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 ]
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa domesticus)
- Rpb12 (7 kDa, Protein from Sus scrofa domesticus)
- Small nuclear ribonucleoprotein e (10 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 rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Magnesium ion (24 Da, Ligand)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- 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)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Template dna (14 kDa, DNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- U1 snrna (52 kDa, RNA from Homo sapiens)
- 145-nt rna (46 kDa, RNA from synthetic construct)
- Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
- Nucleic acids (Complex from synthetic construct)
- Rna polymerase ii (Complex from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa domesticus)
- Zinc ion (65 Da, Ligand)
- The transcribing rna polymerase ii-u1 snrnp complex with 145-nt rna (Complex)
- U1 small nuclear ribonucleoprotein a (31 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- U1 snrnp (Complex from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- U1 small nuclear ribonucleoprotein 70 kda (51 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Sus scrofa domesticus)
Structure of paused transcription complex Pol II-DSIF-NELF
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6gml
Q-score: 0.34
Vos SM, Farnung L, Urlaub H, Cramer P
Nature (2018) 560 pp. 601-606 [ Pubmed: 30135580 DOI: doi:10.1038/s41586-018-0442-2 ]
- Tar rna (14 kDa, RNA from Human immunodeficiency virus 1)
- Uncharacterized protein (13 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit g (19 kDa, Protein from Sus scrofa)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Sus scrofa rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Rna polymerase ii elongation complex bound to dsif and nelf (927 kDa, Complex)
- Magnesium ion (24 Da, Ligand)
- Drb sensitivity inducing factor (dsif) (Complex from Human immunodeficiency virus 1)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Negative elongation factor e,negative elongation factor e (45 kDa, Protein from Homo sapiens)
- Uncharacterized protein (7 kDa, Protein from Sus scrofa)
- Negative elongation factor (nelf) (Complex from Homo sapiens)
- Rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Negative elongation factor b,negative elongation factor b (64 kDa, Protein from Homo sapiens)
- Negative elongation factor a (57 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Non-template dna (14 kDa, DNA from Human immunodeficiency virus 1)
- Hiv-1 pause transcription scaffold (Complex from Human immunodeficiency virus 1)
- Rna polymerase ii subunit c (30 kDa, Protein from Sus scrofa)
- Negative elongation factor c/d (64 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa)
- Template dna (14 kDa, DNA from Human immunodeficiency virus 1)
- Uncharacterized protein (7 kDa, Protein from Sus scrofa)
RNA Polymerase III open pre-initiation complex (OC-PIC)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6eu0
Q-score: 0.313
Abascal-Palacios G, Ramsay EP, Beuron F, Morris E, Vannini A
Nature (2018) 553 pp. 301-306 [ Pubmed: 29345637 DOI: doi:10.1038/nature25441 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc3 (74 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc6 (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Nucleic acid (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tata-box-binding protein (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription factors (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Non-template (21 kDa, DNA from Saccharomyces cerevisiae S288c)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 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))
- Transcription factor tfiiib component b'' (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc4 (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i and iii subunit rpac1 (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc9 (18 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Template (21 kDa, DNA from Saccharomyces cerevisiae S288c)
- Rna polymerase iii open pre-initiation complex (Complex)
- Dna-directed rna polymerase iii subunit rpc7 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Rna polymerase iii (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcription factor iiib 70 kda subunit (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc8 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerases i and iii subunit rpac2 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc5 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc2 (129 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna-directed rna polymerase iii subunit rpc1 (162 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))