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 ]
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
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 ]
- Magnesium ion (24 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
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 ]
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
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 ]
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
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 ]
- Checkpoint protein rad24 (62 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
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 ]
- Magnesium ion (24 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Proteins complex (Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Primer strand 2 (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Ddc1 isoform 1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 3 (37 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein mec3 (53 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Primer strand 1 (6 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Template strand (15 kDa, DNA from synthetic construct)
- Checkpoint protein rad24 (57 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM 3D map of the yeast Rad24-RFC loader bound to DNA and the closed 9-1-1 clamp
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 7sgz
Q-score: 0.412
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
Nat Struct Mol Biol (2022) 29 pp. 376-385 [ DOI: doi:10.1038/s41594-022-00742-6 Pubmed: 35314830 ]
- Phosphate ion (94 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint protein ddc1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Crick strand (12 kDa, DNA from synthetic construct)
- Mitosis entry checkpoint protein mec3 (51 kDa, Protein from Saccharomyces cerevisiae)
- Rad24-rfc-911 clamp-dna (Complex)
- Watson strand (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dsdna (Complex from synthetic construct)
- Checkpoint protein rad24 (75 kDa, Protein from Saccharomyces cerevisiae)
- Proteins (Complex from Saccharomyces cerevisiae)
Cryo-EM 3D map of the yeast Rad24-RFC loader bound to DNA and the open 9-1-1 clamp
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 7sh2
Q-score: 0.373
Zheng F, Georgescu RE, Yao NY, O'Donnell ME, Li H
Nat Struct Mol Biol (2022) 29 pp. 376-385 [ DOI: doi:10.1038/s41594-022-00742-6 Pubmed: 35314830 ]
- Magnesium ion (24 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Replication factor c subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
- Replication factor c subunit 5 (39 kDa, Protein from Saccharomyces cerevisiae)
- Mitosis entry checkpoint protein mec3 (50 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint control protein rad17 (45 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Dna damage checkpoint protein ddc1 (69 kDa, Protein from Saccharomyces cerevisiae)
- Crick strand (12 kDa, DNA from synthetic construct)
- Rad24-rfc-911 clamp-dna (Complex)
- Watson strand (6 kDa, DNA from synthetic construct)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dsdna (Complex from synthetic construct)
- Checkpoint protein rad24 (75 kDa, Protein from Saccharomyces cerevisiae)
- Proteins (Complex from Saccharomyces cerevisiae)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7kc0
Q-score: 0.442
Zheng F, Georgescu RE, Li H, O'Donnell ME
PNAS (2020) 117 pp. 30344-30353 [ Pubmed: 33203675 DOI: doi:10.1073/pnas.2017637117 ]
- Dna polymerase (124 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Dsdna (Complex from Saccharomyces cerevisiae)
- Pol32 isoform 1 (40 kDa, Protein from Saccharomyces cerevisiae)
- Dna (5'-d(p*ap*tp*gp*ap*cp*cp*ap*tp*gp*ap*tp*tp*ap*cp*gp*ap*ap*tp*tp*gp*c)-3') (7 kDa, DNA from Saccharomyces cerevisiae)
- Pol delta-pcna-dna (Complex)
- Iron/sulfur cluster (351 Da, Ligand)
- 2',3'-dideoxy-thymidine-5'-triphosphate (466 Da, Ligand)
- Proliferating cell nuclear antigen (28 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Pol31 isoform 1 (55 kDa, Protein from Saccharomyces cerevisiae)
- Proteins (Complex from Saccharomyces cerevisiae)
- Dna (25-mer) (11 kDa, DNA from Saccharomyces cerevisiae)