Resolution: 3.38 Å
EM Method: Single-particle
Fitted PDBs: 7uo4
Q-score: 0.457
Malone BF, Perry JK, Olinares PDB, Lee HW, Chen J, Appleby TC, Feng JY, Bilello JP, Ng H, Sotiris J, Ebrahim M, Chua EYD, Mendez JH, Eng ET, Landick R, Gotte M, Chait BT, Campbell EA, Darst SA
Nature (2023) 614 pp. 781-787 [ DOI: doi:10.1038/s41586-022-05664-3 Pubmed: 36725929 ]
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Sars-cov-2 replication-transcription complex (Complex from Severe acute respiratory syndrome coronavirus 2)
- Product rna (35-mer) (11 kDa, RNA from synthetic construct)
- Water (18 Da, Ligand)
- [[(2~{r},3~{s},4~{r},5~{r})-5-(4-azanylpyrrolo[2,1-f][1,2,4]triazin-7-yl)-5-cyano-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (531 Da, Ligand)
- Template rna (55-mer) (17 kDa, RNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 replication-transcription complex bound to UTP, in a pre-catalytic state.
Resolution: 3.13 Å
EM Method: Single-particle
Fitted PDBs: 7uo9
Q-score: 0.487
Malone BF, Perry JK, Olinares PDB, Lee HW, Chen J, Appleby TC, Feng JY, Bilello JP, Ng H, Sotiris J, Ebrahim M, Chua EYD, Mendez JH, Eng ET, Landick R, Gotte M, Chait BT, Campbell EA, Darst SA
Nature (2023) 614 pp. 781-787 [ Pubmed: 36725929 DOI: doi:10.1038/s41586-022-05664-3 ]
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 replication-transcription complex + utp (Complex from Severe acute respiratory syndrome coronavirus 2)
- Uridine 5'-triphosphate (484 Da, Ligand)
- Water (18 Da, Ligand)
- Product rna (35-mer) (11 kDa, RNA from synthetic construct)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Template rna (55-mer) (17 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 replication-transcription complex bound to GTP, in a pre-catalytic state
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7uob
Q-score: 0.548
Malone BF, Perry JK, Olinares PDB, Lee HW, Chen J, Appleby TC, Feng JY, Bilello JP, Ng H, Sotiris J, Ebrahim M, Chua EYD, Mendez JH, Eng ET, Landick R, Gotte M, Chait BT, Campbell EA, Darst SA
Nature (2023) 614 pp. 781-787 [ Pubmed: 36725929 DOI: doi:10.1038/s41586-022-05664-3 ]
- 3'-deoxyuridine-5'-monophosphate (308 Da, Ligand)
- Product rna (35-mer) (11 kDa, RNA from synthetic construct)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Water (18 Da, Ligand)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Sars-cov-2 replication-transcription complex + gtp (Complex from Severe acute respiratory syndrome coronavirus 2)
- Template rna (55-mer) (17 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 replication-transcription complex bound to CTP, in a pre-catalytic state
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 7uoe
Q-score: 0.523
Malone BF, Perry JK, Olinares PDB, Lee HW, Chen J, Appleby TC, Feng JY, Bilello JP, Ng H, Sotiris J, Ebrahim M, Chua EYD, Mendez JH, Eng ET, Landick R, Gotte M, Chait BT, Campbell EA, Darst SA
Nature (2023) 614 pp. 781-787 [ DOI: doi:10.1038/s41586-022-05664-3 Pubmed: 36725929 ]
- Product rna (35-mer) (11 kDa, RNA from synthetic construct)
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Cytidine-5'-triphosphate (483 Da, Ligand)
- Template rna (55-mer) (17 kDa, RNA from synthetic construct)
- Sars-cov-2 replication-transcription complex + ctp (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- 3'-deoxyuridine-5'-monophosphate (308 Da, Ligand)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
cryo-EM structure of HK022 putRNA-associated E.coli RNA polymerase elongation complex
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 7xue
Q-score: 0.476
Hwang S, Olinares PDB, Lee J, Kim J, Chait BT, King RA, Kang JY
Nat Commun (2022) 13 pp. 4668-4668 [ DOI: doi:10.1038/s41467-022-32315-y Pubmed: 35970830 ]
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Template dna (54 kDa, DNA from Shamshuipovirus HK022)
- Zinc ion (65 Da, Ligand)
- Rna (nun gene and immunity region) (30 kDa, RNA from Shamshuipovirus HK022)
- Non-template dna (54 kDa, DNA from Shamshuipovirus HK022)
- Magnesium ion (24 Da, Ligand)
- Dna/rna (Complex)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase (Complex from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Hk022 putrna-associated e.coli rna polymerase elongation complex (440 kDa, Complex)
cryo-EM structure of HK022 putRNA-less E.coli RNA polymerase elongation complex
Resolution: 3.57 Å
EM Method: Single-particle
Fitted PDBs: 7xug
Q-score: 0.446
Hwang S, Olinares PDB, Lee J, Kim J, Chait BT, King RA, Kang JY
Nat Commun (2022) 13 pp. 4668-4668 [ DOI: doi:10.1038/s41467-022-32315-y Pubmed: 35970830 ]
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Template dna (54 kDa, DNA from Shamshuipovirus HK022)
- E.coli rna polymerase (Complex from Escherichia coli (strain K12))
- Hk022 putrna-less e.coli rna polymerase elongation complex (440 kDa, Complex)
- Zinc ion (65 Da, Ligand)
- Rna (nun gene and immunity region) (30 kDa, RNA from Shamshuipovirus HK022)
- Non-template dna (54 kDa, DNA from Shamshuipovirus HK022)
- Magnesium ion (24 Da, Ligand)
- Dna/rna (Complex)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
Cryo-EM structure of sigma70 bound HK022 putRNA-associated E.coli RNA polymerase elongation complex
Resolution: 3.61 Å
EM Method: Single-particle
Fitted PDBs: 7xui
Q-score: 0.416
Hwang S, Olinares PDB, Lee J, Kim J, Chait BT, King RA, Kang JY
Nat Commun (2022) 13 pp. 4668-4668 [ DOI: doi:10.1038/s41467-022-32315-y Pubmed: 35970830 ]
- Sigma70 bound hk022 putrna-associated e.coli rna polymerase elongation complex (510 kDa, Complex)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli K-12)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli K-12)
- Template dna (54 kDa, DNA from Shamshuipovirus HK022)
- Rna (122-mer) (39 kDa, RNA from Shamshuipovirus HK022)
- Zinc ion (65 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dna/rna (Complex)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
- Rna polymerase (Complex from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
Structure of SARS-CoV-2 replication-transcription complex bound to nsp13 helicase - nsp13(2)-RTC
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6xez
Q-score: 0.41
Chen J, Malone B, Llewellyn E, Grasso M, Shelton PMM, Olinares PDB, Maruthi K, Eng ET, Vatandaslar H, Chait BT, Kapoor TM, Darst SA, Campbell EA
Cell (2020) 182 pp. 1560-1573.e13 [ Pubmed: 32783916 DOI: doi:10.1016/j.cell.2020.07.033 ]
- Helicase (67 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Aluminum fluoride (83 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Template rna (17 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Chapso (631 Da, Ligand)
- Non-structural protein 8 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Product rna (11 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Sars-cov-2 replication/transcription complex bound to nsp13 helicase - nsp13(2)-rtc (Complex from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)