Cryo-EM structure of RNA polymerase I in complex with Rrn3 and Core Factor (Orientation III)
Resolution: 7.7 Å
EM Method: Single-particle
Fitted PDBs: 5n5y
Q-score: 0.136
Engel C, Gubbey T, Neyer S, Sainsbury S, Oberthuer C, Baejen C, Bernecky C, Cramer P
Cell (2017) 169 pp. 120-131.e22 [ Pubmed: 28340337 DOI: doi:10.1016/j.cell.2017.03.003 ]
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Baker's yeast)
- Core factor (220 kDa, Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i and iii subunit rpac2 (16 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- Rna polymerase i in complex with rrn3 and core factor (Complex)
- Rna polymerase i-specific transcription initiation factor rrn3 (72 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn6 (102 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerase i subunit rpa49 (46 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerase i subunit rpa34 (26 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerase i subunit rpa14 (14 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Baker's yeast)
- Rna polymerase i (590 kDa, Complex from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn7 (60 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerases i and iii subunit rpac1 (37 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerase i subunit rpa190 (186 kDa, Protein from Baker's yeast)
- Dna-directed rna polymerase i subunit rpa135 (135 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa43 (36 kDa, Protein from Baker's yeast)
- Initiation factor rrn3 (70 kDa, Complex from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn11 (59 kDa, Protein from Saccharomyces cerevisiae)
RNA polymerase I initially transcribing complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 5n61
Q-score: 0.343
Engel C, Gubbey T, Neyer S, Sainsbury S, Oberthuer C, Baejen C, Bernecky C, Cramer P
Cell (2017) 169 pp. 120-131.e22 [ Pubmed: 28340337 DOI: doi:10.1016/j.cell.2017.03.003 ]
- Non-template dna (12 kDa, DNA from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i and iii subunit rpac1 (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa14 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Template dna (13 kDa, DNA from Saccharomyces cerevisiae)
- Rna polymerase i (590 kDa, Complex from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn11 (59 kDa, Protein from Saccharomyces cerevisiae)
- Initiation factor rrn3 (70 kDa, Complex from Saccharomyces cerevisiae)
- Core factor (220 kDa, Complex from Saccharomyces cerevisiae)
- Rna polymerase i initially transcribing complex (950 kDa, Complex)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa135 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i and iii subunit rpac2 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Sulfate ion (96 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Product rna (1 kDa, RNA from Saccharomyces cerevisiae)
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa49 (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Rna polymerase i-specific transcription initiation factor rrn3 (72 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn7 (60 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase i-specific transcription initiation factor rrn6 (102 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa190 (186 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa34 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand from Saccharomyces cerevisiae)
- Dna-directed rna polymerase i subunit rpa43 (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Initial transcription dna/rna scaffold (60 kDa, Complex from Saccharomyces cerevisiae)
Yeast RNA polymerase I elongation complex at 3.8A
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 5m3f
Q-score: 0.383
Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS
Nature (2016) 540 pp. 607-610 [ DOI: doi:10.1038/nature20561 Pubmed: 27842382 ]
- Dna-directed rna polymerase i subunit rpa34 (26 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase i subunit rpa135 (135 kDa, Protein from Saccharomyces cerevisiae )
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Saccharomyces cerevisiae )
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa190 (186 kDa, Protein from Saccharomyces cerevisiae )
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae)
- Sulfate ion (96 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa43 (36 kDa, Protein from Saccharomyces cerevisiae )
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae )
- Dna-directed rna polymerases i and iii subunit rpac2 (16 kDa, Protein from Saccharomyces cerevisiae)
- Non-template dna (12 kDa, DNA from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (11 kDa, DNA from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i and iii subunit rpac1 (37 kDa, Protein from Saccharomyces cerevisiae )
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae )
- Rna (6 kDa, RNA from Saccharomyces cerevisiae)
- Dna-directed rna polymerase i subunit rpa49 (46 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase i subunit rpa14 (14 kDa, Protein from Saccharomyces cerevisiae)
- Yeast rna polymerase i elongation complex (590 kDa, Complex from Saccharomyces cerevisiae)
Free monomeric RNA polymerase I at 4.0A resolution
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 5m3m
Q-score: 0.309
Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS
Nature (2016) 540 pp. 607-610 [ DOI: doi:10.1038/nature20561 Pubmed: 27842382 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i and iii subunit rpac1 (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa14 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa190 (186 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa49 (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa34 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase i subunit rpa135 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i and iii subunit rpac2 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa43 (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Sulfate ion (96 Da, Ligand)
- Yeast rna polymerase i elongation complex (590 kDa, Complex from Saccharomyces cerevisiae)