Cryo-EM structure of PDF-2180 Spike glycoprotein
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7u6r
Q-score: 0.63
Xiong Q, Cao L, Ma C, Tortorici MA, Liu C, Si J, Liu P, Gu M, Walls AC, Wang C, Shi L, Tong F, Huang M, Li J, Zhao C, Shen C, Chen Y, Zhao H, Lan K, Corti D, Veesler D, Wang X, Yan H
Nature (2022) 612 pp. 748-757 [ DOI: doi:10.1038/s41586-022-05513-3 Pubmed: 36477529 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Predict/pdf-2180 (Virus from PREDICT/PDF-2180)
- Pdf-2180 spike glycoprotein (147 kDa, Protein from Bat coronavirus)
Structure of NeoCOV RBD binding to Bat37 ACE2
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7wpo
Q-score: 0.458
Xiong Q, Cao L, Ma C, Tortorici MA, Liu C, Si J, Liu P, Gu M, Walls AC, Wang C, Shi L, Tong F, Huang M, Li J, Zhao C, Shen C, Chen Y, Zhao H, Lan K, Corti D, Veesler D, Wang X, Yan H
Nature (2022) 612 pp. 748-757 [ DOI: doi:10.1038/s41586-022-05513-3 Pubmed: 36477529 ]
- Angiotensin-converting enzyme (80 kDa, Protein from Pipistrellus pipistrellus)
- Neocov rbd-bat37 ace2 complex (Complex from Coronavirus Neoromicia/PML-PHE1/RSA/2011)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (21 kDa, Protein from Coronavirus Neoromicia/PML-PHE1/RSA/2011)
Structure of PDF-2180-COV RBD binding to Bat37 ACE2
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7wpz
Q-score: 0.427
Xiong Q, Cao L, Ma C, Tortorici MA, Liu C, Si J, Liu P, Gu M, Walls AC, Wang C, Shi L, Tong F, Huang M, Li J, Zhao C, Shen C, Chen Y, Zhao H, Lan K, Corti D, Veesler D, Wang X, Yan H
Nature (2022) 612 pp. 748-757 [ DOI: doi:10.1038/s41586-022-05513-3 Pubmed: 36477529 ]
- Pdf-2180-cov rbd-bat37 ace2 complex (Complex from Bat coronavirus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme (69 kDa, Protein from Pipistrellus pipistrellus)
- Spike glycoprotein (22 kDa, Protein from Bat coronavirus)
SARS-CoV-2 Omicron variant spike protein in complex with Fab XGv282
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7we7
Q-score: 0.315
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Sars-cov-2 omicron mutation spike protein (Complex)
- Heavy chain of fab 282 (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The light chain of fab 282 (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Homo sapiens)
- Fab 282 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron variant spike protein in complex with Fab XGv265
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7we8
Q-score: 0.363
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of fab 265 (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of fab 265 (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fab 265 (Complex)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron variant spike protein in complex with Fab XGv289
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7we9
Q-score: 0.349
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron mutation spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Fab 289 (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- The light chain of fab xgv289 (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Severe acute respiratory syndrome coronavirus 2)
- The heavy chain of fab xgv289 (13 kDa, Protein from Homo sapiens)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7wea
Q-score: 0.421
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron mutation spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- The light chain of fab xgv347 (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Fab xgv347 (Complex)
- The heavy chain of fab xgv347 (13 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron variant spike protein with two XGv347 binding to two open state RBDs
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7web
Q-score: 0.337
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Homo sapiens)
- The light chain of fab xgv347 (11 kDa, Protein from Homo sapiens)
- Fab 347 (Complex from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- The heavy chain of fab xgv347 (13 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron variant spike protein with three XGv347 Fabs binding to three closed state RBDs
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7wec
Q-score: 0.433
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Sars-cov-2 omicron mutation spike protein (Complex)
- The heavy chain of fab xgv347 (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The light chain of fab xgv347 (11 kDa, Protein from Homo sapiens)
- Fab 347 (Complex from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron variant spike RBD in complex with Fab XGv265
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7wee
Q-score: 0.415
Wang K, Jia Z, Bao L, Wang L, Cao L, Chi H, Hu Y, Li Q, Zhou Y, Jiang Y, Zhu Q, Deng Y, Liu P, Wang N, Wang L, Liu M, Li Y, Zhu B, Fan K, Fu W, Yang P, Pei X, Cui Z, Qin L, Ge P, Wu J, Liu S, Chen Y, Huang W, Wang Q, Qin CF, Wang Y, Qin C, Wang X
Nature (2022) 603 pp. 919-925 [ DOI: doi:10.1038/s41586-022-04466-x Pubmed: 35090164 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The heavy chain of fab xgv265 (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron mutation spike protein in complex with fab 265 (Complex from Severe acute respiratory syndrome coronavirus 2)
- The light chain of fab xgv265 (11 kDa, Protein from Homo sapiens)
- Fab 265 (Complex)
- Sars-cov-2 omicron mutation spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)