SARS-CoV-2 BA-2.87.1 Spike ectodomain
Duyvesteyn HME, Dijokaite-Guraliuc A, Liu C, Supasa P, Kronsteiner B, Jeffery K, Stafford L, Klenerman P, Dunachie SJ, Mongkolsapaya J, Fry EE, Ren J, Stuart DI, Screaton GR
Structure (2024) 32 pp. 1594- [ DOI: doi:10.1016/j.str.2024.07.020 Pubmed: 39173622 ]
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8qsq
Q-score: 0.14
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-2.86 variant sars-cov2 s protein complexed with angiotensin converting enzyme 2 (ace2) (Complex)
- Angiotensin converting enzyme 2 (ace2) (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Ba-2.86 variant sars-cov2 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s2' (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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 ]
- Xbb-7 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Xbb-7 fab (Complex from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba.2.86 variant sars-cov2 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba-2.86 variant sars-cov2 s protein complexed with xbb-7 fab. (Complex)
- Xbb-7 fab light chain (10 kDa, Protein 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 in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb-4 fab light chain (23 kDa, Protein from Homo sapiens)
- Xbb-4 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Xbb-4 fab (Complex 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 ]
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- 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)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sd1-2 fab (Complex from Homo sapiens)
- Sd1-2 fab light chain (11 kDa, Protein 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)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sd1-3 fab in complex with sars-cov-2 ba.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sd1-3 fab light chain (11 kDa, Protein from Homo sapiens)
- Sd1-3 fab (Complex from Homo sapiens)
- 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)
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 [ DOI: doi:10.1038/s41467-024-46982-6 Pubmed: 38548763 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba.4/5-5 fab light chain (22 kDa, Protein from Homo sapiens)
- Sars-coronavirus-2 ba.4 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.4/5-5 fab heavy and light chains. (Complex 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)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Delta-RBD complexed with Fabs BA.2-36, BA.2-23, EY6A and COVOX-45
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8bcz
Q-score: 0.564
Dijokaite-Guraliuc A, Das R, Zhou D, Ginn HM, Liu C, Duyvesteyn HME, Huo J, Nutalai R, Supasa P, Selvaraj M, de Silva TI, Plowright M, Newman TAH, Hornsby H, Mentzer AJ, Skelly D, Ritter TG, Temperton N, Klenerman P, Barnes E, Dunachie SJ, Roemer C, Peacock TP, Paterson NG, Williams MA, Hall DR, Fry EE, Mongkolsapaya J, Ren J, Stuart DI, Screaton GR
Cell Rep (2023) 42 pp. 112271-112271 [ DOI: doi:10.1016/j.celrep.2023.112271 Pubmed: 36995936 ]
- Ba.2-23 light chain (11 kDa, Protein from Homo sapiens)
- Ba.2-36 heavy chain (13 kDa, Protein from Homo sapiens)
- Covox-45 heavy chain (24 kDa, Protein from Homo sapiens)
- Ey6a heavy chain (13 kDa, Protein from Homo sapiens)
- Complex of sars-cov2 delta variant receptor binding domain with 4 fabs (Complex)
- Ba.2-23 heavy chain (12 kDa, Protein from Homo sapiens)
- Ba.2-36 light chain (11 kDa, Protein from Homo sapiens)
- Ey6a light chain (11 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Antibody chains (Complex from Homo sapiens)
- Sars-cov2 delta variant receptor binding domain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Covox-45 light chain (11 kDa, Protein from Homo sapiens)
OMI-42 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE GLYCOPROTEIN
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7zr7
Q-score: 0.258
Nutalai R, Zhou D, Tuekprakhon A, Ginn HM, Supasa P, Liu C, Huo J, Mentzer AJ, Duyvesteyn HME, Dijokaite-Guraliuc A, Skelly D, Ritter TG, Amini A, Bibi S, Adele S, Johnson SA, Constantinides B, Webster H, Temperton N, Klenerman P, Barnes E, Dunachie SJ, Crook D, Pollard AJ, Lambe T, Goulder P, Paterson NG, Williams MA, Hall DR, Mongkolsapaya J, Fry EE, Dejnirattisai W, Ren J, Stuart DI, Screaton GR
Cell (2022) 185 pp. 2116-2131.e18 [ Pubmed: 35662412 DOI: doi:10.1016/j.cell.2022.05.014 ]
- Sars-cov-2 beta spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Omi-42 light chain (11 kDa, Protein from Homo sapiens)
- Omi-42 fab in complex with sars-cov-2 beta spike glycoprotein (Complex)
- Omi-42 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Omi-42 heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein,fibritin (141 kDa, Protein from Tequatrovirus T4)
OMI-38 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE RBD (local refinement)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7zr8
Q-score: 0.47
Nutalai R, Zhou D, Tuekprakhon A, Ginn HM, Supasa P, Liu C, Huo J, Mentzer AJ, Duyvesteyn HME, Dijokaite-Guraliuc A, Skelly D, Ritter TG, Amini A, Bibi S, Adele S, Johnson SA, Constantinides B, Webster H, Temperton N, Klenerman P, Barnes E, Dunachie SJ, Crook D, Pollard AJ, Lambe T, Goulder P, Paterson NG, Williams MA, Hall DR, Mongkolsapaya J, Fry EE, Dejnirattisai W, Ren J, Stuart DI, Screaton GR
Cell (2022) 185 pp. 2116-2131.e18 [ DOI: doi:10.1016/j.cell.2022.05.014 Pubmed: 35662412 ]
- Spike glycoprotein,fibritin (141 kDa, Protein from Enterobacteria phage T4)
- Omi-38 fab in complex with sars-cov-2 beta spike glycoprotein (Complex)
- Omi-38 fab heavy chain (12 kDa, Protein from Homo sapiens)
- Sars-cov-2 beta spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Omi-38 fab light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Omi-38 fab (Complex from Homo sapiens)