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CryoEM structure of bacterial transcription intermediate complex mediated by activator PspF
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7qv9
Q-score: 0.323
Ye F, Gao F, Liu X, Buck M, Zhang X
Sci Adv (2022) 8 pp. eadd3479-eadd3479 [ Pubmed: 36542713 DOI: doi:10.1126/sciadv.add3479 ]
- Non-template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Bacterial transcription intermediate complex mediated by pspf activator protein (710 kDa, Complex)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Transcription activator pspf (33 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Aluminum fluoride (83 Da, Ligand)
- Rna polymerase sigma-54 factor (53 kDa, Protein from Klebsiella pneumoniae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
CryoEM structure of bacterial transcription close complex (RPc)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7qwp
Q-score: 0.378
Ye F, Gao F, Liu X, Buck M, Zhang X
Sci Adv (2022) 8 pp. eadd3479-eadd3479 [ Pubmed: 36542713 DOI: doi:10.1126/sciadv.add3479 ]
- Rna polymerase sigma-54 factor (56 kDa, Protein from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Cryo-em structure of rna polymerase-sigma54 holo enzyme with promoter dna closed complex (500 kDa, Complex)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Non-template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
Cryo-EM structure of RNA polymerase-sigma54 holo enzyme with promoter DNA closed complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7qxi
Q-score: 0.364
Ye F, Gao F, Liu X, Buck M, Zhang X
Sci Adv (2022) 8 pp. eadd3479-eadd3479 [ Pubmed: 36542713 DOI: doi:10.1126/sciadv.add3479 ]
- Template dna promoter (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Template dna promoter (19 kDa, DNA from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunits alpha, beta, beta' and omega (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Non-template promoter dna (Complex from Klebsiella pneumoniae)
- Cryo-em structure of rna polymerase-sigma54 holo enzyme with promoter dna closed complex (500 kDa, Complex)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Non-template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor (56 kDa, Protein from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
Structures of class II bacterial transcription complexes
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7bef
Q-score: 0.229
Hao M, Ye F, Jovanovic M, Kotta-Loizou I, Xu Q, Qin X, Buck M, Zhang X, Wang M
Adv Sci (2022) 9 pp. e2103669-e2103669 [ DOI: doi:10.1002/advs.202103669 Pubmed: 34761556 ]
- Transcriptional activator rama and pmicf promoter dnas (Complex from Klebsiella pneumoniae)
- Transcriptional activator rama (15 kDa, Protein from Klebsiella pneumoniae)
- Rna polymerase sigma factor rpod (72 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Pmicf promoter non-template dna (22 kDa, DNA from Klebsiella pneumoniae)
- Dna-directed rna polymerase (Complex from Escherichia coli K-12)
- Class ii transcription complex (560 kDa, Complex)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Pmicf promoter template dna (22 kDa, DNA from Klebsiella pneumoniae)
Structures of class I bacterial transcription complexes
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7beg
Q-score: 0.221
Hao M, Ye F, Jovanovic M, Kotta-Loizou I, Xu Q, Qin X, Buck M, Zhang X, Wang M
Adv Sci (2022) 9 pp. e2103669-e2103669 [ DOI: doi:10.1002/advs.202103669 Pubmed: 34761556 ]
- Class i pacra promoter template dna (28 kDa, DNA from Klebsiella pneumoniae)
- Rna polymerase sigma factor rpod (72 kDa, Protein from Escherichia coli)
- Transcriptional activator rama (15 kDa, Protein from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase (Complex from Escherichia coli)
- Class i transcription complex (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Class i pacra promoter non-template dna (29 kDa, DNA from Klebsiella pneumoniae)
- Class i transcription complex (600 kDa, Complex)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
Cryo-EM structure of bacterial RNA polymerase-sigma54 holoenzyme transcription open complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6gh5
Q-score: 0.412
Glyde R, Ye F, Jovanovic M, Kotta-Loizou I, Buck M, Zhang X
Mol Cell (2018) 70 pp. 1111-1120.e3 [ DOI: doi:10.1016/j.molcel.2018.05.021 Pubmed: 29932903 ]
- Rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor (54 kDa, Protein from Klebsiella pneumoniae)
- Dna (Complex from Klebsiella pneumoniae)
- Nifh promoter template dna (19 kDa, DNA from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Cryo-em structure of bacterial rna polymerase-sigma54 holoenzyme transcription open complex (490 kDa, Complex)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Nifh promoter non-template dna (19 kDa, DNA from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor (Complex from Klebsiella pneumoniae)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6gh6
Q-score: 0.288
Glyde R, Ye F, Jovanovic M, Kotta-Loizou I, Buck M, Zhang X
Mol Cell (2018) 70 pp. 1111-1120.e3 [ DOI: doi:10.1016/j.molcel.2018.05.021 Pubmed: 29932903 ]
- Nifh promoter non-tmeplate dna (19 kDa, DNA from Klebsiella pneumoniae)
- Dna (Complex from Klebsiella pneumoniae)
- Nifh promoter template dna (19 kDa, DNA from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor (54 kDa, Protein from Klebsiella pneumoniae)
- Rna polymerase (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
- Sigma factor 54, (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Cryo-em structure of bacterial rna polymerase-sigma54 holoenzyme intermediate partially loaded complex (490 kDa, Complex)
Cryo-EM structure of bacterial RNA polymerase-sigma54 holoenzyme initial transcribing complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6gfw
Q-score: 0.372
Glyde R, Ye F, Jovanovic M, Kotta-Loizou I, Buck M, Zhang X
Mol Cell (2018) 70 pp. 1111-1120.e3 [ DOI: doi:10.1016/j.molcel.2018.05.021 Pubmed: 29932903 ]
- Rna polymerase sigma-54 factor (54 kDa, Protein from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- De novo dna (Complex from Escherichia coli K-12)
- Cryo-em structure of bacterial rna polymerase-sigma54 holoenzyme initial transcribing complex (490 kDa, Complex)
- Nifh promoter template dna (19 kDa, DNA from Klebsiella pneumoniae)
- Nifh promoter non-template dna (19 kDa, DNA from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- De novo synthesized rna (1 kDa, RNA from Escherichia coli K-12)
- Dna-directed rna polymerase (Complex from Escherichia coli K-12)
- Promoter dna (Complex from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
Cryo-EM structure of RNA polymerase-sigma54 holo enzyme with promoter DNA closed complex
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 5nsr
Q-score: 0.289
Glyde R, Ye F, Darbari VC, Zhang N, Buck M, Zhang X
Mol Cell (2017) 67 pp. 106-116.e4 [ DOI: doi:10.1016/j.molcel.2017.05.010 Pubmed: 28579332 ]
- Template dna promoter (19 kDa, DNA from Klebsiella pneumoniae)
- Escherichia coli core rna polymerase (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Non-template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Sigma-54 transcription initiation factor (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor (62 kDa, Protein from Klebsiella pneumoniae)
- Cryo-em structure of rna polymerase-sigma54 holo enzyme with promoter dna closed complex (Complex)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
- Sigma-54 promoter dna (Complex from Klebsiella pneumoniae)
Resolution: 5.8 Å
EM Method: Single-particle
Fitted PDBs: 5nss
Q-score: 0.142
Glyde R, Ye F, Darbari VC, Zhang N, Buck M, Zhang X
Mol Cell (2017) 67 pp. 106-116.e4 [ DOI: doi:10.1016/j.molcel.2017.05.010 Pubmed: 28579332 ]
- Escherichia coli core rna polymerase (Complex from Escherichia coli K-12)
- Template promoter dna (19 kDa, DNA from Klebsiella pneumoniae)
- Rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor rpon,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor,rna polymerase sigma-54 factor (62 kDa, Protein from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta',dna-directed rna polymerase subunit beta',dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli K-12)
- Sigma-54 transcription initiation factor (Complex from Klebsiella pneumoniae)
- Pspf transcriptional activator (Complex from Escherichia coli K-12)
- Cryo-em structure of rna polymerase -sigma54 holoenzyme with promoter dna and transcription activator pspf (Complex)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Non-template promoter dna (19 kDa, DNA from Escherichia coli K-12)
- Sigma-54 promoter dna (Complex from Klebsiella pneumoniae)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
- Psp operon transcriptional activator (33 kDa, Protein from Escherichia coli K-12)