› 3mgi

X-ray diffraction
2.6Å resolution

Ternary complex of a DNA polymerase lambda loop mutant

Released:
DOI: 10.2210/pdb3mgi/pdb
PDB entry 3mgi coloured by chain, front view.
PDB entry 3mgi coloured by chain, side view.
PDB entry 3mgi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Loop 1 modulates the fidelity of DNA polymerase lambda.
Bebenek K, Garcia-Diaz M, Zhou RZ, Povirk LF, Kunkel TA
Nucleic Acids Res 38 5419-31 (2010)
PMID: 20435673

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 analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116564 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA polymerase lambda Chain: A
Molecule details ›
Chain: A
Length: 329 amino acids
Theoretical weight: 36.74 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UGP5 (Residues: 242-575; Coverage: 57%)
Gene name: POLL
Sequence domains:
Structure domains:
DNA Chain: T
Molecule details ›
Chain: T
Length: 11 nucleotides
Theoretical weight: 3.36 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*CP*AP*GP*TP*AP*T)-3') Chain: P
Molecule details ›
Chain: P
Length: 6 nucleotides
Theoretical weight: 1.81 KDa
Source organism: Homo sapiens
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: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand D3T 1 x D3T
Ligand MG 1 x MG
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P212121
Unit cell:
a: 56.177Å b: 63.235Å c: 140.382Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.2 0.27
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 review citations

Repair of double-strand breaks by end joining.
Chiruvella et al. (2013)
3 more

3 mentions without citation

Replication infidelity via a mismatch with Watson-Crick geometry.
Bebenek et al. (2011)
2 more