› 7un7

X-ray diffraction
2.04Å resolution

DNA Polymerase lambda in complex with a 1nt microhomology substrate

Released:
DOI: 10.2210/pdb7un7/pdb
PDB entry 7un7 coloured by chain, front view.
PDB entry 7un7 coloured by chain, side view.
PDB entry 7un7 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
PolĪ» promotes microhomology-mediated end-joining.
Chandramouly G, Jamsen J, Borisonnik N, Tyagi M, Calbert ML, Tredinnick T, Ozdemir AY, Kent T, Demidova EV, Arora S, Wilson SH, Pomerantz RT
Nat Struct Mol Biol 30 107-114 (2023)
PMID: 36536104

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 pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-122192 (preferred)
Entry contents:
1 distinct polypeptide molecule
4 distinct DNA molecules
Macromolecules (5 distinct):
DNA polymerase lambda Chain: A
Molecule details ›
Chain: A
Length: 329 amino acids
Theoretical weight: 36.7 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UGP5 (Residues: 242-575; Coverage: 57%)
Gene name: POLL
Sequence domains:
DNA (5'-D(*CP*GP*GP*CP*AP*GP*T)-3') Chain: T
Molecule details ›
Chain: T
Length: 7 nucleotides
Theoretical weight: 2.14 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*TP*AP*CP*TP*G)-3') Chain: U
Molecule details ›
Chain: U
Length: 5 nucleotides
Theoretical weight: 1.5 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*CP*AP*GP*TP*AP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 6 nucleotides
Theoretical weight: 1.79 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

5 bound ligands:
Ligand TTP 1 x TTP
Ligand GOL 1 x GOL
Ligand NA 2 x NA
Ligand CA 2 x CA
Ligand EDO 4 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 56.135Å b: 62.774Å c: 140.193Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.221 0.22 0.247
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 citation in other articles

The APE2 nuclease is essential for DNA double-strand break repair by microhomology-mediated end joining.
Fleury et al. (2023)
2 more