CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-b.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-b.01 fab (Complex from Homo sapiens)
- Dj85-b.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Dj85-b.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip dj85-b.01 fab complex (Complex)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-c.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip dj85-c.01 fab complex (Complex)
- Dj85-c.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-c.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Dj85-c.01 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-d.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dj85-d.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip dj85-d.01 fab complex (Complex)
- Dj85-d.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Dj85-d.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-e.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- Dj85-e.01 fab (Complex from Homo sapiens)
- Dj85-e.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip dj85-e.01 fab complex (Complex)
- Dj85-e.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-c.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Herh-c.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Herh-c.01 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip herh-c.01 fab complex (Complex)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Herh-c.01 fab (Complex from Homo sapiens)
SARS-CoV-2 spike trimer in complex with Fab NE12, local refinement map
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7u9o
Q-score: 0.518
Chen Z, Zhang P, Matsuoka Y, Tsybovsky Y, West K, Santos C, Boyd LF, Nguyen H, Pomerenke A, Stephens T, Olia AS, Zhang B, De Giorgi V, Holbrook MR, Gross R, Postnikova E, Garza NL, Johnson RF, Margulies DH, Kwong PD, Alter HJ, Buchholz UJ, Lusso P, Farci P
Cell Rep (2022) 41 pp. 111528-111528 [ Pubmed: 36302375 DOI: doi:10.1016/j.celrep.2022.111528 ]
- Ne12 fab light chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike receptor-binding domain in complex with fab ne12 (110 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Ne12 fab heavy chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike trimer in complex with Fab NA8, local refinement map
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7u9p
Q-score: 0.528
Chen Z, Zhang P, Matsuoka Y, Tsybovsky Y, West K, Santos C, Boyd LF, Nguyen H, Pomerenke A, Stephens T, Olia AS, Zhang B, De Giorgi V, Holbrook MR, Gross R, Postnikova E, Garza NL, Johnson RF, Margulies DH, Kwong PD, Alter HJ, Buchholz UJ, Lusso P, Farci P
Cell Rep (2022) 41 pp. 111528-111528 [ Pubmed: 36302375 DOI: doi:10.1016/j.celrep.2022.111528 ]
- Sars-cov-2 spike receptor-binding domain in complex with fab na8 (110 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Na8 fab light chain (23 kDa, Protein from Homo sapiens)
- Na8 fab heavy chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of NTD-directed neutralizing antibody LP5 Fab in complex with SARS-CoV-2 S2P spike
Resolution: 4.46 Å
EM Method: Single-particle
Fitted PDBs: 7mxp
Q-score: 0.192
Madan B, Reddem ER, Wang P, Casner RG, Nair MS, Huang Y, Fahad AS, de Souza MO, Banach BB, Lopez Acevedo SN, Pan X, Nimrania R, Teng IT, Bahna F, Zhou T, Zhang B, Yin MT, Ho DD, Kwong PD, Shapiro L, DeKosky BJ
Aiche J (2021) 67 pp. e17440-e17440 [ Pubmed: 34898670 DOI: doi:10.1002/aic.17440 ]
- Lp5 fab light chain (11 kDa, Protein from Homo sapiens)
- Lp5 heavy chain, lp5 light chain (Complex from Homo sapiens)
- Lp5 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Prefusion sars-cov-2 spike glycoprotein in complex with lp5 fab (Complex)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Structure of SARS-CoV S protein in complex with Receptor Binding Domain antibody DH1047
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 7sg4
Q-score: 0.355
Martinez DR, Schafer A, Gobeil S, Li D, De la Cruz G, Parks R, Lu X, Barr M, Stalls V, Janowska K, Beaudoin E, Manne K, Mansouri K, Edwards RJ, Cronin K, Yount B, Anasti K, Montgomery SA, Tang J, Golding H, Shen S, Zhou T, Kwong PD, Graham BS, Mascola JR, Montefiori DC, Alam SM, Sempowski G, Sempowski GD, Khurana S, Wiehe K, Saunders KO, Acharya P, Haynes BF, Baric RS
Sci Transl Med (2022) 14 pp. eabj7125-eabj7125 [ DOI: doi:10.1126/scitranslmed.abj7125 Pubmed: 34726473 ]
- Dh1047 heavy chain (24 kDa, Protein from Homo sapiens)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Dh1047 light chain (24 kDa, Protein from Homo sapiens)
- Sars-cov s protein in complex with receptor binding domain antibody dh1047 (Complex from Severe acute respiratory syndrome-related coronavirus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
BG505 SOSIP.v5.2 in complex with VRC40.01 and RM19R Fabs
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 7lg6
Q-score: 0.484
Cottrell CA, Manne K, Kong R, Wang S, Zhou T, Chuang GY, Edwards RJ, Henderson R, Janowska K, Kopp M, Lin BC, Louder MK, Olia AS, Rawi R, Shen CH, Taft JD, Torres JL, Wu NR, Zhang B, Doria-Rose NA, Cohen MS, Haynes BF, Shapiro L, Ward AB, Acharya P, Mascola JR, Kwong PD
Cell Rep (2021) 37 pp. 109922-109922 [ DOI: doi:10.1016/j.celrep.2021.109922 Pubmed: 34731616 ]
- Bg505 sosip.v5.2 in complex with vrc40.01 and rm19r fabs (Complex)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 sosip.v5.2 (Complex from Human immunodeficiency virus 1)
- Rm19r fab (Complex from Macaca mulatta)
- Vrc40.01 fab (Complex from Homo sapiens)
- Vrc40.01 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Rm19r fab kappa light chain (23 kDa, Protein from Macaca mulatta)
- Vrc40.01 fab kappa light chain (23 kDa, Protein from Homo sapiens)
- Rm19r fab heavy chain (23 kDa, Protein from Macaca mulatta)