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 [ DOI: doi:10.1038/s41586-021-03817-4 Pubmed: 34280951 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain fab s2x259 fab variable domain (11 kDa, Protein from Homo sapiens)
- S2x259 fab (Complex from Homo sapiens)
- Heavy chain fab s2x259 fab variable domain (13 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1038/s41586-021-03817-4 Pubmed: 34280951 ]
- S2x259 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- S2x259 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2x259 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 S/S2M11/S2X333 Local Refinement
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7lxw
Q-score: 0.522
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- Sars-cov-2 s hexapro bound to s2x333 fab (Complex from Homo sapiens)
- S2x333 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2x333 fab light chain variable region (10 kDa, Protein from Homo sapiens)
SARS-CoV-2 S/S2M11/S2L28 Local Refinement
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7lxx
Q-score: 0.507
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- Sars-cov-2 s hexapro bound to s2l28 fab (Complex from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2l28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 S/S2M11/S2X333 Global Refinement
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 7lxy
Q-score: 0.58
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- S2x333 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2x333 fab light chain variable region (10 kDa, Protein from Homo sapiens)
- Sars-cov-2 s hexapro bound to s2x333 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 S/S2M11/S2L28 Global Refinement
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7lxz
Q-score: 0.54
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- Sars-cov-2 s hexapro bound to s2l28 fab (Complex from Homo sapiens)
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 S/S2M11/S2M28 Local Refinement
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7ly0
Q-score: 0.529
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- S2m28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2m28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s hexapro bound to s2m28 fab (Complex from Homo sapiens)
SARS-CoV-2 S/S2M11/S2M28 Global Refinement
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7ly2
Q-score: 0.551
McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D
Cell (2021) 184 pp. 2332- [ Pubmed: 33761326 DOI: doi:10.1016/j.cell.2021.03.028 ]
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- S2m28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2m28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 s hexapro bound to s2m11 and s2m28 fabs (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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)
- Sars-cov-2 spike in complex with the s2h13 neutralizing antibody fab fragment (Complex)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2h13 fab light chain (11 kDa, Protein from Homo sapiens)
- S2h13 neutralizing antibody fab fragment (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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)
- Sars-cov-2 spike in complex with the s2h13 neutralizing antibody fab fragment (Complex)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2h13 neutralizing antibody fab fragment (Complex from Homo sapiens)
- S2h13 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)