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 [ Pubmed: 38753770 DOI: doi:10.1126/science.adk0582 ]
- Bg505_md39_b11 gp41 (18 kDa, Protein from Human immunodeficiency virus)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 env bg505_md39_b11 sosip in complex with fabs b11_d77.7 and rm20a3 (Complex)
- Bg505_md39_b11 gp120 (54 kDa, Protein from Human immunodeficiency virus)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- B11_d77.7 fab kappa light chain (11 kDa, Protein from Mus musculus)
- B11_d77.7 fab heavy chain (14 kDa, Protein from Mus musculus)
MD65 N332-GT5 SOSIP in complex with RM_N332_03 Fab and RM20A3 Fab
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8t49
Q-score: 0.495
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 [ Pubmed: 38753769 DOI: doi:10.1126/science.adj8321 ]
- Md65 n332-gt5 sosip gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Rm_n332_03 heavy chain fv (14 kDa, Protein from Macaca mulatta)
- Rm20a3 heavy chain fv (13 kDa, Protein from Macaca mulatta)
- Rm_n332_03 light chain fv (11 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 light chain fv (13 kDa, Protein from Macaca mulatta)
- Md65 n332-gt5 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Md65 n332-gt5 sosip in complex with rm_n332_03 fab and rm20a3 fab (Complex from Macaca mulatta)
MD65 N332-GT5 SOSIP in complex with RM_N332_36 Fab and RM20A3 Fab
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8t4a
Q-score: 0.466
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 [ Pubmed: 38753769 DOI: doi:10.1126/science.adj8321 ]
- Md65 n332-gt5 sosip gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Md65 n332-gt5 sosip in complex with rm_n332_36 fab and rm20a3 fab (Complex from Macaca mulatta)
- Rm_n332_36 light chain fv (11 kDa, Protein from Macaca mulatta)
- Rm20a3 heavy chain fv (13 kDa, Protein from Macaca mulatta)
- Rm_n332_36 heavy chain fv (14 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 light chain fv (13 kDa, Protein from Macaca mulatta)
- Md65 n332-gt5 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
MD65 N332-GT5 SOSIP in complex with RM_N332_32 Fab and RM20A3
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8t4b
Q-score: 0.483
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 [ Pubmed: 38753769 DOI: doi:10.1126/science.adj8321 ]
- Md65 n332-gt5 sosip gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Rm_n332_32 heavy chain fv (13 kDa, Protein from Macaca mulatta)
- Rm_n332_32 light chain fv (11 kDa, Protein from Macaca mulatta)
- Md65 n332-gt5 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 heavy chain fv (13 kDa, Protein from Macaca mulatta)
- Rm20a3 light chain fv (13 kDa, Protein from Macaca mulatta)
- Md65 n332-gt5 sosip in complex with rm_n332_32 fab and rm20a3 fab (Complex from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 7t2p
Q-score: 0.422
Zhao F, Berndsen ZT, Pedreno-Lopez N, Burns A, Allen JD, Barman S, Lee WH, Chakraborty S, Gnanakaran S, Sewall LM, Ozorowski G, Limbo O, Song G, Yong P, Callaghan S, Coppola J, Weisgrau KL, Lifson JD, Nedellec R, Voigt TB, Laurino F, Louw J, Rosen BC, Ricciardi M, Crispin M, Desrosiers RC, Rakasz EG, Watkins DI, Andrabi R, Ward AB, Burton DR, Sok D
Nat Commun (2022) 13 pp. 5236-5236 [ DOI: doi:10.1038/s41467-022-32783-2 Pubmed: 36068229 ]
- K11 fab heavy chain (53 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp120 (60 kDa, Protein from Simian immunodeficiency virus)
- Sivmac239.k180s sosip trimer in complex with 3 copies of k11 fab (Complex from Simian immunodeficiency virus)
- K11 fab light chain (25 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp41 (18 kDa, Protein from Simian immunodeficiency virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7t4g
Q-score: 0.406
Zhao F, Berndsen ZT, Pedreno-Lopez N, Burns A, Allen JD, Barman S, Lee WH, Chakraborty S, Gnanakaran S, Sewall LM, Ozorowski G, Limbo O, Song G, Yong P, Callaghan S, Coppola J, Weisgrau KL, Lifson JD, Nedellec R, Voigt TB, Laurino F, Louw J, Rosen BC, Ricciardi M, Crispin M, Desrosiers RC, Rakasz EG, Watkins DI, Andrabi R, Ward AB, Burton DR, Sok D
