9OYN | pdb_00009oyn

Structure of the E. coli clamp loader DnaX-complex loading beta-clamp onto 10-nt gapped DNA in state 2 conformer 6 with fully closed clamp

External Resource: Annotation

Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C, D	DNA polymerase III subunit tau	ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid DNA clamp loader activity catalytic activity ATP-dependent activity DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid DNA clamp loader activity catalytic activity ATP-dependent activity DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding pyrophosphatase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides ATP hydrolysis activity enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity cation binding metal ion binding identical protein binding protein binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication viral gene expression viral process viral translational frameshifting viral translation	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle DNA polymerase III, clamp loader complex intracellular protein-containing complex protein-DNA complex intracellular membraneless organelle chromosome membraneless organelle replication fork replisome
F, G	Beta sliding clamp	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity hydrolase activity exonuclease activity identical protein binding protein binding	DNA-templated DNA replication primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA strand elongation DNA replication metabolic process cellular process DNA strand elongation involved in DNA replication macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm transferase complex, transferring phosphorus-containing groups DNA polymerase III complex protein-containing complex catalytic complex transferase complex DNA polymerase complex intracellular protein-containing complex
J	DNA polymerase III subunit psi	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity hydrolase activity exonuclease activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process response to stimulus response to radiation response to abiotic stimulus DNA-templated DNA replication	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle DNA polymerase III, clamp loader complex intracellular protein-containing complex protein-DNA complex intracellular membraneless organelle chromosome membraneless organelle replication fork replisome
I	10-nt gapped DNA primer strand 1	-	-	-
H	10-nt gapped DNA template strand	-	-	-
E	DNA polymerase III subunit delta'	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity hydrolase activity exonuclease activity ATP-dependent activity, acting on DNA DNA clamp loader activity ATP-dependent activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle DNA polymerase III, clamp loader complex intracellular protein-containing complex protein-DNA complex intracellular membraneless organelle chromosome membraneless organelle replication fork replisome
A	DNA polymerase III subunit delta	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding ATP-dependent activity, acting on DNA DNA clamp loader activity ATP-dependent activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups intracellular organelle DNA polymerase III complex cellular anatomical structure organelle DNA polymerase III, clamp loader complex intracellular protein-containing complex protein-DNA complex intracellular membraneless organelle chromosome membraneless organelle replication fork replisome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C, D	IPR050238	DNA Replication and Repair Clamp Loader Complex	Family
B, C, D	IPR021029	DNA polymerase III, tau subunit, domain V	Domain
B, C, D	IPR008921	DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal	Homologous Superfamily
B, C, D	IPR038249	DNA polymerase III, tau subunit, domain V superfamily	Homologous Superfamily
B, C, D	IPR003593	AAA+ ATPase domain	Domain
B, C, D	IPR045085	DNA polymerase III, subunit gamma/tau, helical lid domain	Domain
B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, C, D	IPR001270	ClpA/B family	Family
B, C, D	IPR022754	DNA polymerase III, gamma subunit, domain III	Domain
B, C, D	IPR012763	DNA polymerase III, subunit gamma/ tau, N-terminal	Domain
B, C, D	IPR022001	DNA polymerase III subunit tau, DnaB-binding domain IV	Domain
F, G	IPR046938	DNA clamp superfamily	Homologous Superfamily
F, G	IPR022637	DNA polymerase III, beta sliding clamp, central	Domain
F, G	IPR001001	DNA polymerase III, beta sliding clamp	Family
F, G	IPR022634	DNA polymerase III, beta sliding clamp, N-terminal	Domain
F, G	IPR022635	DNA polymerase III, beta sliding clamp, C-terminal	Domain
J	IPR018382	DNA polymerase III, psi subunit, subgroup	Family
J	IPR036654	DNA polymerase III, psi subunit superfamily	Homologous Superfamily
J	IPR004615	DNA polymerase III, psi subunit	Family
E	IPR050238	DNA Replication and Repair Clamp Loader Complex	Family
E	IPR048731	DNA polymerase III subunit delta', AAA+ ATPase lid domain, gammaproteobacteria	Domain
E	IPR004622	DNA polymerase III, delta prime subunit	Domain
E	IPR008921	DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal	Homologous Superfamily
E	IPR015199	DNA polymerase III, delta subunit, C-terminal	Domain
E	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR008921	DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal	Homologous Superfamily
A	IPR010372	DNA polymerase III delta, N-terminal	Domain
A	IPR005790	DNA polymerase III, delta subunit	Family
A	IPR032780	DNA polymerase III subunit delta, C-terminal	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

Prepare Data

Validate Data

Deposit Data

Help and Resources

.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 9OYN | pdb_00009oyn

Structure of the E. coli clamp loader DnaX-complex loading beta-clamp onto 10-nt gapped DNA in state 2 conformer 6 with fully closed clamp

External Resource: Annotation

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

9OYN | pdb_00009oyn