Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8att
Q-score: 0.418
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Mitochondrial transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-template dna (33-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpupa) (935 Da, RNA from Saccharomyces cerevisiae S288C)
- Dna (33-mer) (Complex from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Template dna (33-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
- Yeast mitochondrial rna polymerase transcription initiation complex with 4-mer rna, pppgpgpupa (ic4) (143 kDa, Complex)
- Rna (pppgpgpupa) (Complex from Saccharomyces cerevisiae S288C)
Resolution: 3.39 Å
EM Method: Single-particle
Fitted PDBs: 8atv
Q-score: 0.501
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Mitochondrial transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Dna (36-mer) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpapapa) (1 kDa, RNA from Saccharomyces cerevisiae S288C)
- Dna (36-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Dna (36-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Rna (pppgpgpapapa) (Complex from Saccharomyces cerevisiae S288C)
- Yeast mitochondrial rna polymerase transcription initiation complex with 5-mer rna, pppgpgpapapa (ic5) (143 kDa, Complex)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 8atw
Q-score: 0.447
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Mitochondria transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpapapapu) (1 kDa, RNA from Saccharomyces cerevisiae S288C)
- Template dna (36-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Dna (36-mer) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpapapapu) (Complex from Saccharomyces cerevisiae S288C)
- Non-template dna (36-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Yeast mitochondrial rna polymerase transcription initiation complex with 6-mer rna, pppgpgpapapapu (ic6) (143 kDa, Complex)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
Resolution: 3.75 Å
EM Method: Single-particle
Fitted PDBs: 8c5s
Q-score: 0.453
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Rna (pppgpgpupapapapu) (Complex from Saccharomyces cerevisiae S288C)
- Yeast mitochondrial rna polymerase transcription initiation complex with 7-mer rna, pppgpgpupapapapu (ic7) (204 kDa, Complex)
- Rna (pppgpgpupapapapu) (1 kDa, RNA from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Non-template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dna (37-mer) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 8c5u
Q-score: 0.446
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Mitochondrial transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpupapapapupg) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Yeast mitochondrial rna polymerase transcription initiation complex with 8-mer rna, pppgpgpupapapapupg (ic8) (204 kDa, Complex)
- Rna (pppgpgpupapapapupg) (2 kDa, RNA from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dna (37-mer) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
- Non-template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
Resolution: 3.68 Å
EM Method: Single-particle
Fitted PDBs: 8q63
Q-score: 0.398
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Mitochondrial transcription factor 1 (Complex from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpupapapapupg) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Rna (pppgpgpupapapapupg) (2 kDa, RNA from Saccharomyces cerevisiae S288C)
- Alternate state of yeast mitochondrial rna polymerase transcription initiation complex with 8-mer rna, pppgpgpupapapapupg, and a wider polymerase cleft (ic8') (204 kDa, Complex from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Template dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dna (37-mer) (Complex from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase, mitochondrial (Complex from Saccharomyces cerevisiae S288C)
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 8ap1
Q-score: 0.518
Goovaerts Q, Shen J, De Wijngaert B, Basu U, Patel SS, Das K
Nature (2023) 622 pp. 872-879 [ DOI: doi:10.1038/s41586-023-06643-y Pubmed: 37821701 ]
- Yeast mitochondrial rna polymerase transcription initiation complex with two gtp molecules poised for de novo initiation (ic2) (143 kDa, Complex)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-template dna (33-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Dna (33-mer) (Complex from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (Cellular component from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae S288C)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dna-directed rna polymerase, mitochondrial (Cellular component from Saccharomyces cerevisiae S288C)
- Template dna (33-mer) (10 kDa, DNA from Saccharomyces cerevisiae S288C)
Cryo-EM structure of yeast mitochondrial RNA polymerase transcription initiation complex
Resolution: 3.71 Å
EM Method: Single-particle
Fitted PDBs: 6ymw
Q-score: 0.41
De Wijngaert B, Sultana S, Singh A, Dharia C, Vanbuel H, Shen J, Vasilchuk D, Martinez SE, Kandiah E, Patel SS, Das K
Mol Cell (2021) 81 pp. 268- [ DOI: doi:10.1016/j.molcel.2020.11.016 Pubmed: 33278362 ]
- Mitochondria dna-dependent rna polymerase pre-initiation complex (Complex from Saccharomyces cerevisiae)
- Rna (pppgpg) (805 Da, RNA from synthetic construct)
- Dna (Complex from Saccharomyces cerevisiae)
- Chains: n (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Chains: t (10 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mitochondria dna-dependent rna polymerase pre-initiation complex (202 kDa, Complex)
- [[(2~{r},3~{s},4~{r},5~{r})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphoryl] phosphono hydrogen phosphate (500 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rna (pppgpg) (Complex from synthetic construct)
Cryo-EM structure of yeast mitochondrial RNA polymerase transcription pre-initiation complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6ymv
Q-score: 0.536
De Wijngaert B, Sultana S, Singh A, Dharia C, Vanbuel H, Shen J, Vasilchuk D, Martinez SE, Kandiah E, Patel SS, Das K
Mol Cell (2021) 81 pp. 268- [ DOI: doi:10.1016/j.molcel.2020.11.016 Pubmed: 33278362 ]
- Dna (33-mer) template (10 kDa, DNA from Saccharomyces cerevisiae)
- Dna (Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerase, mitochondrial (143 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mitochondrial transcription factor 1 (41 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mitochondria dna-dependent rna polymerase pre-initiation complex (202 kDa, Complex)
- Mitochondria dna-dependent rna polymerase pre-initiation complex (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (33-mer) non-template (10 kDa, DNA from Saccharomyces cerevisiae)