SARS-CoV-2 spike protein bound to the S2P6 and S2M11 Fab fragments
Pinto D, Sauer MM, Czudnochowski N, Low JS, Tortorici MA, Housley MP, Noack J, Walls AC, Bowen JE, Guarino B, Rosen LE, di Iulio J, Jerak J, Kaiser H, Islam S, Jaconi S, Sprugasci N, Culap K, Abdelnabi R, Foo C, Coelmont L, Bartha I, Bianchi S, Silacci-Fregni C, Bassi J, Marzi R, Vetti E, Cassotta A, Ceschi A, Ferrari P, Cippa PE, Giannini O, Ceruti S, Garzoni C, Riva A, Benigni F, Cameroni E, Piccoli L, Pizzuto MS, Smithey M, Hong D, Telenti A, Lempp FA, Neyts J, Havenar-Daughton C, Lanzavecchia A, Sallusto F, Snell G, Virgin HW, Beltramello M, Corti D, Veesler D
Science (2021) 373 pp. 1109-1116 [ Pubmed: 34344823 DOI: doi:10.1126/science.abj3321 ]
- S2p6 fab fragment (Complex from Homo sapiens)
- S2p6 and s2m11 fab fragments bound to the sars-cov-2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab fragment (Complex from Homo sapiens)
SARS-CoV-2 S glycoprotein in complex with S2X259 Fab
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ra8
Q-score: 0.423
Tortorici MA, Czudnochowski N, Starr TN, Marzi R, Walls AC, Zatta F, Bowen JE, Jaconi S, Di Iulio J, Wang Z, De Marco A, Zepeda SK, Pinto D, Liu Z, Beltramello M, Bartha I, Housley MP, Lempp FA, Rosen LE, Dellota Jr E, Kaiser H, Montiel-Ruiz M, Zhou J, Addetia A, Guarino B, Culap K, Sprugasci N, Saliba C, Vetti E, Giacchetto-Sasselli I, Fregni CS, Abdelnabi R, Foo SC, Havenar-Daughton C, Schmid MA, Benigni F, Cameroni E, Neyts J, Telenti A, Virgin HW, Whelan SPJ, Snell G, Bloom JD, Corti D, Veesler D, Pizzuto MS
Nature (2021) 597 pp. 103-108 [ Pubmed: 34280951 DOI: doi:10.1038/s41586-021-03817-4 ]
- Heavy chain fab s2x259 fab variable domain (13 kDa, Protein from Homo sapiens)
- Light chain fab s2x259 fab variable domain (11 kDa, Protein from Homo sapiens)
- S2x259 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- Sars-cov-2 s glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 S bound to S2X259 Fab (local refinement of the RBD/S2X259 variable domains)
Tortorici MA, Czudnochowski N, Starr TN, Marzi R, Walls AC, Zatta F, Bowen JE, Jaconi S, Di Iulio J, Wang Z, De Marco A, Zepeda SK, Pinto D, Liu Z, Beltramello M, Bartha I, Housley MP, Lempp FA, Rosen LE, Dellota Jr E, Kaiser H, Montiel-Ruiz M, Zhou J, Addetia A, Guarino B, Culap K, Sprugasci N, Saliba C, Vetti E, Giacchetto-Sasselli I, Fregni CS, Abdelnabi R, Foo SC, Havenar-Daughton C, Schmid MA, Benigni F, Cameroni E, Neyts J, Telenti A, Virgin HW, Whelan SPJ, Snell G, Bloom JD, Corti D, Veesler D, Pizzuto MS
Nature (2021) 597 pp. 103-108 [ Pubmed: 34280951 DOI: doi:10.1038/s41586-021-03817-4 ]
- S2x259 fab light chain (11 kDa, Protein from Homo sapiens)
- S2x259 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2x259 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 7r7n
Q-score: 0.411
Starr TN, Czudnochowski N, Liu Z, Zatta F, Park YJ, Addetia A, Pinto D, Beltramello M, Hernandez P, Greaney AJ, Marzi R, Glass WG, Zhang I, Dingens AS, Bowen JE, Tortorici MA, Walls AC, Wojcechowskyj JA, De Marco A, Rosen LE, Zhou J, Montiel-Ruiz M, Kaiser H, Dillen JR, Tucker H, Bassi J, Silacci-Fregni C, Housley MP, di Iulio J, Lombardo G, Agostini M, Sprugasci N, Culap K, Jaconi S, Meury M, Dellota Jr E, Abdelnabi R, Foo SC, Cameroni E, Stumpf S, Croll TI, Nix JC, Havenar-Daughton C, Piccoli L, Benigni F, Neyts J, Telenti A, Lempp FA, Pizzuto MS, Chodera JD, Hebner CM, Virgin HW, Whelan SPJ, Veesler D, Corti D, Bloom JD, Snell G
Nature (2021) 597 pp. 97-102 [ Pubmed: 34261126 DOI: doi:10.1038/s41586-021-03807-6 ]
- S2d106 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike in complex with the s2d106 neutralizing antibody fab fragment (Complex)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2d106 (Complex from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2d106 fab light chain (11 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with the S2D106 neutralizing antibody Fab fragment
