› 1xsl

X-ray diffraction
2.3Å resolution

Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap

Released:
DOI: 10.2210/pdb1xsl/pdb
PDB entry 1xsl coloured by chain, front view.
PDB entry 1xsl coloured by chain, side view.
PDB entry 1xsl coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A closed conformation for the Pol lambda catalytic cycle.
Garcia-Diaz M, Bebenek K, Krahn JM, Kunkel TA, Pedersen LC
Nat Struct Mol Biol 12 97-8 (2005)
PMID: 15608652

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-114826 (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: B, F, J, N
Molecule details ›
Chains: B, F, J, N
Length: 11 nucleotides
Theoretical weight: 3.34 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(*GP*TP*GP*CP*GP*C)-3' Chains: C, G, K, O
Molecule details ›
Chains: C, G, K, O
Length: 6 nucleotides
Theoretical weight: 1.83 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(P*GP*CP*CP*G)-3' Chains: D, H, L, P
Molecule details ›
Chains: D, H, L, P
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand MG 3 x MG
Ligand CAC 1 x CAC
Ligand NA 6 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: P21212
Unit cell:
a: 191.504Å b: 98.812Å c: 104.519Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.207 0.252
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

19 review citations

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

19 mentions without citation

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