Resolution: 2.82 Å
EM Method: Single-particle
Fitted PDBs: 8wat
Q-score: 0.447
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Structure of transcribing complex 10 (tc10), the early elongation complex with pol ii positioned 10nt downstream of tss (Complex)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Non-template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit f (14 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 rpb7 (19 kDa, Protein from Sus scrofa)
- Alpha-amanitin (Complex from Amanita phalloides)
- Rna (3 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8wau
Q-score: 0.456
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Non-template dna (30 kDa, DNA from synthetic construct)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Rna (3 kDa, RNA from synthetic construct)
- Alpha-amanitin (Complex from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Structure of transcribing complex 11 (tc11), the early elongation complex with pol ii positioned 11nt downstream of tss (Complex)
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 8wav
Q-score: 0.465
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Rna (3 kDa, RNA from synthetic construct)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Non-template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Structure of transcribing complex 12 (tc12), the early elongation complex with pol ii positioned 12nt downstream of tss (Complex)
- Alpha-amanitin (Complex from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Resolution: 2.75 Å
EM Method: Single-particle
Fitted PDBs: 8wax
Q-score: 0.457
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Non-template dna (30 kDa, DNA from synthetic construct)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Rna (4 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Alpha-amanitin (Complex from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Structure of transcribing complex 14 (tc14), the early elongation complex with pol ii positioned 14nt downstream of tss (Complex)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8way
Q-score: 0.432
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Non-template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Rna (4 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Alpha-amanitin (Complex from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- Structure of transcribing complex 15 (tc15), the early elongation complex with pol ii positioned 15nt downstream of tss (Complex)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 8waz
Q-score: 0.459
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Template dna (30 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Rna (4 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Alpha-amanitin (Complex from Amanita phalloides)
- Structure of transcribing complex 16 (tc16), the early elongation complex with pol ii positioned 16nt downstream of tss (Complex)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Non-template dna (30 kDa, DNA from synthetic construct)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8wb0
Q-score: 0.437
Chen X, Liu W, Wang Q, Wang X, Ren Y, Qu X, Li W, Xu Y
Science (2023) 382 pp. eadi5120-eadi5120 [ DOI: doi:10.1126/science.adi5120 Pubmed: 38127763 ]
- Rna (4 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Rna (Complex from synthetic construct)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Tfiif (Complex from Homo sapiens)
- Dna (Complex from synthetic construct)
- Rpb12 (7 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Non-template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Template dna (30 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Alpha-amanitin (Complex from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Structure of transcribing complex 17 (tc17), the early elongation complex with pol ii positioned 17nt downstream of tss (Complex)
- Alpha-amanitin (939 Da, Protein from Amanita phalloides)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- [[(2~{s},3~{r},4~{s},5~{r})-5-(2-azanyl-6-oxidanylidene-3~{h}-purin-9-yl)-3-methoxy-4-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (537 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Structure of the post state human RNA Polymerase I Elongation Complex
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 7vbb
Q-score: 0.401
Zhao D, Liu W, Chen K, Wu Z, Yang H, Xu Y
Cell Discov (2021) 7 pp. 97-97 [ Pubmed: 34671025 DOI: doi:10.1038/s41421-021-00335-5 ]
- Dna-directed rna polymerase i subunit rpa49 (47 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Rna (5'-r(p*up*gp*cp*up*gp*ap*cp*u)-3') (2 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa34 (55 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Homo sapiens)
- Dna (5'-d(*cp*tp*gp*tp*cp*cp*tp*cp*tp*gp*gp*cp*gp*a)-3') (4 kDa, DNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa43 (37 kDa, Protein from Homo sapiens)
- Post state of human rna polymerase i elongation complex (Complex from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa1 (194 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa2 (128 kDa, Protein from Homo sapiens)
- Dna (25-mer) (7 kDa, DNA from Homo sapiens)
Structure of the pre state human RNA Polymerase I Elongation Complex
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 7vba
Q-score: 0.525
Zhao D, Liu W, Chen K, Wu Z, Yang H, Xu Y
Cell Discov (2021) 7 pp. 97-97 [ Pubmed: 34671025 DOI: doi:10.1038/s41421-021-00335-5 ]
- Dna (5'-d(p*gp*cp*cp*ap*gp*ap*gp*ap*cp*ap*gp*cp*gp*ap*gp*tp*cp*ap*gp*cp*ap*a)-3') (6 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa49 (47 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Rna (5'-r(p*up*gp*cp*up*gp*ap*cp*u)-3') (2 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa34 (55 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Homo sapiens)
- Human rna polymerase i elongation complex (Complex from Homo sapiens)
- Dna (5'-d(p*a*cp*tp*gp*tp*cp*cp*tp*cp*tp*gp*gp*c)-3') (3 kDa, DNA from Homo sapiens)
- 5'-o-[(s)-hydroxy{[(s)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine (481 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase i subunit rpa43 (37 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa1 (194 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa2 (128 kDa, Protein from Homo sapiens)