Starr TN, Czudnochowski N, Liu Z, Zatta F, Park YJ, Addetia A, Pinto D, Beltramello M, Hernandez P, Greaney AJ, Marzi R, Glass WG, Zhang I, Dingens AS, Bowen JE, Tortorici MA, Walls AC, Wojcechowskyj JA, De Marco A, Rosen LE, Zhou J, Montiel-Ruiz M, Kaiser H, Dillen JR, Tucker H, Bassi J, Silacci-Fregni C, Housley MP, di Iulio J, Lombardo G, Agostini M, Sprugasci N, Culap K, Jaconi S, Meury M, Dellota Jr E, Abdelnabi R, Foo SC, Cameroni E, Stumpf S, Croll TI, Nix JC, Havenar-Daughton C, Piccoli L, Benigni F, Neyts J, Telenti A, Lempp FA, Pizzuto MS, Chodera JD, Hebner CM, Virgin HW, Whelan SPJ, Veesler D, Corti D, Bloom JD, Snell G
Nature (2021) 597 pp. 97-102 [ DOI: doi:10.1038/s41586-021-03807-6 Pubmed: 34261126 ]
Starr TN, Czudnochowski N, Liu Z, Zatta F, Park YJ, Addetia A, Pinto D, Beltramello M, Hernandez P, Greaney AJ, Marzi R, Glass WG, Zhang I, Dingens AS, Bowen JE, Tortorici MA, Walls AC, Wojcechowskyj JA, De Marco A, Rosen LE, Zhou J, Montiel-Ruiz M, Kaiser H, Dillen JR, Tucker H, Bassi J, Silacci-Fregni C, Housley MP, di Iulio J, Lombardo G, Agostini M, Sprugasci N, Culap K, Jaconi S, Meury M, Dellota Jr E, Abdelnabi R, Foo SC, Cameroni E, Stumpf S, Croll TI, Nix JC, Havenar-Daughton C, Piccoli L, Benigni F, Neyts J, Telenti A, Lempp FA, Pizzuto MS, Chodera JD, Hebner CM, Virgin HW, Whelan SPJ, Veesler D, Corti D, Bloom JD, Snell G
Nature (2021) 597 pp. 97-102 [ DOI: doi:10.1038/s41586-021-03807-6 Pubmed: 34261126 ]
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7jv2
Q-score: 0.445
Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D
Cell (2020) 183 pp. 1024-1042.e21 [ DOI: doi:10.1016/j.cell.2020.09.037 Pubmed: 32991844 ]
- S2h13 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike in complex with the s2h13 neutralizing antibody fab fragment (Complex)
- S2h13 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2h13 neutralizing antibody fab fragment (Complex from Homo sapiens)
SARS-CoV-2 spike in complex with the S2H13 neutralizing antibody (one RBD open)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7jv4
Q-score: 0.397
Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D
Cell (2020) 183 pp. 1024-1042.e21 [ DOI: doi:10.1016/j.cell.2020.09.037 Pubmed: 32991844 ]
- S2h13 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike in complex with the s2h13 neutralizing antibody fab fragment (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2h13 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2h13 neutralizing antibody fab fragment (Complex from Homo sapiens)
SARS-CoV-2 spike in complex with the S2H13 neutralizing antibody (closed conformation)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7jv6
Q-score: 0.433
Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D
Cell (2020) 183 pp. 1024-1042.e21 [ DOI: doi:10.1016/j.cell.2020.09.037 Pubmed: 32991844 ]
- S2h13 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike in complex with the s2h13 neutralizing antibody fab fragment (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2h13 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2h13 neutralizing antibody fab fragment (Complex from Homo sapiens)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7jva
Q-score: 0.452
Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D
Cell (2020) 183 pp. 1024-1042.e21 [ DOI: doi:10.1016/j.cell.2020.09.037 Pubmed: 32991844 ]
- S2a4 fab heavy chain (13 kDa, Protein from Homo sapiens)
- S2a4 fab light chain (11 kDa, Protein from Homo sapiens)
- S2a4 neutralizing antibody fab fragment (Complex from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike in complex with the s2a4 neutralizing antibody fab fragment (Complex)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)