Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9asd
Q-score: 0.506
Rosen LE, Tortorici MA, De Marco A, Pinto D, Foreman WB, Taylor AL, Park YJ, Bohan D, Rietz T, Errico JM, Hauser K, Dang HV, Chartron JW, Giurdanella M, Cusumano G, Saliba C, Zatta F, Sprouse KR, Addetia A, Zepeda SK, Brown J, Lee J, Dellota Jr E, Rajesh A, Noack J, Tao Q, DaCosta Y, Tsu B, Acosta R, Subramanian S, de Melo GD, Kergoat L, Zhang I, Liu Z, Guarino B, Schmid MA, Schnell G, Miller JL, Lempp FA, Czudnochowski N, Cameroni E, Whelan SPJ, Bourhy H, Purcell LA, Benigni F, di Iulio J, Pizzuto MS, Lanzavecchia A, Telenti A, Snell G, Corti D, Veesler D, Starr TN
Cell (2024) 187 pp. 7196- [ DOI: doi:10.1016/j.cell.2024.09.026 Pubmed: 39383863 ]
- Vir-7229 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Homo sapiens)
- Vir-7229 fab heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba 2.86 rbd - s2v29 complex (local refinement) (Complex from Sarbecovirus)
Local refinement of SARS-CoV-2 BA.2.86 Spike and XBB-7 Fab
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8qtd
Q-score: 0.454
Liu C, Zhou D, Dijokaite-Guraliuc A, Supasa P, Duyvesteyn HME, Ginn HM, Selvaraj M, Mentzer AJ, Das R, de Silva TI, Ritter TG, Plowright M, Newman TAH, Stafford L, Kronsteiner B, Temperton N, Lui Y, Fellermeyer M, Goulder P, Klenerman P, Dunachie SJ, Barton MI, Kutuzov MA, Dushek O, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Cell Rep Med (2024) 5 pp. 101553-101553 [ Pubmed: 38723626 DOI: doi:10.1016/j.xcrm.2024.101553 ]
- Spike glycoprotein,fibritin (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Xbb-7 fab light chain (10 kDa, Protein from Homo sapiens)
- Xbb-7 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Ba-2.86 variant sars-cov2 s protein complexed with xbb-7 fab. (Complex)
- Ba.2.86 variant sars-cov2 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb-7 fab (Complex from Homo sapiens)
XBB-4 Fab in complex with SARS-CoV-2 BA.2.12.1 Spike Glycoprotein
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 8r8k
Q-score: 0.504
Liu C, Zhou D, Dijokaite-Guraliuc A, Supasa P, Duyvesteyn HME, Ginn HM, Selvaraj M, Mentzer AJ, Das R, de Silva TI, Ritter TG, Plowright M, Newman TAH, Stafford L, Kronsteiner B, Temperton N, Lui Y, Fellermeyer M, Goulder P, Klenerman P, Dunachie SJ, Barton MI, Kutuzov MA, Dushek O, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Cell Rep Med (2024) 5 pp. 101553-101553 [ Pubmed: 38723626 DOI: doi:10.1016/j.xcrm.2024.101553 ]
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein,fibritin (142 kDa, Protein from Tequatrovirus T4)
- Xbb-4 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Xbb-4 fab in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb-4 fab (Complex from Homo sapiens)
- Xbb-4 fab light chain (23 kDa, Protein from Homo sapiens)
SD1-2 fab in complex with SARS-COV-2 BA.12.1 Spike Glycoprotein.