Nat Commun (2022) 13 pp. 5236-5236 [ DOI: doi:10.1038/s41467-022-32783-2 Pubmed: 36068229 ]
- Envelope glycoprotein gp120 (60 kDa, Protein from Simian immunodeficiency virus)
- K11 igg heavy chain (53 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- K11 igg light chain (25 kDa, Protein from Macaca mulatta)
- Sivmac239.k180s sosip trimer in complex with 3 copies of k11 igg (Complex from Simian immunodeficiency virus)
- Envelope glycoprotein gp41 (18 kDa, Protein from Simian immunodeficiency virus)
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 light chain (12 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)
- Acs122 heavy chain (13 kDa, Protein from Homo sapiens)
- Acs114 heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Acs122 light chain (11 kDa, Protein from Homo sapiens)
- Amc009 sosipv5.2 envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
AMC009 SOSIPv5.2 in complex with Fabs ACS101 and ACS124
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 7z3a
Q-score: 0.368
van Schooten J, Farokhi E, Schorcht A, van den Kerkhof TLGM, Gao H, van der Woude P, Burger JA, Meesters TGR, Bijl T, Ghalaiyini R, Turner HL, Dorning J, van Schaik BDC, van Kampen AHC, Labranche CC, Stanfield RL, Sok D, Montefiori DC, Burton DR, Seaman MS, Ozorowski G, Wilson IA, Sanders RW, Ward AB, van Gils MJ
Nat Commun (2022) 13 pp. 4515-4515 [ DOI: doi:10.1038/s41467-022-32208-0 Pubmed: 35922441 ]
- Amc009 sosipv5.2 in complex with fabs acs101 and acs124 (Complex from Human immunodeficiency virus 1)
- Acs124 light chain (11 kDa, Protein from Homo sapiens)
- Amc009 sosipv5.2 in complex with fabs acs101 and acs124 (17 MDa, Complex)
- Amc009 sosipv5.2 in complex with fabs acs101 and acs124 (Complex from Homo sapiens)
- Amc009 sosipv5.2 envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Acs124 heavy chain (13 kDa, Protein from Homo sapiens)
- Acs101 heavy chain (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Amc009 sosip.v5.2 envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Acs101 light chain (11 kDa, Protein from Homo sapiens)
BG505 SOSIP.v5.2 in complex with rhesus macaque Fab RM20J
Resolution: 3.88 Å
EM Method: Single-particle
Fitted PDBs: 6vo1
Q-score: 0.389
Cottrell CA, van Schooten J, Bowman CA, Yuan M, Oyen D, Shin M, Morpurgo R, van der Woude P, van Breemen M, Torres JL, Patel R, Gross J, Sewall LM, Copps J, Ozorowski G, Nogal B, Sok D, Rakasz EG, Labranche C, Vigdorovich V, Christley S, Carnathan DG, Sather DN, Montefiori D, Silvestri G, Burton DR, Moore JP, Wilson IA, Sanders RW, Ward AB, van Gils MJ
PLoS Pathog (2020) 16 pp. e1008753-e1008753 [ Pubmed: 32866207 DOI: doi:10.1371/journal.ppat.1008753 ]
- Fab rm20j (Complex from Macaca mulatta)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 sosip.v5.2 (Complex from Human immunodeficiency virus 1)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 sosip.v5.2 in complex with rhesus macaque fab rm20j (Complex)
- Rm20j kappa light chain (11 kDa, Protein from Macaca mulatta)
- Rm20j heavy chain fab (12 kDa, Protein from Macaca mulatta)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6pw6
Q-score: 0.354
Stanfield RL, Berndsen ZT, Huang R, Sok D, Warner G, Torres JL, Burton DR, Ward AB, Wilson IA, Smider VV
Sci Adv (2020) 6 pp. eaba0468-eaba0468 [ DOI: doi:10.1126/sciadv.aba0468 Pubmed: 32518821 ]
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein clone bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bovine fab nc-cow1 (Complex from Bos taurus)
- A complex of the hiv-1 envelope glycoprotein clone bg505 sosip.664 and 3 copies of the bovine fab nc-cow1 (Complex)
- Broadly neutralizing antibody nc-cow1 heavy chain (28 kDa, Protein from Bos taurus)
- Envelope glycoprotein gp120 (57 kDa, Protein from Human immunodeficiency virus 1)