Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8sq9
Q-score: 0.528
Small GI, Fedorova O, Olinares PDB, Chandanani J, Banerjee A, Choi YJ, Molina H, Chait BT, Darst SA, Campbell EA
Mol Cell (2023) 83 pp. 3921-3930.e7 [ Pubmed: 37890482 DOI: doi:10.1016/j.molcel.2023.10.001 ]
- Non-structural protein 9 (12 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Template rna (17 kDa, RNA from Severe acute respiratory syndrome coronavirus)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Primer rna (11 kDa, RNA from Severe acute respiratory syndrome coronavirus)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Sars-cov-2 replication-transcription complex bound to nsp9 and umpcpp, as a pre-catalytic nmpylation intermediate (Complex from Severe acute respiratory syndrome coronavirus 2)
- 5'-o-[(s)-hydroxy{[(s)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]uridine (482 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8sqj
Q-score: 0.511
Small GI, Fedorova O, Olinares PDB, Chandanani J, Banerjee A, Choi YJ, Molina H, Chait BT, Darst SA, Campbell EA
Mol Cell (2023) 83 pp. 3921-3930.e7 [ Pubmed: 37890482 DOI: doi:10.1016/j.molcel.2023.10.001 ]
- Non-structural protein 9 (12 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Template rna (17 kDa, RNA from Severe acute respiratory syndrome coronavirus)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 replication-transcription complex bound to rna-nsp9, as a noncatalytic rna-nsp9 binding mode (Complex from Severe acute respiratory syndrome coronavirus 2)
- 5'-o-[(r)-hydroxy(thiophosphonooxy)phosphoryl]guanosine (459 Da, Ligand)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Sars-cov-2 5' utr (6 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Primer rna (11 kDa, RNA from Severe acute respiratory syndrome coronavirus)
- Water (18 Da, Ligand)
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 8sqk
Q-score: 0.533
Small GI, Fedorova O, Olinares PDB, Chandanani J, Banerjee A, Choi YJ, Molina H, Chait BT, Darst SA, Campbell EA
Mol Cell (2023) 83 pp. 3921-3930.e7 [ Pubmed: 37890482 DOI: doi:10.1016/j.molcel.2023.10.001 ]
- Non-structural protein 9 (12 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Sars-cov-2 replication-transcription complex bound to rna-nsp9 and gdp-betas, as a pre-catalytic dernaylation/mrna capping intermediate (Complex from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna-directed rna polymerase nsp12 (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Primer rna (10 kDa, RNA from Severe acute respiratory syndrome coronavirus)
- 5'-o-[(r)-hydroxy(thiophosphonooxy)phosphoryl]guanosine (459 Da, Ligand)
- Non-structural protein 8 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Sars-cov-2 5' utr (6 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Water (18 Da, Ligand)
- Template rna (11 kDa, RNA from Severe acute respiratory syndrome coronavirus)
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Aluminum fluoride (83 Da, Ligand)
- Helicase (67 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- Rna-directed rna polymerase (106 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 replication/transcription complex bound to nsp13 helicase - nsp13(2)-rtc (Complex from Severe acute respiratory syndrome coronavirus 2)
- Magnesium ion (24 Da, Ligand)
- Product rna (11 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)
- Template rna (17 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
Escherichia coli RNA polymerase closed complex (TRPc) with TraR and rpsT P2 promoter
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6psq
Q-score: 0.479
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Zinc ion (65 Da, Ligand)
- 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 (85-mer) (26 kDa, DNA from Escherichia coli)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Escherichia coli sigma70-holoenzyme bound to trar and wildtype rpst p2 as trpc (Complex from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Chapso (631 Da, Ligand)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6psr
Q-score: 0.48
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Zinc ion (65 Da, Ligand)
- 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 (85-mer) (26 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Escherichia coli sigma70-holoenzyme bound to trar and wildtype rpst p2 as trpi1 (Complex from Escherichia coli)
- Chapso (631 Da, Ligand)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6pss
Q-score: 0.446
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Zinc ion (65 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA 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)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Escherichia coli sigma70-holoenzyme bound to trar and mutant rpst p2 as trpi1.5a (Complex from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6pst
Q-score: 0.514
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA 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)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Escherichia coli sigma70-holoenzyme bound to trar and mutant rpst p2 as trpi1.5b (Complex from Escherichia coli)
- Chapso (631 Da, Ligand)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6psu
Q-score: 0.426
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Chapso (631 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Escherichia coli sigma70-holoenzyme bound to trar and wildtype rpst p2 as trpi2 (Complex from Escherichia coli)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6psv
Q-score: 0.468
Chen J, Chiu C, Gopalkrishnan S, Chen AY, Olinares PDB, Saecker RM, Winkelman JT, Maloney MF, Chait BT, Ross W, Gourse RL, Campbell EA, Darst SA
Mol Cell (2020) 78 pp. 275- [ Pubmed: 32160514 DOI: doi:10.1016/j.molcel.2020.02.017 ]
- Zinc ion (65 Da, Ligand)
- Escherichia coli sigma70-holoenzyme bound to trar and wildtype rpst p2 as tprerpo (Complex 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 (85-mer) (26 kDa, DNA from Escherichia coli)
- Protein trar (8 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Chapso (631 Da, Ligand)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)