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sample_name:"Mediator of RNA polymerase II transcription subunit 7" AND natural_source_ncbi_code:"8355"

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EMD-16611

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Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the +1 nucleosome

Release date: March 8, 2023
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8ceo
Q-score: 0.222

Schilbach S, Wang H, Dienemann C, Cramer P

PNAS (2023) 120 pp. e2220542120-e2220542120 [ Pubmed: 37014863 DOI: doi:10.1073/pnas.2220542120 ]

Sample:

General transcription and dna repair factor iih (52 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iif subunit beta (46 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 polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from baker's yeast)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from baker's yeast)
Transcription initiation factor iib (39 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from baker's yeast)
Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from baker's yeast)
Histone h2a (13 kDa, Protein from Xenopus laevis)
Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from baker's yeast)
Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit tfb4 (37 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from baker's yeast)
Nontemplate dna (209-mer) (64 kDa, DNA from synthetic construct)
Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae)
Toa1 isoform 1 (32 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iie subunit alpha (55 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae)
Iron/sulfur cluster (351 Da, Ligand)
Tfb1 isoform 1 (72 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae)
Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from baker's yeast)
Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae)
Rna polymerase ii transcription factor b subunit 2 (58 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit tfb5 (8 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih helicase subunit xpb (95 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from baker's yeast)
Tata-binding protein (27 kDa, Protein from Saccharomyces cerevisiae)
Histone h2b (13 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
Dna-directed rna polymerase ii subunit rpb3 (38 kDa, Protein from Saccharomyces cerevisiae)
Yeast rna polymerase ii transcription pre-initiation complex with core mediator and the +1 nucleosome (2 MDa, Complex from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from baker's yeast)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae)
Histone h3.2 (15 kDa, Protein from Xenopus laevis)
Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae)
Template dna (209-mer) (64 kDa, DNA from synthetic construct)

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EMD-34359

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PIC-Mediator in complex with +1 nucleosome (T40N) in MH-binding state

Release date: Nov. 2, 2022
Resolution: 5.04 Å
EM Method: Single-particle
Fitted PDBs: 8gxq
Q-score: 0.084

Chen X, Wang X, Liu W, Ren Y, Qu X, Li J, Yin X, Xu Y

Science (2022) 378 pp. 62-68 [ Pubmed: 36201575 DOI: doi:10.1126/science.abn8131 ]

Sample:

Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Homo sapiens)
Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 5 (86 kDa, Protein from Homo sapiens)
Dna (162-mer) (53 kDa, DNA from synthetic construct)
General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 26 (65 kDa, Protein from Homo sapiens)
Histone h2b (13 kDa, Protein from Xenopus laevis)
Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Homo sapiens)
Dna (162-mer) (46 kDa, DNA from synthetic construct)
Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Homo sapiens)
Cyclin-h (37 kDa, Protein from Homo sapiens)
Pic-mediator in complex with +1 nucleosome (t40n) in mh-binding state (Complex from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Homo sapiens)
General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
Isoform 2 of mediator of rna polymerase ii transcription subunit 16 (93 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Homo sapiens)
Dna (228-mer) (70 kDa, DNA from synthetic construct)
General transcription and dna repair factor iih helicase subunit xpd (87 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Homo sapiens)
General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 9 (29 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 19 (26 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Homo sapiens)
General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)
Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 1 (168 kDa, Protein from Homo sapiens)
Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
Iron/sulfur cluster (351 Da, Ligand)
Dna (228-mer) (70 kDa, DNA from synthetic construct)
General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Rpb12 (7 kDa, Protein from Sus scrofa)
Histone h2a.z (13 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 14 (160 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 10 (21 kDa, Protein from Homo sapiens)
Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Homo sapiens)
Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 1 (212 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Homo sapiens)
Isoform 2 of mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Homo sapiens)

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EMD-34360

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PIC-Mediator in complex with +1 nucleosome (T40N) in H-binding state

Release date: Nov. 2, 2022
Resolution: 4.16 Å
EM Method: Single-particle
Fitted PDBs: 8gxs
Q-score: 0.093

Chen X, Wang X, Liu W, Ren Y, Qu X, Li J, Yin X, Xu Y

Science (2022) 378 pp. 62-68 [ DOI: doi:10.1126/science.abn8131 Pubmed: 36201575 ]

Sample:

Dna (228-mer) (70 kDa, DNA from synthetic construct)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 19 (26 kDa, Protein from Homo sapiens)
Pic-mediator in complex with +1 nucleosome (t40n) in h-binding state (Complex from Homo sapiens)
Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
Dna (162-mer) (53 kDa, DNA from synthetic construct)
Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Homo sapiens)
Histone h2b (13 kDa, Protein from Xenopus laevis)
General transcription and dna repair factor iih helicase subunit xpd (87 kDa, Protein from Homo sapiens)
Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Iron/sulfur cluster (351 Da, Ligand)
Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Homo sapiens)
Cyclin-h (37 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 1 (212 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)
Dna (162-mer) (46 kDa, DNA from synthetic construct)
Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
Isoform 2 of mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 14 (160 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Homo sapiens)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 10 (21 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Homo sapiens)
Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Homo sapiens)
Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa)
Isoform 2 of mediator of rna polymerase ii transcription subunit 16 (93 kDa, Protein from Homo sapiens)
Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 5 (86 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)
General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 9 (29 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Homo sapiens)
Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Homo sapiens)
Rpb12 (7 kDa, Protein from Sus scrofa)
Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 26 (65 kDa, Protein from Homo sapiens)
General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
Mediator of rna polymerase ii transcription subunit 1 (168 kDa, Protein from Homo sapiens)
Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
Dna (228-mer) (70 kDa, DNA from synthetic construct)
Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
Histone h2a.z (13 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)

[Show more]

Sort by: Download

Showing 1 - 3 of 3. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [3]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

Field: