Atomic model of the mammalian mouse Mediator complex with CKM module
Resolution: 4.83 Å
EM Method: Single-particle
Fitted PDBs: 8t1l
Q-score: 0.247
Zhao H, Li J, Xiang Y, Malik S, Vartak SV, Veronezi GMB, Young N, Riney M, Kalchschmidt J, Conte A, Jung SK, Ramachandran S, Roeder RG, Shi Y, Casellas R, Asturias FJ
Mol Cell (2024) 84 pp. 2648-2664.e10 [ DOI: doi:10.1016/j.molcel.2024.06.006 Pubmed: 38955181 ]
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 16 (91 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 9 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 14 (161 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Mus musculus)
- Unknown (1 kDa, Protein from Mus musculus)
- Mouse mediator complex (1 MDa, Complex from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 1 (167 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 13 (238 kDa, Protein from Mus musculus)
Atomic model of the mammalian Mediator complex with MED26 subunit
Resolution: 4.68 Å
EM Method: Single-particle
Fitted PDBs: 8t1i
Q-score: 0.238
Zhao H, Li J, Xiang Y, Malik S, Vartak SV, Veronezi GMB, Young N, Riney M, Kalchschmidt J, Conte A, Jung SK, Ramachandran S, Roeder RG, Shi Y, Casellas R, Asturias FJ
Mol Cell (2024) 84 pp. 2648-2664.e10 [ DOI: doi:10.1016/j.molcel.2024.06.006 Pubmed: 38955181 ]
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 16 (91 kDa, Protein from Mus musculus)
- Unknown peptide (1 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 9 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 14 (161 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 19 (25 kDa, Protein from Mus musculus)
- Mouse mediator complex (1 MDa, Complex from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 1 (167 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 26 (64 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Mus musculus)
Pol II-CSB-CRL4CSA-UVSSA-SPT6-PAF (Structure 4)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7opc
Q-score: 0.472
Kokic G, Wagner FR, Chernev A, Urlaub H, Cramer P
Nature (2021) 598 pp. 368-372 [ DOI: doi:10.1038/s41586-021-03906-4 Pubmed: 34526721 ]
- Cullin-4a (88 kDa, Protein from Homo sapiens)
- Supplementary proteins (Complex from Homo sapiens)
- Nts (14 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Ts (14 kDa, DNA from Homo sapiens)
- Rna (14 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase with rna_pol_l_2 and rna polymerase (Complex from Sus scrofa)
- Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Nts, rna, ts (Complex from Homo sapiens)
- Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
- Transcribing pol ii bound to csb, crl4csa, uvssa, paf and spt6. (Complex)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Parafibromin (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- E3 ubiquitin-protein ligase rbx1 (Complex from Mus musculus)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa)
- E3 ubiquitin-protein ligase rbx1 (12 kDa, Protein from Mus musculus)
- Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Leo1 helix (3 kDa, Protein from Homo sapiens)
- Rpol4c domain-containing protein (16 kDa, Protein from Sus scrofa)
- Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Wd repeat-containing protein 61 (33 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Pol II-CSB-CRL4CSA-UVSSA-SPT6-PAF (Structure 5)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7opd
Q-score: 0.472
Kokic G, Wagner FR, Chernev A, Urlaub H, Cramer P
Nature (2021) 598 pp. 368-372 [ Pubmed: 34526721 DOI: doi:10.1038/s41586-021-03906-4 ]
- E3 ubiquitin-protein ligase rbx1 (Complex from Mus musculus)
- Dna-directed rna polymerase with rna_pol_l_2 and rna polymerase (Complex from Sus scrofa)
- Nts, rna, ts (Complex from Homo sapiens)
- Parafibromin (60 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Ts (14 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Nts (14 kDa, DNA from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase rbx1 (12 kDa, Protein from Mus musculus)
- Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
- Rna (14 kDa, RNA from Homo sapiens)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
- Cullin-4a (88 kDa, Protein from Homo sapiens)
- Leo1 helix (3 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
- Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Supplementary proteins (Complex from Homo sapiens)
- Transcribing pol ii bound to trc factors, spt6 and paf. (Complex)
- Wd repeat-containing protein 61 (33 kDa, Protein from Homo sapiens)
- Rpol4c domain-containing protein (16 kDa, Protein from Sus scrofa)
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 [ Pubmed: 31402173 DOI: doi:10.1016/j.cell.2019.07.011 ]
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 17 (70 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 16 (91 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 25 (22 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 24 (109 kDa, Protein from Mus musculus)
- Mouse mediator complex (1 MDa, Complex from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 7 (18 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 18 (21 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 31 (11 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 22 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 1 (32 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 27 (33 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 21 (13 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 28 (13 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 8 (20 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 4 (11 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 14 (168 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 11 (12 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 20 (21 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 30 (17 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 9 (8 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 29 (14 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 15 (18 kDa, Protein from Mus musculus)