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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 ]
- Spike protein s2' (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 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)
- Ba-2.86 variant sars-cov2 s protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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)
- 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 (Complex from Homo sapiens)
- Xbb-7 fab heavy chain (14 kDa, Protein from Homo sapiens)
- 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 ]
- Xbb-4 fab in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb-4 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Xbb-4 fab (Complex from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 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 (Complex from Homo sapiens)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sd1-2 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)
- Sd1-2 fab heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 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 ]
- Sd1-3 fab in complex with sars-cov-2 ba.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sd1-3 fab heavy chain (12 kDa, Protein from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sd1-3 fab light chain (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Sd1-3 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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
- Sars1-34 fab light chain (23 kDa, Protein from Homo sapiens)
- Ba.2-07 fab heavy chain (24 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)
- Spike protein s2' (22 kDa, Protein from Homo sapiens)
- C1 nanobody (Complex from Lama glama)
- C1 nanobody (14 kDa, Protein from Lama glama)
- Ba.2-07 fab (Complex from Homo sapiens)
- Delta-rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars1-34 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Sars1-34 fab (Complex from Homo sapiens)
- Ba.2-07 fab light chain (23 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 [ Pubmed: 38548763 DOI: doi:10.1038/s41467-024-46982-6 ]
- Ba.4/5-5 fab light chain (22 kDa, Protein from Homo sapiens)
- Ba.4/5-5 fab heavy chain (23 kDa, Protein from Homo sapiens)
- 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 in complex with ba.4/5-5 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-coronavirus-2 ba.4 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Delta RBD in complex with golden hamster ACE2 (local refinement)
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 8ka8
Q-score: 0.486
Niu S, Zhao Z, Liu Z, Rong X, Chai Y, Bai B, Han P, Shang G, Ren J, Wang Y, Zhao X, Liu K, Tian WX, Wang Q, Gao GF
J Virol (2024) 98 pp. e0115723-e0115723 [ DOI: doi:10.1128/jvi.01157-23 Pubmed: 38305152 ]
- Golden hamster angiotensin-converting enzyme 2 (Complex from Mesocricetus auratus)
- Spike protein s1 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Delta rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Angiotensin-converting enzyme (68 kDa, Protein from Mesocricetus auratus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of sars-cov-2 delta rbd in complex with golden hamster ace2 (local refinement) (Complex)
Cryo-EM structure of SARS-CoV-2 BA.3 RBD in complex with golden hamster ACE2 (local refinement)
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8kc2
Q-score: 0.556
Niu S, Zhao Z, Liu Z, Rong X, Chai Y, Bai B, Han P, Shang G, Ren J, Wang Y, Zhao X, Liu K, Tian WX, Wang Q, Gao GF
J Virol (2024) 98 pp. e0115723-e0115723 [ DOI: doi:10.1128/jvi.01157-23 Pubmed: 38305152 ]
- Golden hamster angiotensin-converting enzyme 2 (Complex from Mesocricetus auratus)
- Cryo-em structure of sars-cov-2 ba.3 rbd in complex with golden hamster ace2 (local refinement) (Complex)
- Zinc ion (65 Da, Ligand)
- Angiotensin-converting enzyme (68 kDa, Protein from Mesocricetus auratus)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba.3 rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Ba.2-07 fab in complex with sars-cov-2 ba.2.12.1 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ba.2-07 fab light chain (23 kDa, Protein from Homo sapiens)
- Ba.2-07 fab heavy and light chains (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)