› › Structure analysis

Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion

X-ray diffraction
2.4Å resolution
PDB entry 1n56 coloured by chain, front view.
PDB entry 1n56 coloured by chain, side view.
PDB entry 1n56 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero trimer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

Quick links

Assemblies

Assembly 1
Download    3D Visualisation
Assembly Name: DNA polymerase IV and DNA
hide full assembly name
Multimeric state: hetero trimer
Accessible surface area: 20321.29 Å2
Buried surface area: 5962.33 Å2
Dissociation area: 1,800.49 Å2
Dissociation energy (ΔGdiss): 30.89 kcal/mol
Dissociation entropy (TΔSdiss): 12.15 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-114232
Assembly 2 (preferred)
Download    3D Visualisation
Assembly Name: DNA polymerase IV and DNA
hide full assembly name
Multimeric state: hetero trimer
Accessible surface area: 19886.3 Å2
Buried surface area: 6313.05 Å2
Dissociation area: 1,468.85 Å2
Dissociation energy (ΔGdiss): 33.91 kcal/mol
Dissociation entropy (TΔSdiss): 10.8 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-114232

Macromolecules

DNA polymerase IV
Chains: A, B
Length: 352 amino acids
Theoretical weight: 40.26 KDa
Source organism: Saccharolobus solfataricus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q97W02 (Residues: 1-352; Coverage: 100%)
Gene names: SSO2448, dbh, dpo4
Pfam:
InterPro:
CATH:
SCOP:
DNA polymerase IV in PDB entry 1n56, assembly 2, front view.
DNA polymerase IV in PDB entry 1n56, assembly 2, side view.
DNA polymerase IV in PDB entry 1n56, assembly 2, top view.
Molecule details ›

Search similar proteins

DNA chains C, E
Name: 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3'
Representative chains: C, E
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 14 nucleotides
Theoretical weight: 4.42 KDa
5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3' in PDB entry 1n56, assembly 2, front view.
5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3' in PDB entry 1n56, assembly 2, side view.
5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*AP*A)-3' in PDB entry 1n56, assembly 2, top view.
Molecule details ›

Search similar DNA

DNA chains D, F
Name: 5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'
Representative chains: D, F
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 17 nucleotides
Theoretical weight: 4.93 KDa
5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' in PDB entry 1n56, assembly 2, front view.
5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' in PDB entry 1n56, assembly 2, side view.
5'-D(*TP*CP*AP*TP*(3DR)P*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' in PDB entry 1n56, assembly 2, top view.
Molecule details ›

Search similar DNA

Quick links