cryoEM structure of SARS-CoV2 Spike trimer in complex with Fab23
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8q5y
Q-score: 0.516
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 ]
- Monoclonal antibody mab 23 (heavy chain) (48 kDa, Protein from Homo sapiens)
- Monoclonal antibody mab 23 (light chain) (23 kDa, Protein from Homo sapiens)
- Sars-cov2 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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-CoV-2 Spike RBD (dimer) in complex with two Fu2 nanobodies
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 7nll
Q-score: 0.522
Hanke L, Das H, Sheward DJ, Perez Vidakovics L, Urgard E, Moliner-Morro A, Kim C, Karl V, Pankow A, Smith NL, Porebski B, Fernandez-Capetillo O, Sezgin E, Pedersen GK, Coquet JM, Hallberg BM, Murrell B, McInerney GM
Nat Commun (2022) 13 pp. 155-155 [ DOI: doi:10.1038/s41467-021-27610-z Pubmed: 35013189 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nanobody fu2 (Complex from Vicugna pacos)
- Nanobody fu2 (15 kDa, Protein from Vicugna pacos)
- Spike protein s1 (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Receptor binding domain of sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike rbd (two molecules) in complex with two fu2 nanobodies (35 kDa, Complex)
SARS-CoV-2 Spike (dimers) in complex with six Fu2 nanobodies
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 7ns6
Q-score: 0.372
Hanke L, Das H, Sheward DJ, Perez Vidakovics L, Urgard E, Moliner-Morro A, Kim C, Karl V, Pankow A, Smith NL, Porebski B, Fernandez-Capetillo O, Sezgin E, Pedersen GK, Coquet JM, Hallberg BM, Murrell B, McInerney GM
Nat Commun (2022) 13 pp. 155-155 [ DOI: doi:10.1038/s41467-021-27610-z Pubmed: 35013189 ]
- Fu2 nanobody (15 kDa, Protein from Vicugna pacos)
- Fu2 nanobody (Complex from Vicugna pacos)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike rbd (two molecules) in complex with two fu2 nanobodies (95 kDa, Complex)
- Sars-cov-2 spike, fibritin (Complex from Enterobacteria phage T4)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
Nanobody E bound to Spike-RBD in a localized reconstruction.
Resolution: 3.79 Å
EM Method: Single-particle
Fitted PDBs: 7b14
Q-score: 0.216
Koenig PA, Das H, Liu H, Kummerer BM, Gohr FN, Jenster LM, Schiffelers LDJ, Tesfamariam YM, Uchima M, Wuerth JD, Gatterdam K, Ruetalo N, Christensen MH, Fandrey CI, Normann S, Todtmann JMP, Pritzl S, Hanke L, Boos J, Yuan M, Zhu X, Schmid-Burgk JL, Kato H, Schindler M, Wilson IA, Geyer M, Ludwig KU, Hallberg BM, Wu NC, Schmidt FI
Science (2021) 371 [ Pubmed: 33436526 DOI: doi:10.1126/science.abe6230 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 glycoprotein in complex with a nanobody named v (510 kDa, Complex)
- Nanobody against sars-cov-2 (Complex from Camelus bactrianus)
- Nanobody against sars-cov-2 (14 kDa, Protein from Camelus bactrianus)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-spike bound to two neutralising nanobodies
Resolution: 2.62 Å
EM Method: Single-particle
Fitted PDBs: 7b18
Q-score: 0.397
Koenig PA, Das H, Liu H, Kummerer BM, Gohr FN, Jenster LM, Schiffelers LDJ, Tesfamariam YM, Uchima M, Wuerth JD, Gatterdam K, Ruetalo N, Christensen MH, Fandrey CI, Normann S, Todtmann JMP, Pritzl S, Hanke L, Boos J, Yuan M, Zhu X, Schmid-Burgk JL, Kato H, Schindler M, Wilson IA, Geyer M, Ludwig KU, Hallberg BM, Wu NC, Schmidt FI
Science (2021) 371 [ Pubmed: 33436526 DOI: doi:10.1126/science.abe6230 ]
- Sars-cov-2 glycoprotein in complex with two nanobodys named v (510 kDa, Complex)
- Nanobody against sars-cov-2 vhh e (Complex from Lama glama)
