The cryoEM structure of H5N1 HA split from symmetric filament in conformation A
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 8zdw
Q-score: 0.427
Li R, Gao J, Wang L, Gui M, Xiang Y
To Be Published
- H5n1 ha (Complex)
- H5m9 fab, light chain (23 kDa, Protein from Mus musculus)
- Hemagglutinin (26 kDa, Protein from Influenza A virus (strain A/Vietnam/1203/2004 H5N1))
- Split trimer of h5n1 ha-fabh5m9 complex from symmetric filament (200 kDa, Complex from Influenza A virus (strain A/Vietnam/1203/2004 H5N1))
- Hemagglutinin (38 kDa, Protein from Influenza A virus (strain A/Vietnam/1203/2004 H5N1))
- Fabh5m9 (Complex from Mus musculus)
- Anti-h5n1 hemagglutinin monoclonal anitbody h5m9 heavy chain (23 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
BG505 GT1.1 SOSIP in complex with NHP Fabs 12C11 and RM20A3
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8sw3
Q-score: 0.564
Caniels TG, Medina-Ramirez M, Zhang S, Kratochvil S, Xian Y, Koo JH, Derking R, Samsel J, van Schooten J, Pecetta S, Lamperti E, Yuan M, Carrasco MR, Del Moral Sanchez I, Allen JD, Bouhuijs JH, Yasmeen A, Ketas TJ, Snitselaar JL, Bijl TPL, Martin IC, Torres JL, Cupo A, Shirreff L, Rogers K, Mason RD, Roederer M, Greene KM, Gao H, Silva CM, Baken IJL, Tian M, Alt FW, Pulendran B, Seaman MS, Crispin M, van Gils MJ, Montefiori DC, McDermott AB, Villinger FJ, Koup RA, Moore JP, Klasse PJ, Ozorowski G, Batista FD, Wilson IA, Ward AB, Sanders RW
Sci Immunol (2024) 9 pp. eadk9550-eadk9550 [ Pubmed: 39213338 DOI: doi:10.1126/sciimmunol.adk9550 ]
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 12c11 heavy chain variable region (14 kDa, Protein from Macaca)
- 12c11 light chain variable region (11 kDa, Protein from Macaca)
- Bg505 gt1.1 sosip gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 heavy chain variable region (13 kDa, Protein from Macaca)
- Rm20a3 light chain variable region (11 kDa, Protein from Macaca)
- Bg505 gt1.1 sosip in complex with 12c11 fab and rm20a3 fab (720 kDa, Complex from Macaca)
SARS-CoV-2 Omicron XBB.1.5 RBD complexed with human ACE2 and S304
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8we4
Q-score: 0.462
Li W, Xu Z, Niu T, Xie Y, Zhao Z, Li D, He Q, Sun W, Shi K, Guo W, Chang Z, Liu K, Fan Z, Qi J, Gao GF
EMBO J (2024) 43 pp. 1484-1498 [ Pubmed: 38467833 DOI: doi:10.1038/s44318-024-00062-z ]
- Ace2 (Complex from Homo sapiens)
- Sars-cov-2 omicron xbb.1.5 rbd complexed with human ace2 and fab s304 (Complex)
- Spike protein s1 (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Fabs304 (Complex from Homo sapiens)
- S304 fab heavy chain (24 kDa, Protein from Homo sapiens)
- S304 fab light chain (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Sars-cov-2 omicron xbb.1.5 rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Angiotensin-converting enzyme 2 (92 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8xsl
Q-score: 0.359
Tong Z, Tong J, Lei W, Xie Y, Cui Y, Jia G, Li S, Zhang Z, Cheng Z, Xing X, Ma H, Deng L, Zhang R, Zhao X, Liu K, Wang Q, Qi J, Huang H, Song R, Su Z, Wu G, Lou J, Gao GF
Cell Rep (2024) 43 pp. 114338-114338 [ Pubmed: 38850530 DOI: doi:10.1016/j.celrep.2024.114338 ]
- Cryo-em structure of sars-cov-2 spike + imcas-123 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Imcas-123 heavy chain (23 kDa, Protein from Homo sapiens)
- Imcas-123 light chain (23 kDa, Protein 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)
Cryo-EM structure of SARS-CoV-2 Omicron BA.2.86 RBD in complex with human ACE2 and S309 Fab
