PDCoV S trimer bound by three copies of PD41 Fab
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 9dez
Q-score: 0.567
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914- [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Complex of pdcov s trimer with pd41 fab (530 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
- Spike glycoprotein (128 kDa, Protein from Porcine deltacoronavirus)
- Pd41 fab variable light-chain (11 kDa, Protein from Mus musculus)
- Palmitoleic acid (254 Da, Ligand)
- Pd41 fab variable heavy-chain (13 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
PDCoV S RBD bound to PD41 Fab (local refinement)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 9df0
Q-score: 0.562
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914- [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Spike glycoprotein (128 kDa, Protein from Porcine deltacoronavirus)
- Pdcov s rbd complex with pd41 fab (local refinement) (40 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
- Pd41 fab variable heavy-chain (13 kDa, Protein from Mus musculus)
- Pd41 fab variable light-chain (11 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
PDCoV S SD2018/300 Apo (Class I)
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914-2927.e7 [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Pdcov s protein (Protein from Porcine deltacoronavirus)
- Pdcov s trimer (387 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
PDCoV S SD2018/300 with one PD41 Fab bound (Class II)
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914-2927.e7 [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Complex of pdcov s trimer with pd41 fab (530 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
- Pd41 fab variable heavy-chain (Protein from Mus musculus)
- Pdcov spike glycoprotein (Protein from Porcine deltacoronavirus)
- Pd41 fab variable light-chain (Protein from Mus musculus)
PDCoV S SD2018/300 with one PD41 Fab bound (Class III)
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914-2927.e7 [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Complex of pdcov s trimer with pd41 fab (530 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
- Pd41 fab variable heavy-chain (Protein from Mus musculus)
- Pdcov spike glycoprotein (Protein from Porcine deltacoronavirus)
- Pd41 fab variable light-chain (Protein from Mus musculus)
PDCoV S SD2018/300 with two PD41 Fabs bound (Class IV)
Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D
Immunity (2024) 57 pp. 2914-2927.e7 [ Pubmed: 39488210 DOI: doi:10.1016/j.immuni.2024.10.001 ]
- Complex of pdcov s trimer with pd41 fab (530 kDa, Complex from Deltacoronavirus PDCoV/USA/Illinois121/2014)
- Pd41 fab variable heavy-chain (Protein from Mus musculus)
- Pdcov spike glycoprotein (Protein from Porcine deltacoronavirus)
- Pd41 fab variable light-chain (Protein from Mus musculus)
SARS-CoV-2 S (B.1.429 / epsilon variant) + S2M11 + S2L20 Global Refinement
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 7n8h
Q-score: 0.594
McCallum M, Bassi J, De Marco A, Chen A, Walls AC, Di Iulio J, Tortorici MA, Navarro MJ, Silacci-Fregni C, Saliba C, Sprouse KR, Agostini M, Pinto D, Culap K, Bianchi S, Jaconi S, Cameroni E, Bowen JE, Tilles SW, Pizzuto MS, Guastalla SB, Bona G, Pellanda AF, Garzoni C, Van Voorhis WC, Rosen LE, Snell G, Telenti A, Virgin HW, Piccoli L, Corti D, Veesler D
Science (2021) 373 pp. 648-654 [ Pubmed: 34210893 DOI: doi:10.1126/science.abi7994 ]
- S2m11 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- S2l20 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2m11 fab heavy chain variable region (13 kDa, Protein from Homo sapiens)
- S2l20 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 s (b.1.429 / epsilon variant) bound to s2m11 and s2l20 fabs (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike in complex with the S2M11 neutralizing antibody Fab fragment
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7k43
Q-score: 0.573
Tortorici MA, Beltramello M, Lempp FA, Pinto D, Dang HV, Rosen LE, McCallum M, Bowen J, Minola A, Jaconi S, Zatta F, De Marco A, Guarino B, Bianchi S, Lauron EJ, Tucker H, Zhou J, Peter A, Havenar-Daughton C, Wojcechowskyj JA, Case JB, Chen RE, Kaiser H, Montiel-Ruiz M, Meury M, Czudnochowski N, Spreafico R, Dillen J, Ng C, Sprugasci N, Culap K, Benigni F, Abdelnabi R, Foo SC, Schmid MA, Cameroni E, Riva A, Gabrieli A, Galli M, Pizzuto MS, Neyts J, Diamond MS, Virgin HW, Snell G, Corti D, Fink K, Veesler D
Science (2020) 370 pp. 950-957 [ Pubmed: 32972994 DOI: doi:10.1126/science.abe3354 ]
- Sars-cov-2 spike in complex with the s2m11 neutralizing antibody fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab fragment (heavy chain) (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab fragment (light chain) (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)