- Nanobody against spike glycoprotein vhh v (12 kDa, Protein from Vicugna pacos)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nanobody against spike glycoprotein vhh v (Complex from Vicugna pacos)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Nanobody against sars-cov-2 vhh e (14 kDa, Protein from Lama glama)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-spike RBD bound to two neutralising nanobodies
Resolution: 4.01 Å
EM Method: Single-particle
Fitted PDBs: 7b17
Q-score: 0.272
Koenig PA, Das H, Liu H, Kummerer BM, Gohr FN, Jenster LM, Schiffelers LDJ, Tesfamariam YM, Uchima M, Wuerth JD, Gatterdam K, Ruetalo N, Christensen MH, Fandrey CI, Normann S, Todtmann JMP, Pritzl S, Hanke L, Boos J, Yuan M, Zhu X, Schmid-Burgk JL, Kato H, Schindler M, Wilson IA, Geyer M, Ludwig KU, Hallberg BM, Wu NC, Schmidt FI
Science (2021) 371 [ Pubmed: 33436526 DOI: doi:10.1126/science.abe6230 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Structure of sars-cov-2 spike rbd in complex with sars-cov-2 neutralizing biparatopic nanobody ve (300 kDa, Complex)
- Sars-cov-2 neutralizing biparatopic nanobody ve,nanobody e from lama glama,sars-cov-2 neutralizing biparatopic nanobody ve,nanobody e from lama glama (30 kDa, Protein from Lama glama)
- Spike protein s1 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Biparatopic nanobody ve (Complex from Vicugna pacos)
SARS-CoV-2 spike in complex with nanobodies E
Resolution: 3.33 Å
EM Method: Single-particle
Fitted PDBs: 7ksg
Q-score: 0.41
Koenig PA, Das H, Liu H, Kummerer BM, Gohr FN, Jenster LM, Schiffelers LDJ, Tesfamariam YM, Uchima M, Wuerth JD, Gatterdam K, Ruetalo N, Christensen MH, Fandrey CI, Normann S, Todtmann JMP, Pritzl S, Hanke L, Boos J, Yuan M, Zhu X, Schmid-Burgk JL, Kato H, Schindler M, Wilson IA, Geyer M, Ludwig KU, Hallberg BM, Wu NC, Schmidt FI
Science (2021) 371 [ Pubmed: 33436526 DOI: doi:10.1126/science.abe6230 ]
- Nanobody against sars-cov-2 glycoprotein (15 kDa, Protein from Lama glama)
- Sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Complex between sars-cov-2 and a neutralising nanobody e (510 kDa, Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Nanobody e (Complex from Lama glama)
Cryo-EM structure of the SARS-CoV-2 spike protein bound to neutralizing sybodies (Sb23)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 7a25
Q-score: 0.386
Custodio TF, Das H, Sheward DJ, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer MA, Gruzinov AY, Jeffries CM, Graewert MA, Svergun DI, Dobrev N, Remans K, Seeger MA, McInerney GM, Murrell B, Hallberg BM, Low C
Nat Commun (2020) 11 pp. 5588-5588 [ Pubmed: 33149112 DOI: doi:10.1038/s41467-020-19204-y ]
- Sars-cov-2 spike glycoprotein in 1-up conformation bound by 3 neutralising sybodies (sb23) (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neutralising sybody (sb23) (Complex from synthetic construct)
- Sybody 23 (12 kDa, Protein from synthetic construct)
- Spike glycoprotein (126 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 7a29
Q-score: 0.398
Custodio TF, Das H, Sheward DJ, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer MA, Gruzinov AY, Jeffries CM, Graewert MA, Svergun DI, Dobrev N, Remans K, Seeger MA, McInerney GM, Murrell B, Hallberg BM, Low C
Nat Commun (2020) 11 pp. 5588-5588 [ Pubmed: 33149112 DOI: doi:10.1038/s41467-020-19204-y ]
- Sars-cov-2 spike glycoprotein in 1-up conformation bound by 3 neutralising sybodies (sb23) (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neutralising sybody (sb23) (Complex from synthetic construct)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Neutralising sybody (sb23) (12 kDa, Protein from synthetic construct)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)