Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9er2
Q-score: 0.448
van den Heuvel D, Rodriguez-Martinez M, van der Meer PJ, Nieto Moreno N, Park J, Kim HS, van Schie JJM, Wondergem AP, D'Souza A, Yakoub G, Herlihy AE, Kashyap K, Boissiere T, Walker J, Mitter R, Apelt K, de Lint K, Kirdok I, Ljungman M, Wolthuis RMF, Cramer P, Scharer OD, Kokic G, Svejstrup JQ, Luijsterburg MS
Cell (2024) 187 pp. 7107- [ DOI: doi:10.1016/j.cell.2024.10.018 Pubmed: 39547229 ]
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Beryllium trifluoride ion (66 Da, Ligand)
- Isoform 1 of inactive serine/threonine-protein kinase 19 (28 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna (5'-r(p*cp*ap*ap*ap*ap*up*cp*gp*ap*gp*ap*gp*gp*a)-3') (4 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
- Nts (16 kDa, DNA from Homo sapiens)
- Transcription elongation factor 1 homolog (7 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna-directed rna polymerase subunit (19 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Pol ii-tcr-stk19 (Complex from Homo sapiens)
- Ts (15 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit (218 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
C(N)RL4CSA-UVSSA-E2-ubiquitin complex.
Kokic G, Yakoub G, van den Heuvel D, Wondergem AP, van der Meer PJ, van der Weegen Y, Chernev A, Fianu I, Fokkens TJ, Lorenz S, Urlaub H, Cramer P, Luijsterburg MS
Nat Struct Mol Biol (2024) 31 pp. 536-547 [ Pubmed: 38316879 DOI: doi:10.1038/s41594-023-01207-0 ]
- Cullin-4a (87 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 d2 isoform x3 (16 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase rbx1 (12 kDa, Protein from Homo sapiens)
- Nedd8 (8 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- C(n)rl4csa-uvssa-e2-ubiquitin complex. (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
Structure of the mammalian Pol II-SPT6 complex, Struture 4 (Global map)
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
- The pol ii-spt6 transcription elongation complex (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna (RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Template dna (DNA from synthetic construct)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from Sus scrofa)
- Dna-directed rna polymerase subunit beta (Protein from Sus scrofa)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Transcription elongation factor spt6 (Protein from Sus scrofa)
- Rna polymerase ii subunit g (Protein from Sus scrofa)
- Non-template dna (DNA from synthetic construct)
- Rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
Structure of the mammalian Pol II-SPT6 complex, Structure 4 (Focused map for SPT6)
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Rna (RNA from synthetic construct)
- Rpb3 (Protein from Sus scrofa)
- Rpb9 (Protein from Sus scrofa)
- Non-template dna (DNA from synthetic construct)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Spt6h (Protein from Homo sapiens)
- Eloa1 (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Eloc (Protein from Homo sapiens)
- Rpb6 (Protein from Sus scrofa)
- Rpb1 (Protein from Sus scrofa)
- Rpb4 (Protein from Sus scrofa)
- Rpb5 (Protein from Sus scrofa)
- Rpb8 (Protein from Sus scrofa)
- The pol ii-spt6-elongin transcription elongation complex (Complex from Homo sapiens)
- Rpb2 (Protein from Sus scrofa)
- Template dna (DNA from synthetic construct)
- Elob (Protein from Homo sapiens)
- Rpb7 (Protein from Sus scrofa)
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb2 (Protein from Sus scrofa)
- Rna (RNA from synthetic construct)
- Elongin a (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Rna polymerase ii subunit rpb9 (Protein from Sus scrofa)
- Rna polymerase ii subunit g (Protein from Sus scrofa)
- Non-template dna (DNA from synthetic construct)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Transcription elongation factor spt6 (Protein from Homo sapiens)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Elongin c (Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- The pol ii-spt6-elongin transcription elongation complex (Complex from Homo sapiens)
- Elongin b (Protein from Homo sapiens)
- Template dna (DNA from synthetic construct)
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
Structure of the mammalian Pol II-SPT6 complex (composite map)
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8oeu
Q-score: 0.526
Chen Y, Kokic G, Dienemann C, Dybkov O, Urlaub H, Cramer P
Nat Struct Mol Biol (2023) 30 pp. 1925-1935 [ Pubmed: 37932450 DOI: doi:10.1038/s41594-023-01138-w ]
- Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Template dna (14 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Rna (14 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Non-template dna (14 kDa, DNA from synthetic construct)
- The pol ii-spt6 transcription elongation complex (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit d (20 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)