TFIID-based PIC-Mediator holo-complex in fully-assembled state (hPIC-MED)
Resolution: 4.13 Å
EM Method: Single-particle
Fitted PDBs: 7enc
Q-score: 0.103
Chen X, Yin X, Li J, Wu Z, Qi Y, Wang X, Liu W, Xu Y
Science (2021) 372 [ Pubmed: 33958484 DOI: doi:10.1126/science.abg0635 ]
- Transcription initiation factor tfiid subunit 11 (23 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 13 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Pig)
- Dna (69-mer) (21 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Pig)
- Transcription initiation factor tfiid subunit 6 (72 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 26 (65 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 8 (34 kDa, Protein from Homo sapiens)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 1 (62 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 29 (21 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 4 (110 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
- Rpb12 (7 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 1 (168 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 2 (137 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Homo sapiens)
- Isoform 2 of mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Pig)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 12 (17 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Pig)
- Rpb10 (7 kDa, Protein from Sus scrofa)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
- Dna (69-mer) (21 kDa, DNA 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 22 (22 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 10 (15 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)
- Isoform 2 of mediator of rna polymerase ii transcription subunit 16 (93 kDa, Protein from Homo sapiens)
- General transcription and dna repair factor iih helicase subunit xpd (87 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Homo sapiens)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 10 (21 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 iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiia-a (34 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 3 (103 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 7 (40 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Pig)
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Transcription initiation factor tfiid subunit 9 (29 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 18 (23 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Homo sapiens)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Rpb1 (217 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Pig)
- Tfiid-based pic-mediator holo-complex in fully-assembled state (hpic-med) (Complex from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4 (52 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)
Human Mediator (deletion of MED1-IDR) in a Tail-bent conformation (MED-B)
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 7enj
Q-score: 0.17
Chen X, Yin X, Li J, Wu Z, Qi Y, Wang X, Liu W, Xu Y
Science (2021) 372 [ Pubmed: 33958484 DOI: doi:10.1126/science.abg0635 ]
- Mediator of rna polymerase ii transcription subunit 26 (65 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 29 (21 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 16 (96 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 1 (168 kDa, Protein from Homo sapiens)
- Isoform 2 of mediator of rna polymerase ii transcription subunit 8 (29 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)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
- Unknown chain (1 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 14 (160 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 10 (15 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)
- Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Homo sapiens)
- Structure of the human mediator complex (Complex from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 23 (156 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 31 (15 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 21 (15 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)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Homo sapiens)
Human Mediator with RNA Polymerase II Pre-initiation complex
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7nvr
Q-score: 0.171
Aibara S, Schilbach S, Cramer P
Nature (2021) 594 pp. 124-128 [ Pubmed: 33902107 DOI: doi:10.1038/s41586-021-03554-8 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Pig)
- Pol complex and mediator of rna polymerase ii transcription (Complex from Homo sapiens)
- Unassigned peptide (med29 or med30) (1 kDa, Protein from Trichoplusia ni)
- Dna-directed rna polymerase (Complex from Sus scrofa)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 19 (26 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from Pig)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Pig)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
- Unassigned peptide, likely tfiie-beta (1 kDa, Protein from Homo sapiens)
- Transcription initiation factors (Complex from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Homo sapiens)
- Human mediator with rna polymerase ii pre-initiation complex (Complex)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Pig)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
- Unassigned peptide, likely xpb (698 Da, 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 22 (22 kDa, Protein from Homo sapiens)
- Template (32 kDa, DNA from Human mastadenovirus C)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Homo sapiens)
- Rpol4c domain-containing protein (16 kDa, Protein from Pig)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Homo sapiens)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Pig)
- Nt and template (Complex from Human mastadenovirus C)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Unassigned peptide (med14) (1 kDa, Protein from Homo sapiens)
- Unassigned peptide (med17) (954 Da, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Pig)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Pig)
- Nt (32 kDa, DNA from Human mastadenovirus C)
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Homo sapiens)
- Unassigned peptide (med29 or med30) (1 kDa, Protein from Trichoplusia ni)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Unassigned peptide (med6) (1 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)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Homo sapiens)
- Unassigned peptide (med29 or med30) (1 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Pig)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Pig)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Homo sapiens)
- Unassigned peptides (med29 or med30) (Complex from Trichoplusia ni)
Human Mediator (deletion of MED1-IDR) in a Tail-extended conformation
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7emf
Q-score: 0.331
Chen X, Yin X, Li J, Wu Z, Qi Y, Wang X, Liu W, Xu Y
Science (2021) 372 [ Pubmed: 33958484 DOI: doi:10.1126/science.abg0635 ]
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Homo sapiens)
