› 1krp

X-ray diffraction
2.2Å resolution

DNA polymerase I Klenow fragment (E.C.2.7.7.7) mutant/DNA complex

Released:
DOI: 10.2210/pdb1krp/pdb
PDB entry 1krp coloured by chain, front view.
PDB entry 1krp coloured by chain, side view.
PDB entry 1krp coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural principles for the inhibition of the 3'-5' exonuclease activity of Escherichia coli DNA polymerase I by phosphorothioates.
Brautigam CA, Steitz TA
J Mol Biol 277 363-77 (1998)
PMID: 9514742

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114089 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
DNA polymerase I Chain: A
Molecule details ›
Chain: A
Length: 605 amino acids
Theoretical weight: 68.19 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P00582 (Residues: 324-928; Coverage: 65%)
Gene names: JW3835, b3863, polA, resA
Sequence domains:
Structure domains:
DNA (5'-D(P*TP*TP*PST)-3') Chain: B
Molecule details ›
Chain: B
Length: 3 nucleotides
Theoretical weight: 884 Da
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
1 modified residue:
Ligand PST 1 x PST

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12C
Spacegroup: P43
Unit cell:
a: 101.6Å b: 101.6Å c: 85.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.19 0.255
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

14 review citations

Making and breaking nucleic acids: two-Mg2+-ion catalysis and substrate specificity.
Yang et al. (2006)
13 more

2 mentions without citation

Protein-RNA interactions: a structural analysis.
Jones et al. (2001)
1 more