› 5ywv

X-ray diffraction
2.3Å resolution

Crystal structure of TREX1 in complex with a inosine contained ssDNA

Released:
DOI: 10.2210/pdb5ywv/pdb
PDB entry 5ywv coloured by chain, front view.
PDB entry 5ywv coloured by chain, side view.
PDB entry 5ywv coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for overhang excision and terminal unwinding of DNA duplexes by TREX1.
Huang KW, Liu TC, Liang RY, Chu LY, Cheng HL, Chu JW, Hsiao YY
PLoS Biol 16 e2005653 (2018)
PMID: 29734329

Function and Biology Details

Reaction catalysed: 
Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119467 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Three-prime repair exonuclease 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 259 amino acids
Theoretical weight: 27.99 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q91XB0 (Residues: 1-242; Coverage: 77%)
Gene name: Trex1
Structure domains: Ribonuclease H-like superfamily/Ribonuclease H
INOSINE CONTAINED SSDNA Chains: C, D
Molecule details ›
Chains: C, D
Length: 7 nucleotides
Theoretical weight: 2.14 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

4 bound ligands:
Ligand MG 4 x MG
Ligand NA 4 x NA
Ligand EDO 1 x EDO
Ligand MES 1 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: P212121
Unit cell:
a: 65.192Å b: 80.713Å c: 85.247Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.164 0.159 0.22
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

6 review citations

Chemical and Biomolecular Strategies for STING Pathway Activation in Cancer Immunotherapy.
Garland et al. (2022)
5 more

1 mention without citation

Structural basis for overhang excision and terminal unwinding of DNA duplexes by TREX1.
Huang et al. (2018)