› 4p4p

X-ray diffraction
2.3Å resolution

Crystal structure of Leishmania infantum polymerase beta: Nick complex

Released:
DOI: 10.2210/pdb4p4p/pdb
PDB entry 4p4p coloured by chain, front view.
PDB entry 4p4p coloured by chain, side view.
PDB entry 4p4p coloured by chain, top view.
Source organisms:
Primary publication:
Structures of the Leishmania infantum polymerase beta.
Mejia E, Burak M, Alonso A, Larraga V, Kunkel TA, Bebenek K, Garcia-Diaz M
DNA Repair (Amst) 18 1-9 (2014)
PMID: 24666693

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 tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117963 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA polymerase Chain: A
Molecule details ›
Chain: A
Length: 378 amino acids
Theoretical weight: 42.96 KDa
Source organism: Leishmania infantum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9U6N3 (Residues: 1-376; Coverage: 100%)
Sequence domains:
Structure domains:
DNA (5'-D(*CP*AP*GP*TP*AP*CP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 7 nucleotides
Theoretical weight: 2.1 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*CP*CP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 11 nucleotides
Theoretical weight: 3.37 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P6522
Unit cell:
a: 106.497Å b: 106.497Å c: 159.609Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.195 0.191 0.234
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Molecular and Functional Characteristics of DNA Polymerase Beta-Like Enzymes From Trypanosomatids.
Maldonado et al. (2021)
2 other articles