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 light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 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)
- Spike xbb.1 rbd up - p4j15 fab (local) (72 MDa, Complex from Severe acute respiratory syndrome coronavirus 2)
XBB 1.0 RBD bound to P4J15 (Global)
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 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)
- P2g3 light chain (23 kDa, Protein from Homo sapiens)
- P2g3 heavy chain (24 kDa, Protein from Homo sapiens)
- Spike omicron trimer with fabs (Complex)
- P5c3 heavy chain (23 kDa, Protein from Homo sapiens)
- P5c3 light chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein,envelope glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Omicron spike (Complex from Homo sapiens)
- Fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 S Omicron Spike B.1.1.529 - RBD up - 1-P2G3 and 1-P5C3 Fabs (Local)
Resolution: 4.01 Å
EM Method: Single-particle
Fitted PDBs: 7qtj
Q-score: 0.344
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 ]
- P2g3 light chain (23 kDa, Protein from Homo sapiens)
- P2g3 heavy chain (24 kDa, Protein from Homo sapiens)
- P5c3 heavy chain (23 kDa, Protein from Homo sapiens)
- P5c3 light chain (23 kDa, Protein from Homo sapiens)
- Spike omicron trimer with fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
- Surface glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 S Omicron Spike B.1.1.529 - RBD down - 1-P2G3 Fab (Local)
Resolution: 3.84 Å
EM Method: Single-particle
Fitted PDBs: 7qtk
Q-score: 0.393
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 ]
- Spike omicron trimer with fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
- Surface glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P2g3 light chain (23 kDa, Protein from Homo sapiens)
- P2g3 heavy chain (24 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1016/j.celrep.2021.109814 Pubmed: 34599871 ]
- Variable light chain p5c3 (vl) (23 kDa, Protein from Homo sapiens)
- Fab (Complex from Homo sapiens)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- Variable heavy chain p5c3 (vh) (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
the local resolution of Fab p5c3.
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 [ DOI: doi:10.1016/j.celrep.2021.109814 Pubmed: 34599871 ]
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7phg
Q-score: 0.354
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 [ DOI: doi:10.1016/j.celrep.2021.109814 Pubmed: 34599871 ]
- Rbd fab (Complex from Homo sapiens)
- Surface glycoprotein (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain variable (13 kDa, Protein from Homo sapiens)
- Light chain (11 kDa, Protein from Homo sapiens)