› 1t3n

X-ray diffraction
2.3Å resolution

Structure of the catalytic core of DNA polymerase Iota in complex with DNA and dTTP

Released:
DOI: 10.2210/pdb1t3n/pdb
PDB entry 1t3n coloured by chain, ensemble of 2 models, front view.
PDB entry 1t3n coloured by chain, ensemble of 2 models, side view.
PDB entry 1t3n coloured by chain, ensemble of 2 models, top view.
Source organism: Homo sapiens
Primary publication:
Replication by human DNA polymerase-iota occurs by Hoogsteen base-pairing.
Nair DT, Johnson RE, Prakash S, Prakash L, Aggarwal AK
Nature 430 377-80 (2004)
PMID: 15254543

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-114630 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase iota Chains: A, B
Molecule details ›
Chains: A, B
Length: 388 amino acids
Theoretical weight: 43.88 KDa
Source organism: Homo sapiens
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q9UNA4 (Residues: 52-439; Coverage: 52%)
Gene names: POLI, RAD30B
Sequence domains:
Structure domains:
Template DNA strand Chain: T
Molecule details ›
Chain: T
Length: 14 nucleotides
Theoretical weight: 4.19 KDa
Source organism: Homo sapiens
Expression system: Not provided
Primer DNA strand Chain: P
Molecule details ›
Chain: P
Length: 13 nucleotides
Theoretical weight: 4.05 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand TTP 1 x TTP
1 modified residue:
Ligand DOC 1 x DOC

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-ID-B
Spacegroup: P65
Unit cell:
a: 98.831Å b: 98.831Å c: 202.755Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.265 0.265 0.286
Expression systems:
  • Saccharomyces cerevisiae
  • Not provided

Quick links

Citations

36 review citations

Eukaryotic translesion synthesis DNA polymerases: specificity of structure and function.
Prakash et al. (2005)
35 more

9 mentions without citation

Detect, correct, retract: How to manage incorrect structural models.
Wlodawer et al. (2018)
8 more