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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna polymerase iii subunit tau (41 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)
- Dna polymerase iii subunit delta' (37 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 an open-dnap/t conformation (Complex from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
Structure of the E. coli clamp loader bound to the beta clamp in a Semi-Open conformation
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8vam
Q-score: 0.339
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 (37 kDa, Protein from Escherichia coli)
- Structure of the e. coli clamp loader bound to the beta clamp in a semi-open conformation (Complex from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
Structure of the E. coli clamp loader bound to the beta clamp in an Initial-Binding conformation
Resolution: 7.7 Å
EM Method: Single-particle
Fitted PDBs: 8van
Q-score: 0.142
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 ]
- Structure of the e. coli clamp loader bound to the beta clamp in an initial-binding conformation (Complex from Escherichia coli)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
Structure of the E. coli clamp loader bound to the beta clamp in a Fully-Open conformation
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8vap
Q-score: 0.444
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 (37 kDa, Protein from Escherichia coli)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Structure of the e. coli clamp loader bound to the beta clamp in a fully-open conformation (Complex from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 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)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Dna (27-mer) (9 kDa, DNA from synthetic construct)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta (38 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)
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Dna (27-mer) (9 kDa, DNA from synthetic construct)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta (38 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)
- 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)
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (26-mer) (9 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein 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 an altered-collar conformation (Complex from Escherichia coli)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 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)
Structure of the E. coli clamp loader bound to the beta clamp in a Open-RNAp/t conformation
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8vat
Q-score: 0.465
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna polymerase iii subunit tau (41 kDa, Protein from Escherichia coli)
- Dna polymerase iii subunit delta' (37 kDa, Protein from Escherichia coli)
- Structure of the e. coli clamp loader bound to the beta clamp in an open-rnap/t conformation (Complex from Escherichia coli)
- Beta sliding clamp (40 kDa, Protein from Escherichia coli)
- Rna (5'-r(p*ap*gp*up*gp*gp*up*gp*up*cp*up*g)-3') (3 kDa, RNA from synthetic construct)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna polymerase iii subunit delta (38 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(p*tp*tp*tp*tp*tp*tp*tp*cp*ap*gp*ap*cp*ap*cp*cp*ap*cp*tp*gp*c)-3') (9 kDa, DNA from synthetic construct)
S. cerevisiae Pex1/Pex6 with 1 mM ATP
Resolution: 3.89 Å
EM Method: Single-particle
Fitted PDBs: 8u0v
Q-score: 0.293
Ali BA, Judy RM, Chowdhury S, Jacobsen NK, Castanzo DT, Carr KL, Richardson CD, Lander GC, Martin A, Gardner BM
J Biol Chem (2023) 300 pp. 105504-105504 [ Pubmed: 38036174 DOI: doi:10.1016/j.jbc.2023.105504 ]
- Pex1/pex6 aaa-atpase (637 kDa, Complex from Saccharomyces cerevisiae)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Peroxisomal atpase pex1 (118 kDa, Protein from Saccharomyces cerevisiae)
- Peroxisomal atpase pex6 (117 kDa, Protein from Saccharomyces cerevisiae)