› 1s9f

X-ray diffraction
2Å resolution

DPO with AT matched

Released:
DOI: 10.2210/pdb1s9f/pdb
PDB entry 1s9f coloured by chain, front view.
PDB entry 1s9f coloured by chain, side view.
PDB entry 1s9f coloured by chain, top view.
Source organism: Saccharolobus solfataricus
Primary publication:
Dpo4 is hindered in extending a G.T mismatch by a reverse wobble.
Trincao J, Johnson RE, Wolfle WT, Escalante CR, Prakash S, Prakash L, Aggarwal AK
Nat Struct Mol Biol 11 457-62 (2004)
PMID: 15077104

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114581 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase IV Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 352 amino acids
Theoretical weight: 40.26 KDa
Source organism: Saccharolobus solfataricus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q97W02 (Residues: 1-352; Coverage: 100%)
Gene names: SSO2448, dbh, dpo4
Sequence domains:
Structure domains:
5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*A)-3' Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 13 nucleotides
Theoretical weight: 4.11 KDa
Source organism: Saccharolobus solfataricus
Expression system: Not provided
5'-D(*T*TP*CP*AP*GP*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3' Chains: I, J, K, L
Molecule details ›
Chains: I, J, K, L
Length: 18 nucleotides
Theoretical weight: 5.38 KDa
Source organism: Saccharolobus solfataricus
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand CA 4 x CA
Ligand MG 4 x MG
Ligand DDY 4 x DDY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21
Unit cell:
a: 104.8Å b: 100.3Å c: 110.8Å
α: 90° β: 95.2° γ: 90°
R-values:
R R work R free
0.212 0.205 0.239
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

7 review citations

Eukaryotic translesion synthesis DNA polymerases: specificity of structure and function.
Prakash et al. (2005)
6 more