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8r1c
Q-score: 0.645
Zhou D, Supasa P, Liu C, Dijokaite-Guraliuc A, Duyvesteyn HME, Selvaraj M, Mentzer AJ, Das R, Dejnirattisai W, Temperton N, Klenerman P, Dunachie SJ, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Nat Commun (2024) 15 pp. 2734-2734 [ Pubmed: 38548763 DOI: doi:10.1038/s41467-024-46982-6 ]
- Sd1-2 fab light chain (11 kDa, Protein from Homo sapiens)
- Sd1-2 fab in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sd1-2 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sd1-2 fab (Complex from Homo sapiens)
SD1-3 Fab in complex with SARS-CoV-2 BA.2.12.1 Spike Glycoprotein
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8r1d
Q-score: 0.658
Zhou D, Supasa P, Liu C, Dijokaite-Guraliuc A, Duyvesteyn HME, Selvaraj M, Mentzer AJ, Das R, Dejnirattisai W, Temperton N, Klenerman P, Dunachie SJ, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Nat Commun (2024) 15 pp. 2734-2734 [ Pubmed: 38548763 DOI: doi:10.1038/s41467-024-46982-6 ]
- Water (18 Da, Ligand)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sd1-3 fab heavy chain (12 kDa, Protein from Homo sapiens)
- Sd1-3 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sd1-3 fab (Complex from Homo sapiens)
- Sd1-3 fab in complex with sars-cov-2 ba.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Delta-RBD complex with BA.2-07 fab, SARS1-34 fab and C1 nanobody
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8cii
Q-score: 0.482
Duyvesteyn HME, Screaton G, Ren J, Stuart DI, Fry EE
To Be Published
- Ba.2-07 fab (Complex from Homo sapiens)
- Sars1-34 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Delta-rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s2' (22 kDa, Protein from Homo sapiens)
- Ba.2-07 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ba.2-07 fab light chain (23 kDa, Protein from Homo sapiens)
- Sars1-34 fab light chain (23 kDa, Protein from Homo sapiens)
- Delta-rbd complex with ba.2-07 fab, sars1-34 fab and c1 nanobody (Complex from Severe acute respiratory syndrome coronavirus 2)
- C1 nanobody (Complex from Lama glama)
- Sars1-34 fab (Complex from Homo sapiens)
- C1 nanobody (14 kDa, Protein from Lama glama)
BA.4/5-5 FAB IN COMPLEX WITH SARS-COV-2 BA.4 SPIKE GLYCOPROTEIN
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8cin
Q-score: 0.514
Zhou D, Supasa P, Liu C, Dijokaite-Guraliuc A, Duyvesteyn HME, Selvaraj M, Mentzer AJ, Das R, Dejnirattisai W, Temperton N, Klenerman P, Dunachie SJ, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Nat Commun (2024) 15 pp. 2734-2734 [ Pubmed: 38548763 DOI: doi:10.1038/s41467-024-46982-6 ]
- Ba.4/5-5 fab heavy and light chains. (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-coronavirus-2 ba.4 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.4/5-5 fab light chain (22 kDa, Protein from Homo sapiens)
- Sars-coronavirus-2 ba.4 spike glycoprotein in complex with ba.4/5-5 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.4/5-5 fab heavy chain (23 kDa, Protein from Homo sapiens)
BA.2-07 FAB IN COMPLEX WITH SARS-COV-2 BA.2.12.1 SPIKE GLYCOPROTEIN
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8cim
Q-score: 0.5
Duyvesteyn HME, Screaton G, Ren J, Stuart DI, Fry EE
Res Sq (2023) [ DOI: doi:10.21203/rs.3.rs-2684849/v1 ]
- Ba.2-07 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ba.2-07 fab heavy and light chains (Complex from Homo sapiens)
- Ba.2-07 fab in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Ba.2-07 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba.2.12.1 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 ]
- S2x324 fab heavy chain (13 kDa, Protein from Homo sapiens)
- S2x324 fab light chain (11 kDa, Protein from Homo sapiens)
- 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 (Complex from Homo sapiens)
- Sars-cov-2 omicron ba.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 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 light chain (25 kDa, Protein from Macaca mulatta)
- K11 fab heavy chain (53 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp41 (18 kDa, Protein from Simian immunodeficiency virus)
- 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)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)