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)
Omicron BA.1 Spike protein with neutralizing NTD specific mAb K501SP6
Walker MR, Underwood A, Bjornsson KH, Raghavan SSR, Bassi MR, Binderup A, Pham LV, Ramirez S, Pinholt M, Dagil R, Knudsen AS, Idorn M, Soegaard M, Wang K, Ward AB, Salanti A, Bukh J, Barfod L
Commun Biol (2024) 7 pp. 1239-1239 [ Pubmed: 39354108 DOI: doi:10.1038/s42003-024-06951-7 ]
- Antibody (Complex from Homo sapiens)
- Alphacoronavirus (Complex)
- Spike glycoprotein,fibritin (141 kDa, Protein from Enterobacteria phage T4)
- K501sp6 fv heavy chain (14 kDa, Protein from Homo sapiens)
- Spike glycoprotein with fibritin (Complex from Severe acute respiratory syndrome coronavirus 2)
- K501sp6 fv light chain (14 kDa, Protein from Homo sapiens)
SARS-CoV2 Omicron BA.1 RBD in complex with CAB-A17 antibody
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8c0y
Q-score: 0.491
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 ]
- Sars-cov-2 omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s2' (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (variable) (12 kDa, Protein from Homo sapiens)
- Cab-a17 antibody (fab) (Complex from Enterobacteria phage T4)
- Sars-cov2 omicron ba.1 spike in complex with cab-a17 antibody (95 kDa, Complex)
- Cab-a17 antibody (variable) (11 kDa, Protein 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-CoV-2 Spike RBD in complex with Mab-23 (Fab)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8p5m
Q-score: 0.554
Mandolesi M, Das H, de Vries L, Yang Y, Kim C, Dhinakaran M, Castro Dopico X, Fischbach J, Kim S, Guryleva MV, Adori M, Chernyshev M, Stalmarck A, Hanke L, McInerney GM, Sheward DJ, Corcoran M, Hallberg BM, Murrell B, Karlsson Hedestam GB
Nat Commun (2024) 15 pp. 6338-6338 [ DOI: doi:10.1038/s41467-024-50286-0 Pubmed: 39068149 ]
- Sars-cov-2 spike (rbd) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Mab-23 (heavy chain variable domain) (48 kDa, Protein from Homo sapiens)
- Monoclonal antibody mab-23 (Complex from Enterobacteria phage T4)
- Spike rbd (two molecules) in complex with two fu2 nanobodies (95 kDa, Complex)
- Mab-23 (light chain variable domain) (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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)
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 light chain (23 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)
- Spike glycoprotein,fibritin (142 kDa, Protein from Tequatrovirus T4)
- Xbb-4 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ba.2.12.1 spike glycoprotein ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Xbb-4 fab (Complex from Homo sapiens)