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 8y6a
Q-score: 0.343
Li L, Shi K, Gu Y, Xu Z, Shu C, Li D, Sun J, Cong M, Li X, Zhao X, Yu G, Hu S, Tan H, Qi J, Ma X, Liu K, Gao GF
Structure (2024) 32 pp. 1055-1067.e6 [ DOI: doi:10.1016/j.str.2024.06.012 Pubmed: 39013463 ]
- Heavy chain of s309 fab (24 kDa, Protein from Homo sapiens)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Light chain of s309 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.2.86 rbd in complex with human ace2 and s309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike protein s1 (26 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Fab M2-7 complexed with SARS-Cov2 RBD and human ACE2
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 8xxw
Q-score: 0.484
Liu C, Xu S, Zheng Y, Xie Y, Xu K, Chai Y, Luo T, Dai L, Gao GF
Cell Rep (2024) 43 pp. 114235-114235 [ Pubmed: 38748880 DOI: doi:10.1016/j.celrep.2024.114235 ]
- Fab (Complex from Mus musculus)
- Ace2 (Complex from Homo sapiens)
- Spike protein s1 (20 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- M2-7-light chain (12 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- M2-7-heavy chain (13 kDa, Protein from Mus musculus)
- Fab m2-7 complexed with sars-cov2 rbd and human ace2 (Complex)
- Rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (67 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of bsAb3 Fab-Gn-Gc complex
Resolution: 3.27 Å
EM Method: Single-particle
Fitted PDBs: 8wqw
Q-score: 0.349
Chang Z, Gao D, Liao L, Sun J, Zhang G, Zhang X, Wang F, Li C, Oladejo BO, Li S, Chai Y, Hu Y, Lu X, Xiao H, Qi J, Chen Z, Gao F, Wu Y
PNAS (2024) 121 pp. e2400163121-e2400163121 [ Pubmed: 38830098 DOI: doi:10.1073/pnas.2400163121 ]
- Glycoprotein n (35 kDa, Protein from Dabie bandavirus)
- Glycoprotein c (47 kDa, Protein from Dabie bandavirus)
- Gn_gc (Complex from Dabie bandavirus)
- Fab (Complex from Homo sapiens)
- Bsab3 fab-heavy chain (37 kDa, Protein from Homo sapiens)
- Bsab3 fab-light chain (35 kDa, Protein from Homo sapiens)
- The structure of bsab3_gn_gc complex (Complex)
Structure of MPXV B6 and D68 fab complex
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 8xs3
Q-score: 0.424
Zhao R, Wu L, Sun J, Liu D, Han P, Gao Y, Zhang Y, Xu Y, Qu X, Wang H, Chai Y, Chen Z, Gao GF, Wang Q
Nat Commun (2024) 15 pp. 4660-4660 [ Pubmed: 38821921 DOI: doi:10.1038/s41467-024-48312-2 ]
- Protein opg190 (28 kDa, Protein from Monkeypox virus)
- D68_light chain (24 kDa, Protein from Homo sapiens)
- D68_heavy chain (23 kDa, Protein from Homo sapiens)
- Structure of mpxv b6 complexed with d68 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron BA.2 spike trimer (6P) in complex with D1F6 Fab, head-to-head aggregate
Resolution: 7.82 Å
EM Method: Single-particle
Fitted PDBs: 8zc2
Q-score: 0.103
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
Cell Rep (2024) 43 pp. 114265-114265 [ DOI: doi:10.1016/j.celrep.2024.114265 Pubmed: 38805396 ]
- Sars-cov-2 omicron ba.2 spike trimer (6p) in complex with d1f6 fab, head-to-head aggregate (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with D1F6 Fab, head-to-head aggregate
Resolution: 6.85 Å
EM Method: Single-particle
Fitted PDBs: 8zc6
Q-score: 0.116
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
Cell Rep (2024) 43 pp. 114265-114265 [ DOI: doi:10.1016/j.celrep.2024.114265 Pubmed: 38805396 ]
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with d1f6 fab, head-to-head aggregate (Complex from Severe acute respiratory syndrome coronavirus 2)