XBB 1.0 RBD bound to P4J15 (Local)
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 8pq2
Q-score: 0.481
Fenwick C, Turelli P, Duhoo Y, Lau K, Herate C, Marlin R, Lamrayah M, Campos J, Esteves-Leuenberger L, Farina A, Raclot C, Genet V, Fiscalini F, Cesborn J, Perez L, Dereuddre-Bosquet N, Contreras V, Lheureux K, Relouzat F, Abdelnabi R, Leyssen P, Levy Y, Pojer F, Le Grand R, Trono D, Pantaleo G
J Infect (2023) 87 pp. 524-537 [ Pubmed: 37852477 DOI: doi:10.1016/j.jinf.2023.10.008 ]
- P4j15 fragment antigen-binding heavy chain (13 kDa, Protein from Homo sapiens)
- Spike protein s2' (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- P4j15 fragment antigen-binding light chain (11 kDa, Protein from Homo sapiens)
- Spike xbb.1 rbd up - p4j15 fab (local) (72 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 XBB 1.0 closed conformation.
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8psd
Q-score: 0.562
Fenwick C, Turelli P, Duhoo Y, Lau K, Herate C, Marlin R, Lamrayah M, Campos J, Esteves-Leuenberger L, Farina A, Raclot C, Genet V, Fiscalini F, Cesborn J, Perez L, Dereuddre-Bosquet N, Contreras V, Lheureux K, Relouzat F, Abdelnabi R, Leyssen P, Levy Y, Pojer F, Le Grand R, Trono D, Pantaleo G
J Infect (2023) 87 pp. 524-537 [ Pubmed: 37852477 DOI: doi:10.1016/j.jinf.2023.10.008 ]
SARS-CoV-2 S Omicron Spike B.1.1.529 - 3-P2G3 and 1-P5C3 Fabs (Global)
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 7qti
Q-score: 0.331
Fenwick C, Turelli P, Ni D, Perez L, Lau K, Herate C, Marlin R, Lana E, Pellaton C, Raclot C, Esteves-Leuenberger L, Campos J, Farina A, Fiscalini F, Dereuddre-Bosquet N, Relouzat F, Abdelnabi R, Foo CS, Neyts J, Leyssen P, Levy Y, Pojer F, Stahlberg H, LeGrand R, Trono D, Pantaleo G
Nat Microbiol (2022) 7 pp. 1376-1389 [ Pubmed: 35879526 DOI: doi:10.1038/s41564-022-01198-6 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Omicron spike (Complex from Homo sapiens)
- P2g3 light chain (23 kDa, Protein from Homo sapiens)
- P2g3 heavy chain (24 kDa, Protein from Homo sapiens)
- Fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein,envelope glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P5c3 heavy chain (23 kDa, Protein from Homo sapiens)
- P5c3 light chain (23 kDa, Protein from Homo sapiens)
- Spike omicron trimer with fabs (Complex)
P5C3 is a potent fab neutralizer
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7p40
Q-score: 0.308
Fenwick C, Turelli P, Perez L, Pellaton C, Esteves-Leuenberger L, Farina A, Campos J, Lana E, Fiscalini F, Raclot C, Pojer F, Lau K, Demurtas D, Descatoire M, Joo VS, Foglierini M, Noto A, Abdelnabi R, Foo CS, Vangeel L, Neyts J, Du W, Bosch BJ, Veldman G, Leyssen P, Thiel V, LeGrand R, Levy Y, Trono D, Pantaleo G
Cell Rep (2021) 37 pp. 109814-109814 [ Pubmed: 34599871 DOI: doi:10.1016/j.celrep.2021.109814 ]
- Variable light chain p5c3 (vl) (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Fab (Complex from Homo sapiens)
- Variable heavy chain p5c3 (vh) (23 kDa, Protein from Homo sapiens)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
Cryo-EM structure of the SARS-CoV-2 spike protein bound to neutralizing nanobodies (Ty1)
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 6zxn
Q-score: 0.468
Hanke L, Vidakovics Perez L, Sheward DJ, Das H, Schulte T, Moliner-Morro A, Corcoran M, Achour A, Karlsson Hedestam GB, Hallberg BM, Murrell B, McInerney GM
Nat Commun (2020) 11 pp. 4420-4420 [ DOI: doi:10.1038/s41467-020-18174-5 Pubmed: 32887876 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Nanobody ty1 (Complex from Vicugna pacos)
- Nanobody ty1 (14 kDa, Protein from Vicugna pacos)
- Ternary complex between nanobody ty1 and spike. (14 kDa, Complex)
- Nanobody strongly neutralising and blocks ace2 binding. (Complex from Severe acute respiratory syndrome coronavirus 2)