Partial auto-inhibitory complex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8g99
Q-score: 0.551
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024) 31 pp. 777-790 [ DOI: doi:10.1038/s41594-024-01227-4 Pubmed: 38491139 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Primase (Complex from Xenopus laevis)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Polymerase alpha-primase (110 kDa, Complex)
- Polymerase alpha (200 kDa, Complex from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
Complete auto-inhibitory complex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8g9f
Q-score: 0.48
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024) 31 pp. 777-790 [ DOI: doi:10.1038/s41594-024-01227-4 Pubmed: 38491139 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Primase (Complex from Xenopus laevis)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Dna primase (49 kDa, Protein from Xenopus laevis)
- Polymerase alpha-primase (110 kDa, Complex)
- Polymerase alpha (200 kDa, Complex from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
DNA initiation subcomplex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8g9l
Q-score: 0.453
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024) 31 pp. 777-790 [ DOI: doi:10.1038/s41594-024-01227-4 Pubmed: 38491139 ]
- Dna initiation substrate (20 kDa, Complex from synthetic construct)
- Primase (Complex from Xenopus laevis)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Polymerase alpha-primase with a dna initiation substrate (110 kDa, Complex)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Polymerase alpha (Complex from Xenopus laevis)
- Dna template (15 kDa, DNA from synthetic construct)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rna primer (2 kDa, RNA from synthetic construct)
Partial DNA elongation subcomplex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8g9n
Q-score: 0.415
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024) 31 pp. 777-790 [ DOI: doi:10.1038/s41594-024-01227-4 Pubmed: 38491139 ]
- Primase (Complex from Xenopus laevis)
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Polymerase alpha (Complex from Xenopus laevis)
- Dna template (15 kDa, DNA from synthetic construct)
- Dna elongation substrate (Complex from synthetic construct)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Rna-dna primer (6 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Polymerase alpha-primase with a dna elongation substrate (20 kDa, Complex)
Complete DNA elongation subcomplex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 8g9o
Q-score: 0.275
Mullins EA, Salay LE, Durie CL, Bradley NP, Jackman JE, Ohi MD, Chazin WJ, Eichman BF
Nat Struct Mol Biol (2024) 31 pp. 777-790 [ DOI: doi:10.1038/s41594-024-01227-4 Pubmed: 38491139 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Primase (Complex from Xenopus laevis)
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Polymerase alpha (Complex from Xenopus laevis)
- Dna template (15 kDa, DNA from synthetic construct)
- Rna-dna primer (6 kDa, Macromolecule from synthetic construct)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dna elongation substrate (20 kDa, Complex from synthetic construct)
- Polymerase alpha-primase with a dna elongation substrate (110 kDa, Complex)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6n9u
Q-score: 0.477
Gao Y, Cui Y, Fox T, Lin S, Wang H, de Val N, Zhou ZH, Yang W
Science (2019) 363 [ Pubmed: 30679383 DOI: doi:10.1126/science.aav7003 ]
- Gp5 dna polymerase and two gp4 primase subunits complexed with trx, rna/dna hybrid, and incoming dttp (from gp4-gp5 lagging-strand complex lags1) (Complex from Enterobacteria phage T7)
- Dna primase/helicase (62 kDa, Protein from Enterobacteria phage T7)
- Dna-directed dna polymerase (79 kDa, Protein from Enterobacteria phage T7)
- Dna (44-mer) (13 kDa, DNA from Enterobacteria phage T7)
- Zinc ion (65 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rna (5'-r(*ap*cp*cp*ap*g)-d(p*(doc))-3') (1 kDa, RNA from Enterobacteria phage T7)
- Thymidine-5'-triphosphate (482 Da, Ligand)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6n9v
Q-score: 0.408
Gao Y, Cui Y, Fox T, Lin S, Wang H, de Val N, Zhou ZH, Yang W
Science (2019) 363 [ Pubmed: 30679383 DOI: doi:10.1126/science.aav7003 ]
- Gp5 dna polymerase and two gp4 primase subunits complexed with trx, rna/dna hybrid, and incoming dttp (from gp4-gp5 lagging-strand complex lags1) (Complex from Enterobacteria phage T7)
- Dna primase/helicase (62 kDa, Protein from Enterobacteria phage T7)
- Primer (1 kDa, RNA from Enterobacteria phage T7)
- Template (13 kDa, DNA from Enterobacteria phage T7)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Dna-directed dna polymerase (79 kDa, Protein from Enterobacteria phage T7)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6n9w
Q-score: 0.334
Gao Y, Cui Y, Fox T, Lin S, Wang H, de Val N, Zhou ZH, Yang W
Science (2019) 363 [ Pubmed: 30679383 DOI: doi:10.1126/science.aav7003 ]
- Dna primase/helicase (62 kDa, Protein from Enterobacteria phage T7)
- Dna-directed dna polymerase (79 kDa, Protein from Enterobacteria phage T7)
- Gp5 dna polymerase binding to a and b subunits of gp4 primase-helicase hexamer complexed with trx, rna/dna hybrid, and incoming dttp (lags2) (Complex from Enterobacteria phage T7)
- Template (13 kDa, DNA from Enterobacteria phage T7)
- Primer (1 kDa, RNA from Enterobacteria phage T7)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Thymidine-5'-triphosphate (482 Da, Ligand)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6n9x
Q-score: 0.371
Gao Y, Cui Y, Fox T, Lin S, Wang H, de Val N, Zhou ZH, Yang W
Science (2019) 363 [ Pubmed: 30679383 DOI: doi:10.1126/science.aav7003 ]
- Dna primase/helicase (62 kDa, Protein from Enterobacteria phage T7)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Primer (1 kDa, RNA from Enterobacteria phage T7)
- Template (13 kDa, DNA from Enterobacteria phage T7)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Gp5 dna polymerase binding to b and c subunits of gp4 primase-helicase hexamer complexed with trx, rna/dna hybrid, and incoming dttp (lags3) (Complex from Enterobacteria phage T7)
- Dna-directed dna polymerase (79 kDa, Protein from Enterobacteria phage T7)