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 ]
- Rna polymerase in complex with dsif and nelf (Complex)
- Spt4 (Protein from Homo sapiens)
- Rpb7 (Protein from Sus scrofa)
- Template dna (DNA from synthetic construct)
- Non-template dna (DNA from synthetic construct)
- Rpb1 (Protein from Sus scrofa)
- Rpb9 (Protein from Sus scrofa)
- Rpb4 (Protein from Sus scrofa)
- Rpb2 (Protein from Sus scrofa)
- Rpb11 (Protein from Sus scrofa)
- Rna (RNA from synthetic construct)
- Nelf-c (Protein from Homo sapiens)
- Rpb10 (Protein from Sus scrofa)
- Rpb6 (Protein from Sus scrofa)
- Nelf-b (Protein from Homo sapiens)
- Spt5 (Protein from Homo sapiens)
- Rpb5 (Protein from Sus scrofa)
- Rpb12 (Protein from Sus scrofa)
- Nelf-e (Protein from Homo sapiens)
- Nelf-a (Protein from Homo sapiens)
- Rpb3 (Protein from Sus scrofa)
- Rpb8 (Protein from Sus scrofa)
Pol II-DSIF-SPT6-PAF1c-TFIIS complex with rewrapped nucleosome
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7unc
Q-score: 0.344
Filipovski M, Soffers JHM, Vos SM, Farnung L
Science (2022) 376 pp. 1313-1316 [ DOI: doi:10.1126/science.abo3851 Pubmed: 35709268 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Non-template dna (64 kDa, DNA from synthetic construct)
- Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
- Rpb9 (14 kDa, Protein from Sus scrofa)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Rna (5 kDa, RNA from synthetic construct)
- Template dna (66 kDa, DNA from synthetic construct)
- 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 rpb3 (31 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
- Rpb10 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
- Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
- Rpb8 (17 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Rpb11 (13 kDa, Protein from Sus scrofa)
- Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
- Pol ii-dsif-spt6-paf1c-tfiis complex with rewrapped nucleosome (Complex)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- Wdr61 (33 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Parafibromin (60 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rpol4c domain-containing protein (20 kDa, Protein from Sus scrofa)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Pol II-DSIF-SPT6-PAF1c-TFIIS-nucleosome complex (stalled at +38)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7und
Q-score: 0.216
Filipovski M, Soffers JHM, Vos SM, Farnung L
Science (2022) 376 pp. 1313-1316 [ Pubmed: 35709268 DOI: doi:10.1126/science.abo3851 ]
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
- Rpb8 (17 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Pol ii-dsif-spt6-paf1c-tfiis complex (stalled at +38) (Complex)
- Rna (5 kDa, RNA from synthetic construct)
- Rpol4c domain-containing protein (20 kDa, Protein from Sus scrofa)
- Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Non-template dna (64 kDa, DNA from synthetic construct)
- Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
- Parafibromin (60 kDa, Protein from Homo sapiens)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
- Template dna (66 kDa, DNA from synthetic construct)
- Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Rpb9 (14 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)
- Rpb11 (13 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Wdr61 (33 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
- Rpb10 (7 kDa, Protein from Sus scrofa)
- Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
- Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
Structure of activated transcription complex Pol II-DSIF-PAF-SPT6 (Map A)
Vos SM, Farnung L, Boehning M, Wigge C, Linden A, Urlaub H, Cramer P
Nature (2018) 560 pp. 607-612 [ DOI: doi:10.1038/s41586-018-0440-4 Pubmed: 30135578 ]
- Rpb1 (217 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Nucleic acids (Complex from synthetic construct)
- Associated proteins (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Ctr9,rna polymerase-associated protein ctr9 homolog,rna polymerase-associated protein ctr9 homolog (125 kDa, Protein from Homo sapiens)
- Leo1,leo1,rna polymerase-associated protein leo1 (84 kDa, Protein from Homo sapiens)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit g (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Rpb10 (7 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Transcription elongation factor spt6,transcription elongation factor spt6,transcription elongation factor spt6 (198 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit c (31 kDa, Protein from Sus scrofa)
- Rna (14 kDa, RNA from synthetic construct)
- Rpb11 (13 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Wd repeat-containing protein 61 (33 kDa, Protein from Homo sapiens)
- Template dna (14 kDa, DNA from synthetic construct)
- Rna polymerase ii (Complex from Sus scrofa)
- Paf1,rna polymerase ii-associated factor 1 homolog,rna polymerase ii-associated factor 1 homolog (67 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii-dsif-paf-spt6 elongation complex (ec*) (1 MDa, Complex)
- Magnesium ion (24 Da, Ligand)
- Cdc73 (1 kDa, Protein from Homo sapiens)