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 [ DOI: doi:10.1016/j.cell.2024.10.003 Pubmed: 39471811 ]
- Dj85-b.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Bg505 ds-sosip dj85-b.01 fab complex (Complex)
- Dj85-b.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-b.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1016/j.cell.2024.10.003 Pubmed: 39471811 ]
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Dj85-c.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip dj85-c.01 fab complex (Complex)
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 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 surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-c.01 fab (Complex from Homo sapiens)
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 [ DOI: doi:10.1016/j.cell.2024.10.003 Pubmed: 39471811 ]
- Bg505 ds-sosip glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Dj85-d.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Dj85-d.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-d.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip dj85-d.01 fab complex (Complex)
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 [ DOI: doi:10.1016/j.cell.2024.10.003 Pubmed: 39471811 ]
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)
- Dj85-e.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip dj85-e.01 fab complex (Complex)
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 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)
- Dj85-e.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1016/j.cell.2024.10.003 Pubmed: 39471811 ]
- Herh-c.01 fab (Complex from Homo sapiens)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 ds-sosip (Complex 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 transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip herh-c.01 fab complex (Complex)
5-HT1A-Gi in complex with compound (R)-IHCH-7179
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8jt6
Q-score: 0.542
Chen Z, Yu J, Wang H, Xu P, Fan L, Sun F, Huang S, Zhang P, Huang H, Gu S, Zhang B, Zhou Y, Wan X, Pei G, Xu HE, Cheng J, Wang S
Cell (2024) 187 pp. 2194-2208.e22 [ DOI: doi:10.1016/j.cell.2024.02.034 Pubmed: 38552625 ]
- Cholesterol (386 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- 1-(4-fluorophenyl)-4-[(7r)-2,5,11-triazatetracyclo[7.6.1.0^2,7.0^12,16]hexadeca-1(15),9,12(16),13-tetraen-5-yl]butan-1-one (377 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- [(2r)-1-[oxidanyl-[(2r,3r,5s,6r)-2,3,5,6-tetrakis(oxidanyl)-4-phosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-3-tetradecanoyloxy-propan-2-yl] (5e,8e)-hexadeca-5,8,11,14-tetraenoate (854 Da, Ligand)
- Soluble cytochrome b562,5-hydroxytryptamine receptor 1a (60 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (28 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- 5-ht1a-gi in complex with compound (r)-ihch-7179 (Complex from Homo sapiens)
Omicron BA.4/5 SARS-CoV-2 S in complex with TH027 Fab
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7yve
Q-score: 0.47
Guo Y, Zhang G, Yang Q, Xie X, Lu Y, Cheng X, Wang H, Liang J, Tang J, Gao Y, Shang H, Dai J, Shi Y, Zhou J, Zhou J, Guo H, Yang H, Qi J, Liu L, Ma S, Zhang B, Huo Q, Xie Y, Wu J, Dong F, Zhang S, Lou Z, Gao Y, Song Z, Wang W, Sun Z, Yang X, Xiong D, Liu F, Chen X, Zhu P, Wang X, Cheng T, Rao Z
Nat Commun (2023) 14 pp. 3537-3537 [ Pubmed: 37322000 DOI: doi:10.1038/s41467-023-39267-x ]
- Omicron ba.5 sars-cov-2 s in complex with th027 fab (Complex)
- Omicron ba.4/5 sars-cov-2 (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)
- Th027 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Th027 fab (Complex from Homo sapiens)
- Th027 fab light chain (11 kDa, Protein from Homo sapiens)
Omicron BA.4/5 SARS-CoV-2 S RBD in complex with TH027 Fab
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7yvf
Q-score: 0.518
Guo Y, Zhang G, Yang Q, Xie X, Lu Y, Cheng X, Wang H, Liang J, Tang J, Gao Y, Shang H, Dai J, Shi Y, Zhou J, Zhou J, Guo H, Yang H, Qi J, Liu L, Ma S, Zhang B, Huo Q, Xie Y, Wu J, Dong F, Zhang S, Lou Z, Gao Y, Song Z, Wang W, Sun Z, Yang X, Xiong D, Liu F, Chen X, Zhu P, Wang X, Cheng T, Rao Z
Nat Commun (2023) 14 pp. 3537-3537 [ DOI: doi:10.1038/s41467-023-39267-x Pubmed: 37322000 ]
- Th027 fab light chain (11 kDa, Protein from Homo sapiens)
- Th027 fab (Complex from Homo sapiens)
- Omicron ba.4/5 sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- Omicron ba.5 sars-cov-2 s rbd in complex with th027 fab (Complex)
- Th027 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Omicron BA.4/5 SARS-CoV-2 S in complex with TH132 Fab
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7yvg
Q-score: 0.384
Guo Y, Zhang G, Yang Q, Xie X, Lu Y, Cheng X, Wang H, Liang J, Tang J, Gao Y, Shang H, Dai J, Shi Y, Zhou J, Zhou J, Guo H, Yang H, Qi J, Liu L, Ma S, Zhang B, Huo Q, Xie Y, Wu J, Dong F, Zhang S, Lou Z, Gao Y, Song Z, Wang W, Sun Z, Yang X, Xiong D, Liu F, Chen X, Zhu P, Wang X, Cheng T, Rao Z
Nat Commun (2023) 14 pp. 3537-3537 [ DOI: doi:10.1038/s41467-023-39267-x Pubmed: 37322000 ]
- Omicron ba.4/5 sars-cov-2 s in complex with th027 fab (Complex)
- Th132 fab light chain (11 kDa, Protein from Homo sapiens)
- Th027 fab (Complex from Homo sapiens)
- Omicron ba.4/5 sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- Th132 fab heavy chain (12 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Omicron BA.4/5 SARS-CoV-2 S RBD in complex with TH132 Fab
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7yvh
Q-score: 0.401
Guo Y, Zhang G, Yang Q, Xie X, Lu Y, Cheng X, Wang H, Liang J, Tang J, Gao Y, Shang H, Dai J, Shi Y, Zhou J, Zhou J, Guo H, Yang H, Qi J, Liu L, Ma S, Zhang B, Huo Q, Xie Y, Wu J, Dong F, Zhang S, Lou Z, Gao Y, Song Z, Wang W, Sun Z, Yang X, Xiong D, Liu F, Chen X, Zhu P, Wang X, Cheng T, Rao Z
Nat Commun (2023) 14 pp. 3537-3537 [ Pubmed: 37322000 DOI: doi:10.1038/s41467-023-39267-x ]
- Omicron ba.4/5 sars-cov-2 s in complex with th027 fab (Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Th132 fab light chain (11 kDa, Protein from Homo sapiens)
- Omicron ba.4/5 sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- Th027 fab (Complex from Homo sapiens)
- Th132 fab heavy chain (12 kDa, Protein from Homo sapiens)