SARS-CoV-2 Omicron Variant S Trimer complexed with two JMB2002 Fab
Resolution: 2.69 Å
EM Method: Single-particle
Fitted PDBs: 7wpe
Q-score: 0.338
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Anti-fab nanobody (Complex)
- Sars-cov-2 omicron variant s (Complex from Mus musculus)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Jmb2002 fab (Complex from Lama glama)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus)
- Anti-fab nanobody (14 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Jmb2002 fab light chian (23 kDa, Protein from Mus musculus)
The interface of JMB2002 Fab binds to SARS-CoV-2 Omicron Variant S
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 7wrv
Q-score: 0.507
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant s (Complex from Mus musculus)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab (Complex)
- Jmb2002 fab light chain (23 kDa, Protein from Mus musculus)
SARS-CoV-2 Omicron Variant S Trimer complexed with one JMB2002 Fab
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 7wpd
Q-score: 0.265
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Anti fab nanobody (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab (Complex from Lama glama)
- Sars-cov-2 omicron variant s trimer (Complex from Mus musculus)
- Anti-fab nanobody (14 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Jmb2002 fab light chian (23 kDa, Protein from Mus musculus)
SARS-CoV-2 Omicron Variant S Trimer complexed with three JMB2002 Fab
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 7wpf
Q-score: 0.226
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Anti fab nanobody (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant s (Complex from Mus musculus)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab (Complex from Lama glama)
- Jmb2002 fab light chain (23 kDa, Protein from Mus musculus)
- Anti-fab nanobody (14 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron Variant SPIKE trimer, all RBDs down
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 7wp9
Q-score: 0.377
SARS-CoV-2 Omicron Variant SPIKE trimer complexed with ACE2
Resolution: 2.77 Å
EM Method: Single-particle
Fitted PDBs: 7wpa
Q-score: 0.371
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant spike trimer complexed with ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ace2 (Complex)
- Zinc ion (65 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Angiotensin-converting enzyme 2 (92 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron variant spike (Complex from Homo sapiens)
SARS-CoV-2 Omicron Variant RBD complexed with ACE2
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 7wpb
Q-score: 0.599
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant rbd (Complex from Homo sapiens)
- Ace2 (Complex)
- Zinc ion (65 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Sars-cov-2 omicron variant rbd complexed with ace2 (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)
The second RBD of SARS-CoV-2 Omicron Variant in complexed with RBD-ACE2
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 7wpc
Q-score: 0.405
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- The second rbd of sars-cov-2 omicron variant in complexed with rbd-ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant rbd (Complex from Homo sapiens)
- Ace2 (Complex)
- Zinc ion (65 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Angiotensin-converting enzyme 2 (92 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)