Escherichia coli sigma 70-dependent paused transcription elongation complex
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7n4e
Q-score: 0.343
Pukhrambam C, Molodtsov V, Kooshkbaghi M, Tareen A, Vu H, Skalenko KS, Su M, Yin Z, Winkelman JT, Kinney JB, Ebright RH, Nickels BE
PNAS (2022) 119 pp. e2201301119-e2201301119 [ DOI: doi:10.1073/pnas.2201301119 Pubmed: 35653571 ]
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna (61-mer) (18 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna (61-mer) (18 kDa, DNA from synthetic construct)
- 5'-r(*up*up*cp*gp*gp*ap*gp*ap*gp*gp*up*a)-3' (3 kDa, RNA from synthetic construct)
- Escherichia coli sigma 70-dependent paused transcription elongation complex (Complex from Escherichia coli)
Escherichia coli RNA polymerase core enzyme
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 7mkp
Q-score: 0.335
Qayyum MZ, Molodtsov V, Renda A, Murakami KS
J Biol Chem (2021) 297 pp. 101404-101404 [ Pubmed: 34774797 DOI: doi:10.1016/j.jbc.2021.101404 ]
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Escherichia coli rna polymerase core enzyme (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
Escherichia coli RNA polymerase and RapA elongation complex
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7mkn
Q-score: 0.353
Qayyum MZ, Molodtsov V, Renda A, Murakami KS
J Biol Chem (2021) 297 pp. 101404-101404 [ Pubmed: 34774797 DOI: doi:10.1016/j.jbc.2021.101404 ]
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase-associated protein rapa (109 kDa, Protein from Escherichia coli (strain K12))
- 5'-o-[(s)-hydroxy{[(s)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine (481 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Dna (29-mer) (8 kDa, DNA from Escherichia coli K-12)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli (strain K12))
- Dna (29-mer) (8 kDa, DNA from Escherichia coli K-12)
- Escherichia coli rna polymerase and rapa elongation complex (Complex from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Rna (20-mer) (3 kDa, RNA from Escherichia coli K-12)
Escherichia coli RNA polymerase elongation complex
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 7mko
Q-score: 0.433
Qayyum MZ, Molodtsov V, Renda A, Murakami KS
J Biol Chem (2021) 297 pp. 101404-101404 [ Pubmed: 34774797 DOI: doi:10.1016/j.jbc.2021.101404 ]
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli (strain K12))
- 5'-o-[(s)-hydroxy{[(s)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine (481 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Dna (29-mer) (8 kDa, DNA from Escherichia coli K-12)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli (strain K12))
- Dna (29-mer) (8 kDa, DNA from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Escherichia coli rna polymerase elongation complex (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Rna (20-mer) (3 kDa, RNA from Escherichia coli K-12)
Escherichia coli RNA polymerase and RapA binary complex
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 7mkq
Q-score: 0.254
Qayyum MZ, Molodtsov V, Renda A, Murakami KS
J Biol Chem (2021) 297 pp. 101404-101404 [ Pubmed: 34774797 DOI: doi:10.1016/j.jbc.2021.101404 ]
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase-associated protein rapa (109 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (150 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Escherichia coli rna polymerase and rapa binary complex (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))