RNA polymerase II elongation complex transcribing a nucleosome (EC49B)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7xt7
Q-score: 0.207
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Fact complex subunit (115 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Spt6 (Complex from Komagataella phaffii)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Fact complex subunit pob3 (60 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Histone (Complex)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex transcribing a nucleosome (ec49b) (Complex)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Spt4,spt5, paf1p,spt16,pob3 (Complex from Komagataella phaffii)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Dna, rna (Complex from Homo sapiens)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii (Complex from Komagataella phaffii)
- Rna (5'-r(p*gp*ap*cp*cp*cp*gp*gp*gp*up*gp*up*cp*up*up*cp*cp*cp*cp*a)-3') (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex transcribing a nucleosome (EC58hex)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7xti
Q-score: 0.223
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Fact complex subunit (115 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Dna,rna (Complex)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Fact complex subunit pob3 (60 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Elf1,spt4/5,spn1 and paf1c (Complex from Komagataella phaffii)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Spt6 (Complex from Komagataella phaffii)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex transcribing a nucleosome (ec58hex) (Complex)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii (Complex from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Histone, fact complex subunit (Complex from Homo sapiens)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Rna (5'-r(p*up*gp*up*ap*ap*up*cp*cp*cp*cp*up*up*gp*gp*cp*gp*gp*up*u)-3') (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex transcribing a nucleosome (EC42)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7xse
Q-score: 0.238
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Elf1,spt4/5,spn1 and paf1c (Complex from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna,rna (Complex from Komagataella phaffii)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Histone (Complex)
- Spt6 (Complex)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex containing spt4/5, elf1, spt6, spn1 and paf1c (Complex from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii (Complex from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna (5'-r(p*up*gp*cp*cp*up*gp*gp*up*gp*up*cp*up*up*gp*gp*gp*up*gp*u)-3') (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex transcribing a nucleosome (EC49)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7xsx
Q-score: 0.227
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Rna polymerase ii (Complex from synthetic construct)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Dna,rna (Complex)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Fact complex subunit pob3 (60 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex transcribing a nucleosome (ec49) (Complex from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Histone (Complex from Homo sapiens)
- Rna (5'-r(p*gp*ap*cp*cp*cp*gp*gp*gp*up*gp*up*cp*up*up*cp*cp*cp*cp*a)-3') (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Fact complex subunit (109 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex transcribing a nucleosome (EC115)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7xsz
Q-score: 0.248
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Spt6 (Complex from Homo sapiens)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Histone (Complex)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex transcribing a nucleosome (ec115) (Complex from Komagataella phaffii)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Spt4,spt5, paf1p (Complex from Komagataella phaffii)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Dna, rna (Complex)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii (Complex from Komagataella phaffii)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Rna (5'-r(p*gp*cp*up*up*gp*up*gp*cp*up*gp*up*cp*up*up*cp*gp*up*cp*cp*a)-3') (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex transcribing a nucleosome (EC58oct)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7xtd
Q-score: 0.221
Ehara H, Kujirai T, Shirouzu M, Kurumizaka H, Sekine SI
Science (2022) 377 pp. eabp9466-eabp9466 [ DOI: doi:10.1126/science.abp9466 Pubmed: 35981082 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii)
- Fact complex subunit (115 kDa, Protein from Komagataella phaffii)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii)
- Elf1,spt4/5,spn1 and paf1c (Complex from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Transcription elongation factor spt5 (101 kDa, Protein from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna,rna (Complex from Komagataella phaffii)
- Constituent of paf1 complex with rna polymerase ii, paf1p, hpr1p, ctr9, leo1, rtf1 and ccr4p (44 kDa, Protein from Komagataella phaffii)
- Fact complex subunit pob3 (60 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii elongation complex transcribing a nucleosome (ec58oct) (Complex from Komagataella phaffii)
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii)
- Leo1 (52 kDa, Protein from Komagataella phaffii)
- Spt6 (Complex)
- Protein that interacts with spt6p and copurifies with spt5p and rna polymerase ii (46 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt4 (12 kDa, Protein from Komagataella phaffii)
- Rnap ii-associated protein (46 kDa, Protein from Komagataella phaffii)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii)
- Magnesium ion (24 Da, Ligand)
- Component of the paf1p complex (124 kDa, Protein from Komagataella phaffii)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor 1 homolog (12 kDa, Protein from Komagataella phaffii)
- Rnapii-associated chromatin remodeling paf1 complex subunit (62 kDa, Protein from Komagataella phaffii)
- Rna polymerase ii (Complex from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii)
- Transcription elongation factor spt6 (173 kDa, Protein from Komagataella phaffii)
- Rna (5'-r(p*up*gp*up*ap*ap*up*cp*cp*cp*cp*up*up*gp*gp*cp*gp*gp*up*u)-3') (6 kDa, RNA from synthetic construct)
- Histone, fact complex subunit (Complex)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Komagataella phaffii)
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA
Resolution: 5.6 Å
EM Method: Single-particle
Fitted PDBs: 6a5l
Q-score: 0.182
Kujirai T, Ehara H, Fujino Y, Shirouzu M, Sekine SI, Kurumizaka H
Science (2018) 362 pp. 595-598 [ Pubmed: 30287617 DOI: doi:10.1126/science.aau9904 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Rna (5'-r(p*gp*gp*up*gp*up*cp*up*up*gp*gp*g)-3') (3 kDa, RNA from synthetic construct)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc27, common to rna polymerases i, ii, and iii (24 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii elongation complex stalled at shl(-1) of the nucleosome, with foreign dna (Complex from Komagataella phaffii)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna (42-mer) (12 kDa, DNA from synthetic construct)
- Dna (42-mer) (12 kDa, DNA from synthetic construct)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
RNA polymerase II elongation complex stalled at SHL(-6) of the nucleosome
Resolution: 9.9 Å
EM Method: Single-particle
Fitted PDBs: 6a5o
Q-score: 0.083
Kujirai T, Ehara H, Fujino Y, Shirouzu M, Sekine SI, Kurumizaka H
Science (2018) 362 pp. 595-598 [ Pubmed: 30287617 DOI: doi:10.1126/science.aau9904 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc27, common to rna polymerases i, ii, and iii (24 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna (5'-r(p*up*gp*gp*gp*up*gp*gp*up*gp*gp*c)-3') (3 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii elongation complex stalled at shl(-6) of the nucleosome (Complex from Komagataella phaffii)
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
RNA polymerase II elongation complex stalled at SHL(-5) of the nucleosome
Resolution: 7.0 Å
EM Method: Single-particle
Fitted PDBs: 6a5p
Q-score: 0.138
Kujirai T, Ehara H, Fujino Y, Shirouzu M, Sekine SI, Kurumizaka H
Science (2018) 362 pp. 595-598 [ Pubmed: 30287617 DOI: doi:10.1126/science.aau9904 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*up*gp*gp*gp*up*gp*gp*up*gp*gp*c)-3') (3 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Rna polymerase ii elongation complex stalled at shl(-5) of the nucleosome (Complex from Komagataella phaffii)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc27, common to rna polymerases i, ii, and iii (24 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
RNA polymerase II elongation complex stalled at SHL(-2) of the nucleosome
Resolution: 8.7 Å
EM Method: Single-particle
Fitted PDBs: 6a5r
Q-score: 0.11
Kujirai T, Ehara H, Fujino Y, Shirouzu M, Sekine SI, Kurumizaka H
Science (2018) 362 pp. 595-598 [ Pubmed: 30287617 DOI: doi:10.1126/science.aau9904 ]
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (198-mer) (60 kDa, DNA from synthetic construct)
- Rna polymerase ii third largest subunit b44, part of central core (34 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc10-alpha (7 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc27, common to rna polymerases i, ii, and iii (24 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit (194 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc23, common to rna polymerases i, ii, and iii (17 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna (198-mer) (61 kDa, DNA from synthetic construct)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase ii elongation complex stalled at shl(-2) of the nucleosome (Complex from Komagataella phaffii)
- Rna polymerase ii subunit (18 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase ii subunit b32 (20 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna polymerase subunit abc10-beta, common to rna polymerases i, ii, and iii (8 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Dna-directed rna polymerase subunit beta (139 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Rna (5'-r(p*up*cp*up*cp*gp*up*gp*cp*cp*up*g)-3') (3 kDa, RNA from synthetic construct)
- Rna polymerase ii subunit b12.5 (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))