5 mouse fab light chain fv (12 kDa, Protein from Mus musculus)
- Iv env bg505_md39_b16 sosip boosting trimer in complex with b16_d77.5 mouse fab and rm20a3 fab (Complex from Human immunodeficiency virus 1)
- B16_d77.5 mouse fab heavy chain fv (13 kDa, Protein from Mus musculus)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8t4k
Q-score: 0.62
Steichen JM, Phung I, Salcedo E, Ozorowski G, Willis JR, Baboo S, Liguori A, Cottrell CA, Torres JL, Madden PJ, Ma KM, Sutton HJ, Lee JH, Kalyuzhniy O, Allen JD, Rodriguez OL, Adachi Y, Mullen TM, Georgeson E, Kubitz M, Burns A, Barman S, Mopuri R, Metz A, Altheide TK, Diedrich JK, Saha S, Shields K, Schultze SE, Smith ML, Schiffner T, Burton DR, Watson CT, Bosinger SE, Crispin M, Yates 3rd JR, Paulson JC, Ward AB, Sok D, Crotty S, Schief WR
Science (2024) 384 pp. eadj8321-eadj8321 [ DOI: doi:10.1126/science.adj8321 Pubmed: 38753769 ]
- Md64 n332-gt5 sosip gp41 (18 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Md64 n332-gt5 sosip (Complex from Human immunodeficiency virus 1)
- Md64 n332-gt5 sosip gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
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 [ DOI: doi:10.1073/pnas.2216612120 Pubmed: 37276407 ]
- Lm18 nanobody (14 kDa, Protein from synthetic construct)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Lm18/nb136 bispecific tetra-nanobody immunoglobulin in complex with sars-cov-2-6p-mut7 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nb136 nanobody (13 kDa, Protein from synthetic construct)
AMC009 SOSIPv5.2 in complex with Fabs ACS114 and ACS122
Resolution: 3.99 Å
EM Method: Single-particle
Fitted PDBs: 7zlk
Q-score: 0.362
van Schooten J, Schorcht A, Farokhi E, Umotoy JC, Gao H, van den Kerkhof TLGM, Dorning J, Rijkhold Meesters TG, van der Woude P, Burger JA, Bijl T, Ghalaiyini R, Torrents de la Pena A, Turner HL, Labranche CC, Stanfield RL, Sok D, Schuitemaker H, Montefiori DC, Burton DR, Ozorowski G, Seaman MS, Wilson IA, Sanders RW, Ward AB, van Gils MJ
PLoS Pathog (2022) 18 pp. e1010945-e1010945 [ Pubmed: 36395347 DOI: doi:10.1371/journal.ppat.1010945 ]
- Acs114 heavy chain (13 kDa, Protein from Homo sapiens)
- Acs122 heavy chain (13 kDa, Protein from Homo sapiens)
- Acs122 light chain (11 kDa, Protein from Homo sapiens)
- Amc009 sosipv5.2 envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Amc009 sosipv5.2 in complex with fabs acs114 and acs122 (17 MDa, Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Acs114 light chain (12 kDa, Protein from Homo sapiens)
- Amc009 sosipv5.2 envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
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 [ DOI: doi:10.1016/j.isci.2022.104914 Pubmed: 35971553 ]
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 [ DOI: doi:10.1016/j.isci.2022.104914 Pubmed: 35971553 ]
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 [ DOI: doi:10.1016/j.isci.2022.104914 Pubmed: 35971553 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cc6.33 igg (Complex from Homo sapiens)
- Cc6.33 igg in complex with sars-2-cov-6p-mut7 s protein (Complex)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Cc6.33 igg kappa chain fv (11 kDa, Protein from Homo sapiens)
- Cc6.33 igg heavy chain fv (12 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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 [ DOI: doi:10.1016/j.isci.2022.104914 Pubmed: 35971553 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cc6.33 igg (Complex from Homo sapiens)
- Cc6.33 igg kappa chain fv (11 kDa, Protein from Homo sapiens)
- Cc6.33 igg in complex with sars-2-cov-6p-mut7 s protein (Complex)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Cc6.33 igg heavy chain fv (12 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)