Cryo-EM structure of SARS-CoV-2 spike in complex with antibodies B1-182.1 and A19-61.1
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 7tb8
Q-score: 0.41
Zhou T, Wang L, Misasi J, Pegu A, Zhang Y, Harris DR, Olia AS, Talana CA, Yang ES, Chen M, Choe M, Shi W, Teng IT, Creanga A, Jenkins C, Leung K, Liu T, Stancofski ED, Stephens T, Zhang B, Tsybovsky Y, Graham BS, Mascola JR, Sullivan NJ, Kwong PD
Science (2022) 376 pp. eabn8897-eabn8897 [ Pubmed: 35324257 DOI: doi:10.1126/science.abn8897 ]
- The light chain of sars-cov-2 antibody b1-182.1 (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- The light chain of sars-cov-2 antibody a19-61.1 (11 kDa, Protein from Homo sapiens)
- The heavy chain of sars-cov-2 antibody a19-61.1 (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike in complex with antibodies b1-182.1 and a19-61.1 (570 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (132 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- The heavy chain of sars-cov-2 antiboddy antibody b1-182.1 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV-2 Omicron spike in complex with antibody A19-46.1
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 7tca
Q-score: 0.282
Zhou T, Wang L, Misasi J, Pegu A, Zhang Y, Harris DR, Olia AS, Talana CA, Yang ES, Chen M, Choe M, Shi W, Teng IT, Creanga A, Jenkins C, Leung K, Liu T, Stancofski ED, Stephens T, Zhang B, Tsybovsky Y, Graham BS, Mascola JR, Sullivan NJ, Kwong PD
Science (2022) 376 pp. eabn8897-eabn8897 [ Pubmed: 35324257 DOI: doi:10.1126/science.abn8897 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Heavy chain of antibody a19-46.1 (24 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike in complex with antibody a19-46.1 (570 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of antibody a19-46.1 (22 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM structure of SARS-CoV-2 Omicron spike in complex with antibodies A19-46.1 and B1-182.1
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 7tcc
Q-score: 0.268
Zhou T, Wang L, Misasi J, Pegu A, Zhang Y, Harris DR, Olia AS, Talana CA, Yang ES, Chen M, Choe M, Shi W, Teng IT, Creanga A, Jenkins C, Leung K, Liu T, Stancofski ED, Stephens T, Zhang B, Tsybovsky Y, Graham BS, Mascola JR, Sullivan NJ, Kwong PD
Science (2022) 376 pp. eabn8897-eabn8897 [ Pubmed: 35324257 DOI: doi:10.1126/science.abn8897 ]
- Light chain of antibody a19-46.1 (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike in complex with antibodies b1-182.1 and a19-46.1 (570 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of antibody b1-182.1 (13 kDa, Protein from Homo sapiens)
- Heavy chain of antibody a19-46.1 (14 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of antibody b1-182.1 (11 kDa, Protein from Homo sapiens)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6xh7
Q-score: 0.344
Shi W, Zhang B, Jiang Y, Liu C, Zhou W, Chen M, Yang Y, Hu Y, Liu B
iScience (2021) 24 pp. 102449-102449 [ DOI: doi:10.1016/j.isci.2021.102449 Pubmed: 34113812 ]
- Rna polymerase sigma factor rpod (72 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Template strand dna (54-mer) (16 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Cuer-tac without rna (530 kDa, Complex from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Copper (ii) ion (63 Da, Ligand)
- Nontemplate strand dna (54-mer) (16 kDa, DNA from Escherichia coli)
- Hth-type transcriptional regulator cuer (16 kDa, Protein from Escherichia coli)
CueR-transcription activation complex with RNA transcript
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6xh8
Q-score: 0.318
Shi W, Zhang B, Jiang Y, Liu C, Zhou W, Chen M, Yang Y, Hu Y, Liu B
iScience (2021) 24 pp. 102449-102449 [ DOI: doi:10.1016/j.isci.2021.102449 Pubmed: 34113812 ]
- Rna polymerase sigma factor rpod (72 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Template strand dna (54-mer) (16 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Cuer-tac with rna (540 kDa, Complex from Escherichia coli)
- Nascent rna (1 kDa, RNA from Escherichia coli)
- Copper (ii) ion (63 Da, Ligand)
- Nontemplate strand dna (54-mer) (16 kDa, DNA from Escherichia coli)
- Hth-type transcriptional regulator cuer (16 kDa, Protein from Escherichia coli)
Cryo-EM structure of EcmrR-RNAP-promoter open complex (EcmrR-RPo)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6xl5
Q-score: 0.541
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Ecmrr-rnap-promoter open complex (ecmrr-rpo) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Water (18 Da, Ligand)
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6xl9
Q-score: 0.517
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Water (18 Da, Ligand)
- Rna (5'-d(*(gtp))-r(p*ap*g)-3') (1 kDa, RNA from Escherichia coli O157:H7)
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Ecmrr-rnap-promoter initial transcribing complex with 3-nt rna transcript (ecmrr-rpitc-3nt) (Complex from Escherichia coli O157:H7)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6xlj
Q-score: 0.512
Yang Y, Liu C, Zhou W, Shi W, Chen M, Zhang B, Schatz DG, Hu Y, Liu B
Nat Commun (2021) 12 pp. 2702-2702 [ DOI: doi:10.1038/s41467-021-22990-8 Pubmed: 33976201 ]
- Synthetic template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli O157:H7)
- Zinc ion (65 Da, Ligand)
- Ecmrr-rnap-promoter initial transcribing complex with 4-nt rna transcript (ecmrr-rpitc-4nt) (Complex from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli O157:H7)
- Tetraphenylantimonium ion (430 Da, Ligand)
- Merr family transcriptional regulator ecmrr (31 kDa, Protein from Escherichia coli O157:H7)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli O157:H7)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli O157:H7)
- Rna (5'-d(*(gtp))-r(p*cp*ap*g)-3') (1 kDa, RNA from Escherichia coli O157:H7)
- Magnesium ion (24 Da, Ligand)
- Synthetic non-template strand dna (54-mer) (16 kDa, DNA from Escherichia coli O157:H7)
- Chapso (631 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli O157:H7)