DNA initiation complex (configuration 1) of Xenopus laevis DNA polymerase alpha-primase
Resolution: 11.16 Å
EM Method: Single-particle
Fitted PDBs: 8v6g
Q-score: 0.054
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Primase (Complex from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna template (15 kDa, DNA from synthetic construct)
- Rna primer (2 kDa, RNA from synthetic construct)
- Dna primase (49 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Polymerase alpha (Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Polymerase alpha-primase with a dna initiation substrate (110 kDa, Complex)
- Dna initiation substrate (20 kDa, Complex from synthetic construct)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
DNA initiation complex (configuration 2) of Xenopus laevis DNA polymerase alpha-primase
Resolution: 11.11 Å
EM Method: Single-particle
Fitted PDBs: 8v6h
Q-score: 0.018
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Primase (Complex from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna template (15 kDa, DNA from synthetic construct)
- Rna primer (2 kDa, RNA from synthetic construct)
- Dna primase (49 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Polymerase alpha (Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Polymerase alpha-primase with a dna initiation substrate (110 kDa, Complex)
- Dna initiation substrate (20 kDa, Complex from synthetic construct)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
DNA elongation complex (configuration 1) of Xenopus laevis DNA polymerase alpha-primase
Resolution: 14.06 Å
EM Method: Single-particle
Fitted PDBs: 8v6i
Q-score: 0.032
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Primase (Complex from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna template (15 kDa, DNA from synthetic construct)
- Dna primase (49 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Polymerase alpha (Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Polymerase alpha-primase with a dna elongation substrate (110 kDa, Complex)
- Dna elongation substrate (20 kDa, Complex from synthetic construct)
- Rna-dna primer (6 kDa, Macromolecule from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
DNA elongation complex (configuration 2) of Xenopus laevis DNA polymerase alpha-primase
Resolution: 11.11 Å
EM Method: Single-particle
Fitted PDBs: 8v6j
Q-score: 0.032
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Primase (Complex from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna template (15 kDa, DNA from synthetic construct)
- Dna primase (49 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Polymerase alpha (Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Polymerase alpha-primase with a dna elongation substrate (110 kDa, Complex)
- Dna elongation substrate (20 kDa, Complex from synthetic construct)
- Rna-dna primer (6 kDa, Macromolecule from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna polymerase alpha subunit b (67 kDa, Protein from Xenopus laevis)
Partial DNA termination subcomplex of Xenopus laevis DNA polymerase alpha-primase
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8ucu
Q-score: 0.52
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna termination substrate (30 kDa, Complex from synthetic construct)
- Polymerase alpha (200 kDa, Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Dna template (18 kDa, DNA from synthetic construct)
- Primase (110 kDa, Complex from Xenopus laevis)
- Polymerase alpha-primase with a dna termination substrate (330 kDa, Complex)
- Rna-dna primer (9 kDa, DNA from synthetic construct)
Complete DNA termination subcomplex 1 of Xenopus laevis DNA polymerase alpha-primase
Resolution: 3.81 Å
EM Method: Single-particle
Fitted PDBs: 8ucv
Q-score: 0.337
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Dna primase large subunit (59 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna termination substrate (30 kDa, Complex from synthetic construct)
- Polymerase alpha (200 kDa, Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna template (18 kDa, DNA from synthetic construct)
- Primase (110 kDa, Complex from Xenopus laevis)
- Rna-dna/dna primer (9 kDa, Macromolecule from synthetic construct)
- Polymerase alpha-primase with a dna termination substrate (330 kDa, Complex)
Complete DNA termination subcomplex 2 of Xenopus laevis DNA polymerase alpha-primase
Resolution: 3.64 Å
EM Method: Single-particle
Fitted PDBs: 8ucw
Q-score: 0.377
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 [ Pubmed: 38491139 DOI: doi:10.1038/s41594-024-01227-4 ]
- Dna polymerase alpha catalytic subunit (129 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna termination substrate (30 kDa, Complex from synthetic construct)
- Polymerase alpha (200 kDa, Complex from Xenopus laevis)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Dna template (18 kDa, DNA from synthetic construct)
- Primase (110 kDa, Complex from Xenopus laevis)
- Rna-dna/dna primer (9 kDa, Macromolecule from synthetic construct)
- Polymerase alpha-primase with a dna termination substrate (330 kDa, Complex)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8f3c
Q-score: 0.419
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ Pubmed: 37264140 DOI: doi:10.1038/s41594-023-01002-x ]
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Cryo-em consensus structure of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand (420 kDa, Complex from Escherichia coli)
- Dna (39-mer) (11 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Escherichia coli)
- Dna (38-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8g00
Q-score: 0.419
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ Pubmed: 37264140 DOI: doi:10.1038/s41594-023-01002-x ]
- Dna-directed rna polymerase subunit beta' (158 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Rna (47-mer) (15 kDa, RNA from Escherichia coli)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Cryo-em structure of 3dva component 0 of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand . (420 kDa, Complex from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (26 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8g1s
Q-score: 0.389
Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG
Nat Struct Mol Biol (2023) 30 pp. 902-913 [ Pubmed: 37264140 DOI: doi:10.1038/s41594-023-01002-x ]
- Dna-directed rna polymerase subunit alpha (25 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit alpha, dna-directed rna polymerase subunit beta, dna-directed rna polymerase subunit beta', dna-directed rna polymerase subunit omega, dna (Complex from Escherichia coli)
- Rna (Complex from Bacillus subtilis)
- Rna (47-mer) (15 kDa, RNA from Bacillus subtilis)
- Dna-directed rna polymerase subunit omega (9 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (152 kDa, Protein from Escherichia coli)
- Dna (31-mer) (9 kDa, DNA from Escherichia coli)
- Cryo-em structure of 3dva component 1 of escherichia coli que-pec (paused elongation complex) rna polymerase minus preq1 ligand (420 kDa, Complex)
- Dna (39-mer) (12 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli)