The structure of MPXV polymerase holoenzyme in replicating state
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8hg1
Q-score: 0.486
Peng Q, Xie Y, Kuai L, Wang H, Qi J, Gao GF, Shi Y
Science (2023) 379 pp. 100-105 [ Pubmed: 36520947 DOI: doi:10.1126/science.ade6360 ]
- Mpxv dna polymerase holoenzyme (Complex from Monkeypox virus)
- Dna polymerase (119 kDa, Protein from Monkeypox virus)
- Dna (25-mer) (7 kDa, DNA from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Dna (38-mer) (11 kDa, DNA from Monkeypox virus)
- E4r (25 kDa, Protein from Monkeypox virus)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
Cryo-EM structure of SARS-CoV-2 Omicron spike protein (S-6P-RRAR) in complex with S309 fab
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7xco
Q-score: 0.433
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Sars-cov-2 omicron spike protein (Complex from Homo sapiens)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S309 fab (Complex)
- S309 fab heavy chain (24 kDa, Protein from Homo sapiens)
- S309 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with s309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 7y9z
Q-score: 0.365
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ Pubmed: 36002453 DOI: doi:10.1038/s41467-022-32665-7 ]
- Spike glycoprotein (139 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with human ace2 ectodomain (one-rbd-up state) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (Complex)
- Spike glycoprotein (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ya0
Q-score: 0.327
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ Pubmed: 36002453 DOI: doi:10.1038/s41467-022-32665-7 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cryo-em structure of hace2-bound sars-cov-2 omicron spike protein with l371s, p373s and f375s mutations (local refinement) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (Complex)
- Spike glycoprotein (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7xch
Q-score: 0.31
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Sars-cov-2 omicron spike protein (Complex from Homo sapiens)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ace2 ectodomain (Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron spike protein in complex with human ace2 ectodomain (two-rbd-up state) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 Omicron RBD in complex with human ACE2 ectodomain (local refinement)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xci
Q-score: 0.478
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Cryo-em structure of sars-cov-2 omicron rbd in complex with human ace2 ectodomain(local refinement) (Complex from Homo sapiens)
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex)
- Zinc ion (65 Da, Ligand)
- Spike glycoprotein (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Omicron RBD in complex with S309 fab (local refinement)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7xck
Q-score: 0.548
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958- [ DOI: doi:10.1038/s41467-022-32665-7 ]
- S309 heavy chain (24 kDa, Protein from Homo sapiens)
- Cryo-em structure of sars-cov-2 omicron rbd in complex with s309 fab (local refinement) (Complex from Homo sapiens)
- S309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s1 (30 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S309 light chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron rbd (Complex)
Cryo-EM structure of Omicron RBD complexed with ACE2 and 304 Fab
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7xcp
Q-score: 0.457
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ DOI: doi:10.1038/s41467-022-32665-7 ]
- Lignt chain of 304 fab (23 kDa, Protein from Homo sapiens)
- Omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ace2 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryoem structure of omicron rbd complexed with ace2 and 304 fab (Complex)
- 304 fab (Complex from Homo sapiens)
- Heavy chain of 304 fab (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of apo SARS-CoV-2 Omicron spike protein (S-2P-GSAS)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7y9s
Q-score: 0.457
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 7ya1
Q-score: 0.492
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun (2022) 13 pp. 4958-4958 [ Pubmed: 36002453 DOI: doi:10.1038/s41467-022-32665-7 ]
- Hace2 (Complex)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron spike protein (Complex from Homo sapiens)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Cryo-em structure of hace2-bound sars-cov-2 omicron spike protein with l371s, p373s and f375s mutations (local refinement) (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Zinc ion (65 Da, Ligand)