Cryo-EM structure of neutralizing antibody 8G3 in complex with BA.1 RBD
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 9js4
Q-score: 0.434
Liao Y, Ma H, Wang Z, Wang S, He Y, Chang Y, Zong H, Tang H, Wang L, Ke Y, Cai H, Li P, Tang J, Chen H, Drelich A, Peng BH, Hsu J, Tat V, Tseng CK, Song J, Yuan Y, Wu M, Liu J, Yue Y, Zhang X, Wang Z, Yang L, Li J, Ni X, Li H, Xiang Y, Bian Y, Zhang B, Yin H, Dimitrov DS, Gilly J, Han L, Jiang H, Xie Y, Zhu J
PNAS (2025) 122 pp. e2406659122-e2406659122 [ Pubmed: 39908098 DOI: doi:10.1073/pnas.2406659122 ]
- Cryo-em structure of neutralizing antibody 8g3 in complex with ba.1 rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Heavy chain of 8g3 (23 kDa, Protein from Homo heidelbergensis)
- Light chain of 8g3 (23 kDa, Protein 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 [ Pubmed: 39094579 DOI: doi:10.1016/j.xcrm.2024.101668 ]
- Sc27 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike omicron (ba.1) ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike omicron (ba.1) ectodomain trimer in complex with sc27 fab, global refinement (Complex)
- Sc27 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Sc27 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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 [ Pubmed: 39094579 DOI: doi:10.1016/j.xcrm.2024.101668 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sc27 fab light chain (25 kDa, Protein from Homo sapiens)
- Sc27 fab heavy chain (27 kDa, Protein from Homo sapiens)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike omicron (ba.1) rbd ectodomain dimer-of-trimers in complex with sc27 fabs (Complex)
Structure of SARS-CoV-2 Omicron BA.1 spike in complex with antibody Fab 1C3
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 8f0g
Q-score: 0.469
Hastie KM, Yu X, Ana-Sosa-Batiz F, Zyla DS, Harkins SS, Hariharan C, Wasserman H, Zandonatti MA, Miller R, Maule E, Kim K, Valentine KM, Shresta S, Saphire EO
Cell Rep (2023) 42 pp. 112421-112421 [ Pubmed: 37083327 DOI: doi:10.1016/j.celrep.2023.112421 ]
- Antibody 1c3 fab light chain (11 kDa, Protein from Homo sapiens)
- Structure of sars-cov-2 omicron ba.1 spike in complex with antibody 1c3 fab (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody 1c3 fab heavy chain,antibody 1c3 fab light chain (Complex from Homo sapiens)
- Antibody 1c3 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8erq
Q-score: 0.493
Park YJ, Pinto D, Walls AC, Liu Z, De Marco A, Benigni F, Zatta F, Silacci-Fregni C, Bassi J, Sprouse KR, Addetia A, Bowen JE, Stewart C, Giurdanella M, Saliba C, Guarino B, Schmid MA, Franko NM, Logue JK, Dang HV, Hauser K, di Iulio J, Rivera W, Schnell G, Rajesh A, Zhou J, Farhat N, Kaiser H, Montiel-Ruiz M, Noack J, Lempp FA, Janer J, Abdelnabi R, Maes P, Ferrari P, Ceschi A, Giannini O, de Melo GD, Kergoat L, Bourhy H, Neyts J, Soriaga L, Purcell LA, Snell G, Whelan SPJ, Lanzavecchia A, Virgin HW, Piccoli L, Chu HY, Pizzuto MS, Corti D, Veesler D
Science (2022) 378 pp. 619-627 [ Pubmed: 36264829 DOI: doi:10.1126/science.adc9127 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 ba.1 spike ectodomain trimer in complex with the s2x324 neutralizing antibody fab fragment (local refinement of the rbd and s2x324) (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2x324 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2x324 fab (Complex from Homo sapiens)
- S2x324 fab light chain (11 kDa, Protein from Homo sapiens)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8err
Q-score: 0.449
Park YJ, Pinto D, Walls AC, Liu Z, De Marco A, Benigni F, Zatta F, Silacci-Fregni C, Bassi J, Sprouse KR, Addetia A, Bowen JE, Stewart C, Giurdanella M, Saliba C, Guarino B, Schmid MA, Franko NM, Logue JK, Dang HV, Hauser K, di Iulio J, Rivera W, Schnell G, Rajesh A, Zhou J, Farhat N, Kaiser H, Montiel-Ruiz M, Noack J, Lempp FA, Janer J, Abdelnabi R, Maes P, Ferrari P, Ceschi A, Giannini O, de Melo GD, Kergoat L, Bourhy H, Neyts J, Soriaga L, Purcell LA, Snell G, Whelan SPJ, Lanzavecchia A, Virgin HW, Piccoli L, Chu HY, Pizzuto MS, Corti D, Veesler D
Science (2022) 378 pp. 619-627 [ Pubmed: 36264829 DOI: doi:10.1126/science.adc9127 ]
- S2x324 heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2x324 light chain (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike ectodomain trimer in complex with the s2x324 neutralizing antibody fab fragment (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2x324 fab (Complex from Homo sapiens)