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 omicron (BA.1) ectodomain trimer in complex with SC27 Fab, local refinement
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8vif
Q-score: 0.545
Voss WN, Mallory MA, Byrne PO, Marchioni JM, Knudson SA, Powers JM, Leist SR, Dadonaite B, Townsend DR, Kain J, Huang Y, Satterwhite E, Castillo IN, Mattocks M, Paresi C, Munt JE, Scobey T, Seeger A, Premkumar L, Bloom JD, Georgiou G, McLellan JS, Baric RS, Lavinder JJ, Ippolito GC
Cell Rep Med (2024) 5 pp. 101668-101668 [ DOI: doi:10.1016/j.xcrm.2024.101668 Pubmed: 39094579 ]
- Sc27 fab light chain (11 kDa, Protein from Homo sapiens)
- Sc27 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike omicron (ba.1) ectodomain trimer in complex with sc27 fab, global refinement (Complex)
- Sars-cov-2 spike omicron (ba.1) ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sc27 fab (Complex from Homo sapiens)
SARS-CoV-2 spike omicron (BA.1) RBD ectodomain dimer-of-trimers in complex with SC27 Fabs
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8vke
Q-score: 0.544
Voss WN, Mallory MA, Byrne PO, Marchioni JM, Knudson SA, Powers JM, Leist SR, Dadonaite B, Townsend DR, Kain J, Huang Y, Satterwhite E, Castillo IN, Mattocks M, Paresi C, Munt JE, Scobey T, Seeger A, Premkumar L, Bloom JD, Georgiou G, McLellan JS, Baric RS, Lavinder JJ, Ippolito GC
Cell Rep Med (2024) 5 pp. 101668-101668 [ DOI: doi:10.1016/j.xcrm.2024.101668 Pubmed: 39094579 ]
- Sars-cov-2 spike omicron (ba.1) rbd ectodomain dimer-of-trimers in complex with sc27 fabs (Complex)
- Sc27 fab light chain (25 kDa, Protein from Homo sapiens)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sc27 fab heavy chain (27 kDa, Protein from Homo sapiens)
Cryo-EM Structure of Eastern Equine Encephalitis Virus in complex with SKE26 Fab
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8dwo
Q-score: 0.483
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Ske26 fab light chain (23 kDa, Protein from Macaca fascicularis)
- Eastern equine encephalitis virus (Virus from Eastern equine encephalitis virus)
- Envelope glycoprotein e1 (47 kDa, Protein from Eastern equine encephalitis virus)
- Envelope glycoprotein e2 (47 kDa, Protein from Eastern equine encephalitis virus)
- Ske26 fab heavy chain (25 kDa, Protein from Macaca fascicularis)
SARS-CoV-2 spike glycoprotein in complex with the ICO-hu23 neutralizing antibody Fab fragment
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8elj
Q-score: 0.343
Hermet P, Delache B, Herate C, Wolf E, Kivi G, Juronen E, Mumm K, Zusinaite E, Kainov D, Sankovski E, Virumae K, Planken A, Merits A, Besaw JE, Yee AW, Morizumi T, Kim K, Kuo A, Berriche A, Dereuddre-Bosquet N, Sconosciuti Q, Naninck T, Relouzat F, Cavarelli M, Ustav M, Wilson D, Ernst OP, Mannik A, LeGrand R, Ustav Jr M
PLoS Pathog (2023) 19 pp. e1011532-e1011532 [ DOI: doi:10.1371/journal.ppat.1011532 Pubmed: 37531329 ]
- Sars-cov-2 spike glycoprotein (Cellular component from Severe acute respiratory syndrome coronavirus 2)
- Ico-hu23 antibody fab light chain (22 kDa, Protein from Homo sapiens)
- Ico-hu23 antibody fab heavy chain (25 kDa, Protein from Homo sapiens)
- Ico-hu23 antibody fab fragment (Cellular component from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with the ico-hu23 antibody fab fragment (Complex)
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM Structure of Western Equine Encephalitis Virus VLP in complex with SKW19 fab
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8ded
Q-score: 0.363
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Skw19 fab light chain (23 kDa, Protein from Homo sapiens)
- Skw19 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Spike glycoprotein e2 (46 kDa, Protein from Western equine encephalitis virus)
- Western equine encephalitis virus (Virus from Western equine encephalitis virus)
- Spike glycoprotein e1 (47 kDa, Protein from Western equine encephalitis virus)