- Unknown chain (poly a) (1 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 21 (15 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 18 (23 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 10 (15 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 29 (21 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 17 (72 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)
- Structure of the human mediator complex (Complex from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 1 (168 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 15 (86 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 7 (27 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 26 (65 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)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 23 (156 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 14 (160 kDa, Protein from Homo sapiens)
- Isoform 2 of mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Homo sapiens)
Structure of the human Mediator-bound transcription pre-initiation complex
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 7lbm
Q-score: 0.074
Abdella R, Talyzina A, Chen S, Inouye CJ, Tjian R, He Y
Science (2021) 372 pp. 52-56 [ DOI: doi:10.1126/science.abg3074 Pubmed: 33707221 ]
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Human)
- Isoform 2 of mediator of rna polymerase ii transcription subunit 16 (93 kDa, Protein from Human)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Human)
- General transcription factor iih subunit 2 (44 kDa, Protein from Human)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Human)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Human)
- Promoter dna (Complex from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4, p52 (52 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 9 (16 kDa, Protein from Human)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Human)
- General transcription factors (300 kDa, Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Human)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Human)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Human)
- General transcription factor iih subunit 5 (8 kDa, Protein from Human)
- General transcription factor iih subunit 3 (34 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Human)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Human)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Human)
- Mediator (1 MDa, Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb5 (24 kDa, Protein from Human)
- Zinc ion (65 Da, Ligand)
- Super core promoter sense strand (31 kDa, DNA from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Human)
- Tfiih (500 kDa, Complex from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Human)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpb subunit (89 kDa, Protein from Human)
- Super core promoter antisense strand (30 kDa, DNA from Homo sapiens)
- Cyclin-h (37 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Human)
- General transcription factor iih subunit 1 (62 kDa, Protein from Human)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb2 (134 kDa, Protein from Human)
- Cyclin-h and associated factors (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Human)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Human)
- Iron/sulfur cluster (351 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 14 (160 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Human)
- Mediator-bound pre-initiation complex (2 MDa, Complex)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Mediator of rna polymerase ii transcription subunit 19 (26 kDa, Protein from Human)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Human)
- Rna polymerase ii (520 kDa, Complex from Homo sapiens)
map of the mammalian Mediator complex
Resolution: 4.02 Å
EM Method: Single-particle
Fitted PDBs: 6w1s
Q-score: 0.321
El Khattabi L, Zhao H, Kalchschmidt J, Young N, Jung S, Van Blerkom P, Kieffer-Kwon P, Kieffer-Kwon KR, Park S, Wang X, Krebs J, Tripathi S, Sakabe N, Sobreira DR, Huang SC, Rao SSP, Pruett N, Chauss D, Sadler E, Lopez A, Nobrega MA, Aiden EL, Asturias FJ, Casellas R
Cell (2019) 178 pp. 1145-1158.e20 [ DOI: doi:10.1016/j.cell.2019.07.011 Pubmed: 31402173 ]
- Mediator of rna polymerase ii transcription subunit 7 (18 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 25 (22 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 21 (13 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 24 (109 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 8 (20 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 30 (17 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 4 (11 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 22 (15 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 9 (8 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 15 (18 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 29 (14 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 14 (168 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 28 (13 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 18 (21 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 31 (11 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 27 (33 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 11 (12 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 1 (32 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 17 (70 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 16 (91 kDa, Protein from Mouse)
- Mediator of rna polymerase ii transcription subunit 20 (21 kDa, Protein from Mouse)
- Mouse mediator complex (1 MDa, Complex from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Mouse)
Head-Middle module of Mediator
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6xp5
Q-score: 0.337
Zhang H, Chen DH, Mattoo RUH, Bushnell DA, Wang Y, Yuan C, Wang L, Wang C, Davis RE, Nie Y, Kornberg RD
Mol Cell (2021) 81 pp. 1781-1788.e4 [ Pubmed: 33571424 DOI: doi:10.1016/j.molcel.2021.01.022 ]
- Head-middle module of mediator (Complex from Chaetomium thermophilum)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 6 (36 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 8 (32 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 1 (81 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Heat (17 kDa, Protein from Chaetomium thermophilum)
- Mediator of rna polymerase ii transcription subunit 17 (69 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 4 (37 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 14 (133 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 18 (38 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Med22 (18 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Unknown peptide (1 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 9 (18 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
- Mediator of rna polymerase ii transcription subunit 11 (25 kDa, Protein from Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH AND CORE MEDIATOR
Resolution: 5.8 Å
EM Method: Single-particle
Fitted PDBs: 5oqm
Q-score: 0.183
Schilbach S, Hantsche M, Tegunov D, Dienemann C, Wigge C, Urlaub H, Cramer P
