› 5kt6

X-ray diffraction
3.54Å resolution

Teranry complex of human DNA polymerase iota(1-445) inserting dCMPNPP opposite template G in the presence of Mg2+

Released:
DOI: 10.2210/pdb5kt6/pdb
PDB entry 5kt6 coloured by chain, front view.
PDB entry 5kt6 coloured by chain, side view.
PDB entry 5kt6 coloured by chain, top view.
Source organisms:
Primary publication:
Kinetic and Structural Impact of Metal Ions and Genetic Variations on Human DNA Polymerase ι.
Choi JY, Patra A, Yeom M, Lee YS, Zhang Q, Egli M, Guengerich FP
J Biol Chem 291 21063-21073 (2016)
PMID: 27555320

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 trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118966 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase iota Chain: A
Molecule details ›
Chain: A
Length: 445 amino acids
Theoretical weight: 49.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UNA4 (Residues: 1-445; Coverage: 60%)
Gene names: POLI, RAD30B
Sequence domains:
Structure domains:
DNA (5'-D(P*TP*GP*GP*GP*GP*TP*CP*CP*T)-3') Chain: T
Molecule details ›
Chain: T
Length: 9 nucleotides
Theoretical weight: 2.76 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*AP*GP*GP*AP*CP*CP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 7 nucleotides
Theoretical weight: 2.11 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand 0KX 1 x 0KX
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P6522
Unit cell:
a: 98.269Å b: 98.269Å c: 201.656Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.206 0.204 0.244
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

8-Oxoadenine: A «New» Player of the Oxidative Stress in Mammals?
Kruchinin et al. (2024)
5 other articles

1 mention without citation

Kinetic and Structural Impact of Metal Ions and Genetic Variations on Human DNA Polymerase ι.
Choi et al. (2016)