Mediator-RNA Polymerase II Pre-Initiation Complex Delta Mediator Tail (Focused Refinement)
Resolution: 15.3 Å
EM Method: Single-particle
Fitted PDBs: 5sva
Q-score: 0.049
Robinson PJ, Trnka MJ, Bushnell DA, Davis RE, Mattei PJ, Burlingame AL, Kornberg RD
Cell (2016) 166 pp. 1411-1422.e16 [ Pubmed: 27610567 DOI: doi:10.1016/j.cell.2016.08.050 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from yeast)
- Transcription initiation factor iia large subunit (Protein from Saccharomyces cerevisiae)
- Transcription factor tfiie subunit tfa1 (Protein from Saccharomyces cerevisiae)
- Dna repair helicase rad3 (Protein from yeast)
- Transcription factor tfiie subunit tfa2 (Protein from Saccharomyces cerevisiae)
- Rna polymerase ii transcription factor b subunit 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 19 (Protein from yeast)
- Tata-box-binding protein (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 9 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 11 (Protein from yeast)
- Mediator-rna polymerase ii pre-initiation complex delta mediator tail (1 MDa, Complex)
- Transcription initiation factor iif subunit gamma (Protein from yeast)
- Dna repair helicase rad25 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 21 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 10 (Protein from yeast)
- Serine/threonine-protein kinase kin28 (Protein from yeast)
- Suppressor of stem-loop protein 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 31 (Protein from yeast)
- Transcription initiation factor iib (Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit beta (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 18 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 17 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 5 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 22 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 2 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 20 (Protein from yeast)
- Transcription initiation factor iia subunit 2 (Protein from Saccharomyces cerevisiae)
- Rna polymerase ii transcription factor b subunit 2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 14 (Protein from yeast)
- Transcription initiation factor iif subunit alpha (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb7 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 6 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 8 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 7 (Protein from yeast)
- Cyclin ccl1 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 1 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 5 (Protein from yeast)
- 108 bp his4 promoter fragment (DNA from Saccharomyces cerevisiae)
Mediator-RNA Polymerase II Pre-Initiation Complex Delta TFIIE-IIH (Focused refinement)
Robinson PJ, Trnka MJ, Bushnell DA, Davis RE, Mattei PJ, Burlingame AL, Kornberg RD
Cell (2016) 166 pp. 1411-1422.e16 [ Pubmed: 27610567 DOI: doi:10.1016/j.cell.2016.08.050 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from yeast)
- Transcription initiation factor iia large subunit (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 2 (Protein from yeast)
- Transcription initiation factor iib (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 19 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from yeast)
- Tata-box-binding protein (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 9 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 11 (Protein from yeast)
- Transcription initiation factor iif subunit gamma (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 16 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 21 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 3 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb4 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 2 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 4 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 31 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 18 (Protein from yeast)
- Transcription initiation factor iif subunit beta (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 17 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb7 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 4 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 22 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 20 (Protein from yeast)
- Transcription initiation factor iia subunit 2 (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 15 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 5 (Protein from yeast)
- Transcription initiation factor iif subunit alpha (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 14 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 6 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 8 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 7 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 10 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 1 (Protein from yeast)
- Mediator-rna polymerase ii pre-initiation complex delta tfiie-iih (focused refinement) (1 MDa, Complex)
- 108 bp his4 promoter fragment (DNA from Saccharomyces cerevisiae)
Mediator-RNA Polymerase II Pre-Initiation Complex
Robinson PJ, Trnka MJ, Bushnell DA, Davis RE, Mattei PJ, Burlingame AL, Kornberg RD
Cell (2016) 166 pp. 1411-1422.e16 [ Pubmed: 27610567 DOI: doi:10.1016/j.cell.2016.08.050 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from yeast)
- Transcription initiation factor iia large subunit (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 2 (Protein from yeast)
- Transcription factor tfiie subunit tfa1 (Protein from Saccharomyces cerevisiae)
- Dna repair helicase rad3 (Protein from yeast)
- Transcription initiation factor iib (Protein from Saccharomyces cerevisiae)
- Mediator-rna polymerase ii pre-initiation complex (2 MDa, Complex)
- Transcription factor tfiie subunit tfa2 (Protein from Saccharomyces cerevisiae)
- Rna polymerase ii transcription factor b subunit 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 19 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from yeast)
- Tata-box-binding protein (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 9 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 11 (Protein from yeast)
- Transcription initiation factor iif subunit gamma (Protein from yeast)
- Dna repair helicase rad25 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 16 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 21 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 3 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb4 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 2 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 4 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from yeast)
- Serine/threonine-protein kinase kin28 (Protein from yeast)
- Suppressor of stem-loop protein 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 31 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 18 (Protein from yeast)
- Transcription initiation factor iif subunit beta (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 17 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb7 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 4 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 22 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 20 (Protein from yeast)
- Transcription initiation factor iia subunit 2 (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 15 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 5 (Protein from yeast)
- Transcription initiation factor iif subunit alpha (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 14 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 6 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 8 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 7 (Protein from yeast)
- Cyclin ccl1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 10 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 1 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 5 (Protein from yeast)
- 108 bp his4 promoter fragment (DNA from Saccharomyces cerevisiae)
Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module
Resolution: 16.0 Å
EM Method: Single-particle
Fitted PDBs: 3j1n, 3j1o
Q-score: 0.022
Cai G, Chaban YL, Imasaki T, Kovacs JA, Calero G, Penczek PA, Takagi Y, Asturias FJ
Structure (2012) 20 pp. 899-910 [ DOI: doi:10.1016/j.str.2012.02.023 Pubmed: 22579255 ]
- Tfiif (150 kDa, Protein from Saccharomyces cerevisiae)
- Complex of rna polymerase ii, mediator head module, tfiif, tfiib, tbp, and promoter dna (900 kDa, Sample)
- Head module (240 kDa, Protein from Saccharomyces cerevisiae)
- Rna polymerase ii (540 kDa, Protein from Saccharomyces cerevisiae)
YEAST RNA POLYMERASE III-DNA-RNA COMPLEX
Vannini A, Ringel R, Kusser AG, Berninghausen O, Kassavetis GA, Cramer P
Cell (2010) 143 pp. 59-70 [ DOI: doi:10.1016/j.cell.2010.09.002 Pubmed: 20887893 ]
- Rna polymerase iii (700 kDa, Protein from Saccharomyces cerevisiae)
- Dna-rna elongation scaffold (Macromolecule from synthetic construct)
- Rna polymerase iii-dna-rna complex (700 kDa, Sample)