Structure of Pol II-DSIF-NELF - post-translocated
Mol Cell (2024) 84 pp. 1243-1256.e5 [ DOI: doi:10.1016/j.molcel.2024.01.023 Pubmed: 38401543 ]
- Rpb8 (Protein from Sus scrofa)
- Spt4 (Protein from Homo sapiens)
- Rpb10 (Protein from Sus scrofa)
- Nelf-e (Protein from Homo sapiens)
- Nelf-c (Protein from Homo sapiens)
- Rpb9 (Protein from Sus scrofa)
- Rpb6 (Protein from Sus scrofa)
- Rna (RNA from synthetic construct)
- Rpb11 (Protein from Sus scrofa)
- Rpb2 (Protein from Sus scrofa)
- Nelf-b (Protein from Homo sapiens)
- Rpb12 (Protein from Sus scrofa)
- Template dna (DNA from synthetic construct)
- Non-template dna (DNA from synthetic construct)
- Spt5 (Protein from Homo sapiens)
- Rna polymerase in complex with dsif and nelf (Complex)
- Rpb4 (Protein from Sus scrofa)
- Rpb5 (Protein from Sus scrofa)
- Nelf-a (Protein from Homo sapiens)
- Rpb7 (Protein from Sus scrofa)
- Rpb1 (Protein from Sus scrofa)
- Rpb3 (Protein from Sus scrofa)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Dna and rna (Complex from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- 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 g (Protein from Sus scrofa)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase (Complex from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Elongation and assocation factor (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Transcription elongation factor (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from pig)
- Rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from pig)
- Rna polymerase ii subunit k (Protein from pig)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Dna and rna (Complex from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from pig)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from pig)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- Elongation and association factor (Complex from Homo sapiens)
- Rna polymerase ii subunit g (Protein from pig)
- Dna-directed rna polymerase subunit beta (Protein from pig)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from pig)
- Rna polymerase ii subunit d (Protein from pig)
- Rna polymerase ii subunit f (Protein from pig)
- Transcription elongation factor (Complex from Homo sapiens)
- Rna polymerase ii subunit e (Protein from pig)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- Elongation factors (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from Sus scrofa)
- Rna polymerase ii subunit g (Protein from Sus scrofa)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb11 (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Dna-directed rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit beta (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna (Complex from HIV whole-genome vector AA1305#18)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7okx
Q-score: 0.571
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Rna (15 kDa, RNA from HIV whole-genome vector AA1305#18)
- Dna and rna (Complex from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (29 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif(spt5-kow5)and ell2-eaf1 (Complex)
- 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)
- Transcription elongation factor spt5 (Complex from Homo sapiens)
- Rna polymerase ii subunit d (20 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 rpb3 (31 kDa, Protein from Sus scrofa)
- Template dna (14 kDa, DNA from HIV whole-genome vector AA1305#18)
- Rna polymerase (Complex from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Non-template dna (14 kDa, DNA from HIV whole-genome vector AA1305#18)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Elongation and association factors (Complex from Homo sapiens)
- Rna polymerase ii elongation factor ell2 (72 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- Elongation factors (Complex from Homo sapiens)
- 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 g (Protein from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Dna-directed rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Pig rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna (Complex from HIV whole-genome vector AA1305#18)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- Elongation factors (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from Sus scrofa)
- Rna polymerase ii subunit g (Protein from Sus scrofa)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Dna-directed rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit beta (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna (Complex from HIV whole-genome vector AA1305#18)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (Protein from Sus scrofa)
- Rna polymerases i, ii, and iii subunit rpabc3 (Protein from Sus scrofa)
- Rna (RNA from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (Protein from Homo sapiens)
- Template dna (DNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (Protein from Homo sapiens)
- Elongation factors (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (Protein from Sus scrofa)
- Rna polymerase ii subunit g (Protein from Sus scrofa)
- Non-template dna (DNA from HIV whole-genome vector AA1305#18)
- Rna polymerase ii subunit k (Protein from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (Protein from Sus scrofa)
- Dna-directed rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb1 (Protein from Sus scrofa)
- Transcription elongation factor spt4 (Protein from Homo sapiens)
- Rna polymerase ii subunit d (Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit beta (Protein from Sus scrofa)
- Rna polymerase ii subunit f (Protein from Sus scrofa)
- Rna (Complex from HIV whole-genome vector AA1305#18)
- Rna polymerase ii subunit e (Protein from Sus scrofa)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif, ell2 and eaf1 (Complex)
Structure of active transcription elongation complex Pol II-DSIF-ELL2-EAF1, composite map 2
Resolution: 4.14 Å
EM Method: Single-particle
Fitted PDBs: 7oky
Q-score: 0.387
Chen Y, Vos SM, Dienemann C, Ninov M, Urlaub H, Cramer P
Mol Cell (2021) 81 pp. 3386-3399.e10 [ DOI: doi:10.1016/j.molcel.2021.06.019 Pubmed: 34265249 ]
- Rna and dna (Complex from HIV whole-genome vector AA1305#18)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Transcription elongation complex of rna polymerase ii with elongation factors dsif and ell2, eaf1 (Complex)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Elongation and association factor (Complex from Homo sapiens)
- Rna polymerase (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Elongation factor (Complex from Homo sapiens)
- Rna (15 kDa, RNA from HIV whole-genome vector AA1305#18)
- Ell-associated factor 1 (29 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa)
- 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)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit d (20 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 rpb3 (31 kDa, Protein from Sus scrofa)
- Template dna (14 kDa, DNA from HIV whole-genome vector AA1305#18)
- Magnesium ion (24 Da, Ligand)
- Non-template dna (14 kDa, DNA from HIV whole-genome vector AA1305#18)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Rna polymerase ii elongation factor ell2 (72 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Overall map of a transcribing RNA polymerase II-U1 snRNP complex with 145-nt RNA
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7b0y
Q-score: 0.344
Zhang S, Aibara S, Vos SM, Agafonov DE, Luhrmann R, Cramer P
Science (2021) 371 pp. 305-309 [ DOI: doi:10.1126/science.abf1870 Pubmed: 33446560 ]
- U1 snrnp (Complex from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- 145-nt rna (46 kDa, RNA from synthetic construct)
- Rna polymerase ii (Complex from Sus scrofa domesticus)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Rpb12 (7 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Nucleic acids (Complex from synthetic construct)
- Template dna (14 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa domesticus)
- U1 small nuclear ribonucleoprotein a (31 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa domesticus)
- U1 small nuclear ribonucleoprotein 70 kda (51 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- The transcribing rna polymerase ii-u1 snrnp complex with 145-nt rna (Complex)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa domesticus)
- U1 snrna (52 kDa, RNA from Homo sapiens)
- Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa domesticus)