Structure of the E. coli clamp loader bound to the beta clamp in a Open-DNAp/t conformation
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8val
Q-score: 0.434
Landeck JT, Pajak J, Norman EK, Sedivy EL, Kelch BA
J Biol Chem (2024) 300 pp. 107166-107166 [ DOI: doi:10.1016/j.jbc.2024.107166 Pubmed: 38490435 ]
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Dna (5'-d(p*tp*tp*tp*tp*tp*tp*tp*ap*tp*gp*tp*ap*cp*tp*cp*gp*tp*ap*gp*tp*gp*tp*cp*t)-3') (9 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Structure of the e. coli clamp loader bound to the beta clamp in an open-dnap/t conformation (Complex from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Dna (5'-d(*ap*gp*ap*cp*ap*cp*tp*ap*cp*gp*ap*gp*tp*ap*cp*ap*tp*a)-3') (6 kDa, DNA from synthetic construct)
Structure of the E. coli clamp loader bound to the beta clamp in a Closed-DNA1 conformation
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8vaq
Q-score: 0.421
Landeck JT, Pajak J, Norman EK, Sedivy EL, Kelch BA
J Biol Chem (2024) 300 pp. 107166-107166 [ DOI: doi:10.1016/j.jbc.2024.107166 Pubmed: 38490435 ]
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Dna (5'-d(p*gp*cp*ap*gp*ap*cp*ap*cp*tp*ap*cp*gp*ap*gp*tp*ap*cp*ap*tp*a)-3') (6 kDa, DNA from synthetic construct)
- Dna (27-mer) (9 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Structure of the e. coli clamp loader bound to the beta clamp in a closed-dna1 conformation (Complex from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
Structure of the E. coli clamp loader bound to the beta clamp in a Closed-DNA2 conformation
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8var
Q-score: 0.422
Landeck JT, Pajak J, Norman EK, Sedivy EL, Kelch BA
J Biol Chem (2024) 300 pp. 107166-107166 [ DOI: doi:10.1016/j.jbc.2024.107166 Pubmed: 38490435 ]
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Dna (5'-d(p*gp*cp*ap*gp*ap*cp*ap*cp*tp*ap*cp*gp*ap*gp*tp*ap*cp*ap*tp*a)-3') (6 kDa, DNA from synthetic construct)
- Dna (27-mer) (9 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Structure of the e. coli clamp loader bound to the beta clamp in an closed-dna2 conformation (Complex from Escherichia coli)
Structure of the E. coli clamp loader bound to the beta clamp in an Altered-Collar conformation
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8vas
Q-score: 0.354
Landeck JT, Pajak J, Norman EK, Sedivy EL, Kelch BA
J Biol Chem (2024) 300 pp. 107166-107166 [ DOI: doi:10.1016/j.jbc.2024.107166 Pubmed: 38490435 ]
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Dna (5'-d(p*gp*cp*ap*gp*ap*cp*ap*cp*tp*ap*cp*gp*ap*gp*tp*ap*cp*ap*tp*a)-3') (6 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Dna (26-mer) (9 kDa, DNA from synthetic construct)
- Structure of the e. coli clamp loader bound to the beta clamp in an altered-collar conformation (Complex from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
RFC:PCNA bound to dsDNA with a ssDNA gap of six nucleotides
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7u1a
Q-score: 0.491
Liu X, Gaubitz C, Pajak J, Kelch BA
eLife (2022) 11 [ DOI: doi:10.7554/eLife.77483 Pubmed: 35731107 ]
- 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)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Replication factor c subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae)
- Proliferating cell nuclear antigen (29 kDa, Protein from Saccharomyces cerevisiae)
- Dna - primer (7 kDa, DNA from synthetic construct)
- Rfc bound to pcna and dna with a ssdna gap of six nucleotides (365 kDa, Complex from Saccharomyces cerevisiae)
- Replication factor c subunit 2 (39 kDa, Protein from Saccharomyces cerevisiae)
- Dna - template (15 kDa, DNA from synthetic construct)
- Replication factor c subunit 1 (95 kDa, Protein from Saccharomyces cerevisiae)
- Dna - non primer (6 kDa, DNA from synthetic construct)