7kr4

X-ray diffraction
2.2Å resolution

Human DNA Ligase 1(E346A/E592A) Bound to a nicked DNA substrate control duplex

Released:

Function and Biology Details

Reaction catalysed:
(1a) ATP + [DNA ligase]-L-lysine = [DNA ligase]-N(6)-(5'-adenylyl)-L-lysine + diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121471 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA ligase 1 Chain: A
Molecule details ›
Chain: A
Length: 647 amino acids
Theoretical weight: 71.92 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P18858 (Residues: 262-904; Coverage: 70%)
Gene name: LIG1
Sequence domains:
DNA (5'-D(*AP*AP*TP*GP*TP*CP*TP*GP*CP*CP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 11 nucleotides
Theoretical weight: 3.31 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided
DNA (5'-D(P*AP*TP*TP*CP*TP*GP*C)-3') Chain: C
Molecule details ›
Chain: C
Length: 7 nucleotides
Theoretical weight: 2.09 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided
DNA (5'-D(*GP*CP*AP*GP*AP*AP*TP*GP*GP*GP*CP*AP*GP*AP*CP*AP*TP*T)-3') Chain: D
Molecule details ›
Chain: D
Length: 18 nucleotides
Theoretical weight: 5.59 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 72.374Å b: 96.556Å c: 114.997Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.165 0.162 0.215
Expression systems:
  • Escherichia coli
  • Not provided