› 2gws

X-ray diffraction
2.4Å resolution

Crystal Structure of human DNA Polymerase lambda with a G/G mismatch in the primer terminus

Released:
DOI: 10.2210/pdb2gws/pdb
PDB entry 2gws coloured by chain, front view.
PDB entry 2gws coloured by chain, side view.
PDB entry 2gws coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Promiscuous mismatch extension by human DNA polymerase lambda.
Picher AJ, García-Díaz M, Bebenek K, Pedersen LC, Kunkel TA, Blanco L
Nucleic Acids Res 34 3259-66 (2006)
PMID: 16807316

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 tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115315 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA polymerase lambda Chains: A, E, I, M
Molecule details ›
Chains: A, E, I, M
Length: 335 amino acids
Theoretical weight: 37.48 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UGP5 (Residues: 242-575; Coverage: 58%)
Gene name: POLL
Sequence domains:
Structure domains:
5'-D(*CP*GP*GP*CP*AP*GP*CP*GP*CP*AP*C)-3' Chains: F, J, N, T
Molecule details ›
Chains: F, J, N, T
Length: 11 nucleotides
Theoretical weight: 3.34 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(*GP*TP*GP*CP*GP*G)-3' Chains: G, K, P, R
Molecule details ›
Chains: G, K, P, R
Length: 6 nucleotides
Theoretical weight: 1.87 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(P*GP*CP*CP*G)-3' Chains: D, H, L, Q
Molecule details ›
Chains: D, H, L, Q
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand NA 8 x NA
Ligand CAC 3 x CAC
Ligand MG 1 x MG
Ligand EDO 2 x EDO
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P21212
Unit cell:
a: 192.374Å b: 98.268Å c: 104.96Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.253
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

6 review citations

The X family portrait: structural insights into biological functions of X family polymerases.
Moon et al. (2007)
5 more

2 mentions without citation

3dDNA: A Computational Method of Building DNA 3D Structures.
Zhang et al. (2022)
1 more