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3glg

Crystal Structure of a Mutant (gammaT157A) E. coli Clamp Loader Bound to Primer-Template DNA

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA polymerase III subunit delta

Escherichia coli

UniProt P28630

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit tau × 3 （P06710） ;DNA polymerase III subunit delta' ; × 1 （P28631） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit tau × 3 （P06710） ;DNA polymerase III subunit delta' ; × 1 （P28631） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1jqj 1jqj 1jqj 1jqj 1jqj 1jql 1jr3 1xxh 1xxh 1xxi 1xxi 3glf

47 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name HOLA_ECOLI
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–343； UniProt 1–343 Author chain F； PDBConstruct 1–343； UniProt 1–343

DNA polymerase III subunit tau

Escherichia coli

UniProt P06710

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit delta × 1 （P28630） ;DNA polymerase III subunit delta' ; × 1 （P28631） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit delta × 1 （P28630） ;DNA polymerase III subunit delta' ; × 1 （P28631） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1njf 1njf 1njf 1njf 1njg 1njg 2aya

7 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1jr3 1xxh 1xxh 1xxi 1xxi 3glf 3glf 3glg 3glg 3glh 3glh 3glh

43 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DPO3X_ECOLI
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 23–395； UniProt 1–373 Author chain C； PDBConstruct 23–395； UniProt 1–373 Author chain D； PDBConstruct 23–395； UniProt 1–373 Author chain G； PDBConstruct 23–395； UniProt 1–373 Author chain H； PDBConstruct 23–395； UniProt 1–373 Author chain I； PDBConstruct 23–395； UniProt 1–373

;DNA polymerase III subunit delta' ;

Escherichia coli

UniProt P28631

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit delta × 1 （P28630） DNA polymerase III subunit tau × 3 （P06710） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 5 DNA 2 DNA polymerase III subunit delta × 1 （P28630） DNA polymerase III subunit tau × 3 （P06710） ;DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*GP*GP*CP*CP*AP*G)-3') ; × 1 ;DNA (5'-D(*CP*TP*GP*GP*CP*CP*TP*AP*TP*A)-3') ; × 1 ADENOSINE-5'-DIPHOSPHATE × 3 BERYLLIUM TRIFLUORIDE ION × 3 MAGNESIUM ION × 3 ZINC ION × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1a5t

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1jr3 1xxh 1xxh 1xxi 1xxi 3glf 3glf 3glg 3glg 3glh 3glh 3glh

41 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name HOLB_ECOLI
Isoform —
PDB entities 3
Chains and sequence ranges Author chain E； PDBConstruct 1–334； UniProt 1–334 Author chain J； PDBConstruct 1–334； UniProt 1–334

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id3glg
Deposition date deposition_date2009-03-12
Structure title titleCrystal Structure of a Mutant (gammaT157A) E. coli Clamp Loader Bound to Primer-Template DNA
Keywords keywords;AAA+ ATPase, Clamp Loader, Gamma Complex, Replication, DNA replication, DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase, ATP-binding, Nucleotide-binding, Transferase-DNA COMPLEX ;; Transferase/DNA
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3glg__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3glg__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3glg__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）38.94 Å
Rg (electron density)38.26 Å
Total Rg38.67 Å
Atom count14317
Residues1782
Excluded volume253640 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3glg__assembly_1__model_1 heptameric （7） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3glg__assembly_2__model_1 heptameric （7） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (9)

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6. Fold Classification (SCOP + CATH) 30 domains

CATH v4.4 (30 domains)

Domain ID domain_id3glgA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgA03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgB03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgC03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgD03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgE01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgE02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily10 — Ubiquitin-associated (UBA) domain
Domain ID domain_id3glgE03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgF01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgF02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgF03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgG01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgG02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgG03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgH01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgH02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgH03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgI01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgI02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily60 —
Domain ID domain_id3glgI03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id3glgJ01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id3glgJ02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily10 — Ubiquitin-associated (UBA) domain
Domain ID domain_id3glgJ03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology272 — Zinc Finger, Delta Prime; domain 3
Homologous superfamily homologous superfamily10 —
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7. Citations (1)