Infectious bronchitis virus core polymerase complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 9cpo
Q-score: 0.477
Hoferle PJ, Anderson TK, Kirchdoerfer RN
bioRxiv (2024) [ DOI: doi:10.1101/2024.07.23.604833 Pubmed: 39091740 ]
- Non-structural protein 7 (8 kDa, Protein from Infectious bronchitis virus)
- Non-structural protein 8 (21 kDa, Protein from Infectious bronchitis virus)
- Rna-directed rna polymerase nsp12 (107 kDa, Protein from Infectious bronchitis virus)
- Core polymerase complex of the infectious bronchitis virus composed of nsp12, nsp8, nsp7, and an dsrna substrate (194 kDa, Complex from Infectious bronchitis virus)
- Rna template (10 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Rna primer (9 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Porcine epidemic diarrhea virus complete core polymerase complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8urb
Q-score: 0.49
Anderson TK, Hoferle PJ, Lee KW, Coon JJ, Kirchdoerfer RN
bioRxiv (2023) [ Pubmed: 36993498 DOI: doi:10.1101/2023.03.15.532841 ]
- Nsp8 (21 kDa, Protein from Porcine epidemic diarrhea virus)
- Rna (55-mer) (17 kDa, RNA from synthetic construct)
- Nsp12 (108 kDa, Protein from Porcine epidemic diarrhea virus)
- Nsp7 (9 kDa, Protein from Porcine epidemic diarrhea virus)
- Rna (33-mer) (10 kDa, RNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Core polymerase complex of the porcine epidemic diarrhea virus composed of nsp12, nsp7, nsp8, and a short rna substrate (185 kDa, Complex from Porcine epidemic diarrhea virus)
Porcine epidemic diarrhea virus core polymerase complex
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8g6r
Q-score: 0.435
Anderson TK, Hoferle PJ, Lee KW, Coon JJ, Kirchdoerfer RN
bioRxiv (2023) [ Pubmed: 36993498 DOI: doi:10.1101/2023.03.15.532841 ]
- Nsp7 (6 kDa, Protein from Porcine epidemic diarrhea virus)
- Core replication complex of porcine epidemic diarrhea virus composed of nsp12, nsp7, nsp8, and a short rna substrate (185 kDa, Complex from Porcine epidemic diarrhea virus)
- Rna (5'-r(p*ap*ap*gp*ap*ap*gp*cp*up*ap*up*up*ap*ap*ap*ap*up*cp*ap*cp*a)-3') (6 kDa, RNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Nsp12 (104 kDa, Protein from Porcine epidemic diarrhea virus)
- Nsp8 (12 kDa, Protein from Porcine epidemic diarrhea virus)
- Rna (5'-r(p*gp*gp*up*up*gp*up*gp*ap*up*up*up*up*ap*ap*up*ap*gp*cp*up*u)-3') (6 kDa, RNA from synthetic construct)
BG505 SOSIP.v5.2 in complex with the polyclonal Fab pAbC-1 from animal Rh.4O9
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7mdt
Q-score: 0.481
Antanasijevic A, Bowman CA, Kirchdoerfer RN, Cottrell CA, Ozorowski G, Upadhyay AA, Cirelli KM, Carnathan DG, Enemuo CA, Sewall LM, Nogal B, Zhao F, Groschel B, Schief WR, Sok D, Silvestri G, Crotty S, Bosinger SE, Ward AB
Sci Adv (2022) 8 pp. eabk2039-eabk2039 [ Pubmed: 35044813 DOI: doi:10.1126/sciadv.abk2039 ]
- Transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Rh4o9.8 monoclonal antibody light chain (11 kDa, Protein from Macaca mulatta)
- Rh4o9.8 monoclonal antibody heavy chain (12 kDa, Protein from Macaca mulatta)
- Surface protein gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 sosip.v5.2 in complex with the polyclonal fab sample isolated from animal rh4o9. (Complex from Human immunodeficiency virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
BG505 SOSIP MD39 in complex with the monoclonal antibodies Rh.33104 mAb.1 and RM20A3
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7mdu
Q-score: 0.517
Antanasijevic A, Bowman CA, Kirchdoerfer RN, Cottrell CA, Ozorowski G, Upadhyay AA, Cirelli KM, Carnathan DG, Enemuo CA, Sewall LM, Nogal B, Zhao F, Groschel B, Schief WR, Sok D, Silvestri G, Crotty S, Bosinger SE, Ward AB
Sci Adv (2022) 8 pp. eabk2039-eabk2039 [ Pubmed: 35044813 DOI: doi:10.1126/sciadv.abk2039 ]
- Rh.33104 mab.1 heavy chain (12 kDa, Protein from Macaca mulatta)
- Rm20a3 mab light chain (11 kDa, Protein from Macaca mulatta)
