Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8fs3
Q-score: 0.503
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8fs4
Q-score: 0.452
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 8fs5
Q-score: 0.548
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8fs6
Q-score: 0.487
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8fs7
Q-score: 0.542
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8fs8
Q-score: 0.446
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
bioRxiv (2023) [ DOI: doi:10.1101/2023.05.03.539266 Pubmed: 37205533 ]
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Checkpoint protein rad24 (57 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Template strand (15 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from synthetic construct)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Proteins complex (Complex from Saccharomyces cerevisiae)
bacteriophage T4 stalled primosome with mutant gp41-E227Q
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8gao
Q-score: 0.323
Feng X, Spiering MM, de Luna Almeida Santos R, Benkovic SJ, Li H
Nat Commun (2023) 14 pp. 4396-4396 [ Pubmed: 37474605 DOI: doi:10.1038/s41467-023-40106-2 ]
- Dna (70-mer) (21 kDa, DNA from synthetic construct)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna primase (39 kDa, Protein from Escherichia phage T4)
- Rna (5'-d(*(gtp))-r(p*cp*cp*gp*a)-3') (1 kDa, RNA from synthetic construct)
- Complex of t4 primosome with mutant helicase gp41 (Complex from Escherichia phage T4)
- Magnesium ion (24 Da, Ligand)
- Dna (70-mer) (3 kDa, DNA from synthetic construct)
- Dnab-like replicative helicase (48 kDa, Protein from Escherichia phage T4)
Cryo-EM structure of S. cerevisiae DNA polymerase alpha-primase complex in the RNA synthesis state
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 8foh
Q-score: 0.358
Yuan Z, Georgescu R, Li H, O'Donnell ME
Nat Commun (2023) 14 pp. 3697-3697 [ Pubmed: 37344454 DOI: doi:10.1038/s41467-023-39441-1 ]
- Dna polymerase alpha/primase complex (Complex from Saccharomyces cerevisiae)
- Dna primase (47 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (3 kDa, DNA from synthetic construct)
- Primer rna (2 kDa, RNA from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna primase large subunit (62 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase (167 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase alpha subunit b (78 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 8foj
Q-score: 0.336
Yuan Z, Georgescu R, Li H, O'Donnell ME
Nat Commun (2023) 14 pp. 3697-3697 [ Pubmed: 37344454 DOI: doi:10.1038/s41467-023-39441-1 ]
- Dna polymerase alpha/primase complex (Complex from Saccharomyces cerevisiae)
- Dna primase (47 kDa, Protein from Saccharomyces cerevisiae)
- Template dna (3 kDa, DNA from synthetic construct)
- Primer rna (3 kDa, RNA from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna primase large subunit (62 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase (167 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase alpha subunit b (78 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM structure of S. cerevisiae DNA polymerase alpha-primase complex in the DNA elongation state
Resolution: 3.56 Å
EM Method: Single-particle
Fitted PDBs: 8fok
Q-score: 0.454
Yuan Z, Georgescu R, Li H, O'Donnell ME
Nat Commun (2023) 14 pp. 3697-3697 [ Pubmed: 37344454 DOI: doi:10.1038/s41467-023-39441-1 ]
- Dna polymerase alpha/primase complex (Complex from Saccharomyces cerevisiae)
- Dna primase (47 kDa, Protein from Saccharomyces cerevisiae)
- Rna-dna chimeric primer (4 kDa, RNA from synthetic construct)
- Template dna (6 kDa, DNA from synthetic construct)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna primase large subunit (62 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase (167 kDa, Protein from Saccharomyces cerevisiae)
- Dna polymerase alpha subunit b (78 kDa, Protein from Saccharomyces cerevisiae)