Nature (2017) 551 pp. 204-209 [ DOI: doi:10.1038/nature24282 Pubmed: 29088706 ]
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 14 (84 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Template dna (32 kDa, DNA from synthetic construct)
- Pre-initiation complex with core mediator (pic-cmed) (1 MDa, Complex)
- Unknown protein (3 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih subunit tfb4 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih subunit ssl1 (51 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription (Complex from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit alpha (83 kDa, Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase ii subunit rpb1 (191 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))
- Transcription initiation factor iia large subunit (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 31,mediator of rna polymerase ii transcription subunit 31 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih helicase subunit xpb (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase (Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Nontemplate dna (32 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Rna polymerase ii transcription factor b (Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih subunit tfb1 (53 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription factor tfiie subunit (59 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Iron/sulfur cluster (351 Da, Ligand)
- General transcription and dna repair factor iih subunit tfb2 (60 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tata-box-binding protein (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Rna polymerase ii transcription factor b subunit 3 (38 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))
- Mediator of rna polymerase ii transcription subunit 4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- General transcription and dna repair factor iih subunit tfb5 (8 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 polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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 polymerase ii subunit rpb2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 1 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 4 (Protein from yeast)
- Transcription initiation factor iif subunit alpha (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 20 (Protein from yeast)
- Mediator-rna polymerase ii pre-initiation complex delta mediator tail (1 MDa, Complex)
- Rna polymerase ii transcription factor b subunit 2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 10 (Protein from yeast)
- 108 bp his4 promoter fragment (DNA from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 21 (Protein from yeast)
- Transcription initiation factor iia large subunit (Protein from Saccharomyces cerevisiae)
- Rna polymerase ii transcription factor b subunit 3 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from yeast)
- Dna repair helicase rad3 (Protein from yeast)
- Transcription initiation factor iib (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 9 (Protein from yeast)
- Transcription factor tfiie subunit tfa1 (Protein from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 31 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 4 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb7 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from yeast)
- Transcription initiation factor iia subunit 2 (Protein from Saccharomyces cerevisiae)
- Dna repair helicase rad25 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 6 (Protein from yeast)
- Transcription initiation factor iif subunit gamma (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 17 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 8 (Protein from yeast)
- Tata-box-binding protein (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 11 (Protein from yeast)
- Serine/threonine-protein kinase kin28 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from yeast)
- Suppressor of stem-loop protein 1 (Protein from yeast)
- Rna polymerase ii transcription factor b subunit 5 (Protein from yeast)
- Transcription initiation factor iif subunit beta (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from yeast)
- Transcription factor tfiie subunit tfa2 (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 18 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 5 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 19 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 7 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 22 (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)
- Dna-directed rna polymerase ii subunit rpb4 (Protein from yeast)
- Cyclin ccl1 (Protein from yeast)
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 [ DOI: doi:10.1016/j.cell.2016.08.050 Pubmed: 27610567 ]
- Dna-directed rna polymerase ii subunit rpb1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 15 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb7 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from yeast)
- Tata-box-binding protein (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 1 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 18 (Protein from yeast)
- Transcription initiation factor iif subunit gamma (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 17 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 10 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 20 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 19 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 22 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 16 (Protein from yeast)
- Transcription initiation factor iia subunit 2 (Protein from Saccharomyces cerevisiae)
- 108 bp his4 promoter fragment (DNA from Saccharomyces cerevisiae)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from yeast)
- Transcription initiation factor iia large subunit (Protein from Saccharomyces cerevisiae)
- Transcription initiation factor iif subunit beta (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from yeast)
- Mediator-rna polymerase ii pre-initiation complex delta tfiie-iih (focused refinement) (1 MDa, Complex)
- Transcription initiation factor iif subunit alpha (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 31 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 11 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 1 (Protein from yeast)
- Transcription initiation factor iib (Protein from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 5 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 2 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 8 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 9 (Protein from yeast)
- Dna-directed rna polymerase ii subunit rpb2 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 14 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc 4 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 21 (Protein from yeast)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 6 (Protein from yeast)
- Mediator of rna polymerase ii transcription subunit 7 (Protein from yeast)