- Rm20a3 mab heavy chain (13 kDa, Protein from Macaca mulatta)
- Surface protein gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rh.33104 mab.1 light chain (11 kDa, Protein from Macaca mulatta)
- Bg505 sosip md39 in complex with the monoclonal antibodies rh.33104 mab.1 and rm20a3 (Complex from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
BG505 SOSIP.v5.2(7S) in complex with the monoclonal antibodies Rh.33172 mAb.1 and RM19R
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7mep
Q-score: 0.486
Antanasijevic A, Bowman CA, Kirchdoerfer RN, Cottrell CA, Ozorowski G, Upadhyay AA, Cirelli KM, Carnathan DG, Enemuo CA, Sewall LM, Nogal B, Zhao F, Groschel B, Schief WR, Sok D, Silvestri G, Crotty S, Bosinger SE, Ward AB
Sci Adv (2022) 8 pp. eabk2039-eabk2039 [ Pubmed: 35044813 DOI: doi:10.1126/sciadv.abk2039 ]
- Rm19r mab light chain (11 kDa, Protein from Macaca mulatta)
- Bg505 sosip.v5.2(7s) in complex with the monoclonal antibodies rh.33172 mab.1 and rm19r (Complex)
- Rm19r mab heavy chain (13 kDa, Protein from Macaca mulatta)
- Monoclonal antibodies rh.33172 mab.1 and rm19r (Complex from Macaca mulatta)
- Bg505 sosip.v5.2(7s) (Complex from Human immunodeficiency virus)
- Rh.33172 mab.1 heavy chain (14 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rh.33172 mab.1 light chain (11 kDa, Protein from Macaca mulatta)
- Bg505 sosipv5.2(7s) - gp120 (74 kDa, Protein from Human immunodeficiency virus)
Cryo-EM structure of porcine epidemic diarrhea virus (PEDV) spike protein
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6vv5
Q-score: 0.474
Kirchdoerfer RN, Bhandari M, Martini O, Sewall LM, Bangaru S, Yoon KJ, Ward AB
Structure (2021) 29 pp. 385-392.e5 [ Pubmed: 33378641 DOI: doi:10.1016/j.str.2020.12.003 ]
- Spike glycoprotein (148 kDa, Protein from Porcine epidemic diarrhea virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Palmitoleic acid (254 Da, Ligand)
- Porcine epidemic diarrhea virus spike protein (600 kDa, Complex from Porcine epidemic diarrhea virus)
MERS S0 trimer in complex with antibody G2
Resolution: 4.19 Å
EM Method: Single-particle
Fitted PDBs: 6pz8
Q-score: 0.133
Wang N, Rosen O, Wang L, Turner HL, Stevens LJ, Corbett KS, Bowman CA, Pallesen J, Shi W, Zhang Y, Leung K, Kirchdoerfer RN, Becker MM, Denison MR, Chappell JD, Ward AB, Graham BS, McLellan JS
Cell Rep (2019) 28 pp. 3395-3405.e6 [ Pubmed: 31553909 DOI: doi:10.1016/j.celrep.2019.08.052 ]
- G2 light chain (23 kDa, Protein from Mus musculus)
- Antibody g2 (Complex from Mus musculus)
- S protein (51 kDa, Protein from Middle East respiratory syndrome-related coronavirus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Mers s0 ectodomain trimer in complex with antibody g2 (Complex)
- G2 heavy chain (24 kDa, Protein from Mus musculus)
- Mers s0 ectodomain trimer (Complex from Middle East respiratory syndrome-related coronavirus)
- S protein (80 kDa, Protein from Middle East respiratory syndrome-related coronavirus)
SARS-Coronavirus NSP12 bound to NSP7 and NSP8 co-factors
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6nur
Q-score: 0.491
Nat Commun (2019) 10 pp. 2342-2342 [ Pubmed: 31138817 DOI: doi:10.1038/s41467-019-10280-3 ]
- Nsp12 (109 kDa, Protein from Human SARS coronavirus)
- Nsp8 (21 kDa, Protein from Human SARS coronavirus)
- Sars-coronavirus nsp12 bound to nsp7 and nsp8 co-factors (160 kDa, Complex from SARS coronavirus)
- Zinc ion (65 Da, Ligand)
- Nsp7 (9 kDa, Protein from Human SARS coronavirus)
SARS-Coronavirus NSP12 bound to NSP8 co-factor
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6nus
Q-score: 0.383
Nat Commun (2019) 10 pp. 2342-2342 [ Pubmed: 31138817 DOI: doi:10.1038/s41467-019-10280-3 ]
- Nsp12 (109 kDa, Protein from Human SARS coronavirus)
- Nsp8 (21 kDa, Protein from Human SARS coronavirus)
- Zinc ion (65 Da, Ligand)
- Sars-coronavirus nsp12 bound to nsp7 and nsp8 co-factors (130 kDa, Complex from SARS coronavirus)