Structure of a SARS-CoV-2 spike S2 subunit in a pre-fusion, open conformation
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8v5v
Q-score: 0.421
Olmedillas E, Diaz R, Hastie K, Ollmann-Saphire E
To Be Published
- Structure of a sars-cov-2 spike s2 subunit in a pre-fusion, open conformation (Complex from Mus musculus molossinus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Variable domain of the light chain from the human antibody 6c10 (11 kDa, Protein from Homo sapiens)
- Spike protein s2,fibritin (64 kDa, Protein from Tequatrovirus T4)
- Variable domain of the heavy chain from the human antibody 6c10 (13 kDa, Protein from Homo sapiens)
- Structure of a sars-cov-2 spike s2 subunit in a pre-fusion, open conformation in complex with the 6c10 fab (280 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Fab fragment of the 6c10 human monoclonal antibody (Complex from Homo sapiens)
Prefusion RSV F Bound to Lonafarnib and D25 Fab
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8kg5
Q-score: 0.499
Yang Q, Xue B, Liu F, Lu Y, Tang J, Yan M, Wu Q, Chen R, Zhou A, Liu L, Liu J, Qu C, Wu Q, Fu M, Zhong J, Dong J, Chen S, Wang F, Zhou Y, Zheng J, Peng W, Shang J, Chen X
Signal Transduct Target Ther (2024) 9 pp. 144-144 [ Pubmed: 38853183 DOI: doi:10.1038/s41392-024-01858-5 ]
- D25 light chain (23 kDa, Protein from Homo sapiens)
- Fusion glycoprotein f0,fibritin (64 kDa, Protein from Enterobacteria phage T4)
- 4-{2-[4-(3,10-dibromo-8-chloro-6,11-dihydro-5h-benzo[5,6]cyclohepta[1,2-b]pyridin-11-yl)piperidin-1-yl]-2-oxoethyl}piperidine-1-carboxamide (638 Da, Ligand)
- D25 heavy chain (24 kDa, Protein from Homo sapiens)
- Prefusion rsv f bound to lonafarnib and d25 fab (Complex from Human respiratory syncytial virus A (strain A2))
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 9fgs
Q-score: 0.451
To Be Published
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Single chain fragment scfv41n (27 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike protein in complex with the single chain fragment scfv76 (510 kDa, Complex)
- Scfv76-77 single chain fragment (Complex from Homo sapiens)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 9fgt
Q-score: 0.479
To Be Published
- Spike glycoprotein,fibritin (135 kDa, Protein from Enterobacteria phage T4)
- Single chain fragment scfv76 (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike protein in complex with the single chain fragment scfv76 (510 kDa, Complex)
- Scfv76 single chain fragment (Complex from Homo sapiens)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 9fgu
Q-score: 0.349
To Be Published
- Spike glycoprotein,fibritin (135 kDa, Protein from Enterobacteria phage T4)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike protein in complex with the single chain fragment scfv76-77 (510 kDa, Complex)
- Sars-cov-2 (b.1.1.529/omicron variant) spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Scfv76-77 single chain fragment (28 kDa, Protein from Homo sapiens)
- Scfv76-77 single chain fragment (Complex from Homo sapiens)
SARS-CoV2 Omicron BA.1 spike in complex with CAB-A17 antibody
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 8c2r
Q-score: 0.436
Sheward DJ, Pushparaj P, Das H, Greaney AJ, Kim C, Kim S, Hanke L, Hyllner E, Dyrdak R, Lee J, Dopico XC, Dosenovic P, Peacock TP, McInerney GM, Albert J, Corcoran M, Bloom JD, Murrell B, Karlsson Hedestam GB, Hallberg BM
Cell Rep Med (2024) 5 pp. 101577-101577 [ DOI: doi:10.1016/j.xcrm.2024.101577 Pubmed: 38761799 ]
- Cab-a17 antibody (lc) (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cab-a17 antibody (fab) (Complex from Enterobacteria phage T4)
- Sars-cov2 omicron ba.1 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 omicron ba.1 spike in complex with cab-a17 antibody (95 kDa, Complex)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (hc) (22 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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 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 light chain (11 kDa, Protein from Homo sapiens)
- Sd1-2 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sd1-2 fab (Complex from Homo sapiens)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sd1-3 fab (Complex from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- Sd1-3 fab heavy chain (12 kDa, Protein 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)
- Sd1-3 fab light chain (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 S protein bound to neutralising antibody UZGENT_A3
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8qq0
Q-score: 0.534
Acar DD, Witkowski W, Wejda M, Wei R, Desmet T, Schepens B, De Cae S, Sedeyn K, Eeckhaut H, Fijalkowska D, Roose K, Vanmarcke S, Poupon A, Jochmans D, Zhang X, Abdelnabi R, Foo CS, Weynand B, Reiter D, Callewaert N, Remaut H, Neyts J, Saelens X, Gerlo S, Vandekerckhove L
Ebiomedicine (2024) 100 pp. 104960-104960 [ DOI: doi:10.1016/j.ebiom.2023.104960 Pubmed: 38232633 ]
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Complex of sars-cov2 s protein (wuhan) and fab fragment of neutralising human antibody uzgent_a3 (Complex)
- Igg light chain - fab (22 kDa, Protein from Homo sapiens)
- Fab fragment of neutralising human antibody uzgent_a3 (Complex from Homo sapiens)
- Igg heavy chain - fab (24 kDa, Protein from Homo sapiens)
- Sars-cov2 s protein with fibritin (trimerization) tag (Complex from Severe acute respiratory syndrome coronavirus 2)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 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)
- Ba.2-07 fab light chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
- 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)