› 4g3i

X-ray diffraction
2.5Å resolution

Crystal structure of Dpo4 in complex with DNA duplex

Released:
DOI: 10.2210/pdb4g3i/pdb
PDB entry 4g3i coloured by chain, front view.
PDB entry 4g3i coloured by chain, side view.
PDB entry 4g3i coloured by chain, top view.
Source organisms:
Entry authors: Yan YY, Gan JH, Huang Z

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117526 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase IV Chains: A, B
Molecule details ›
Chains: A, B
Length: 342 amino acids
Theoretical weight: 39.11 KDa
Source organism: Saccharolobus solfataricus P2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q97W02 (Residues: 1-341; Coverage: 97%)
Gene names: SSO2448, dbh, dpo4
Sequence domains:
Structure domains:
DNA Chains: C, E
Molecule details ›
Chains: C, E
Length: 16 nucleotides
Theoretical weight: 4.83 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA Chains: D, F
Molecule details ›
Chains: D, F
Length: 13 nucleotides
Theoretical weight: 3.98 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12B
Spacegroup: P1
Unit cell:
a: 52.472Å b: 52.634Å c: 99.445Å
α: 75.4° β: 80.35° γ: 70.97°
R-values:
R R work R free
0.243 0.241 0.294
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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