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 ]
- S2m11 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)
- S2p6 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 ]
- 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)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- Heavy chain fab s2x259 fab variable domain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein 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 heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2x259 fab (Complex from Homo sapiens)
- Severe acute respiratory syndrome coronavirus 2 (Complex)
- S2x259 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
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 [ DOI: doi:10.1038/s41586-021-03807-6 Pubmed: 34261126 ]
- S2d106 fab heavy chain (13 kDa, Protein from Homo sapiens)
- S2d106 fab light chain (11 kDa, Protein from Homo sapiens)
- S2d106 (Complex from Homo sapiens)
- Sars-cov-2 spike in complex with the s2d106 neutralizing antibody fab fragment (Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
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 ]
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 ]
- S2x333 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 s hexapro bound to s2x333 fab (Complex from Homo sapiens)
- 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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2l28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- 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)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 s hexapro bound to s2x333 fab (Complex from Homo sapiens)
- S2x333 fab light chain variable region (10 kDa, Protein 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)
- Water (18 Da, Ligand)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2l28 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l28 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- 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)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)