PDBe 3r7p

X-ray diffraction
2.7Å resolution

The crystal structure of I-LtrI

Released:

Function and Biology Details

Reaction catalysed:
Endonucleolytic cleavage to 5'-phosphodinucleotide and 5'-phosphooligonucleotide end-products
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Entry contents:
1 distinct polypeptide molecule
4 distinct DNA molecules
Macromolecules (5 distinct):
Ribosomal protein 3/homing endonuclease-like fusion protein Chain: A
Molecule details ›
Chain: A
Length: 315 amino acids
Theoretical weight: 36.02 KDa
Source organism: Leptographium truncatum
Expression system: Escherichia coli
UniProt:
  • Canonical: C7SWF3 (Residues: 398-712; Coverage: 44%)
Gene names: HEG fusion, rps3
Sequence domains: LAGLIDADG endonuclease
Structure domains: Homing endonucleases
DNA (5'-D(*GP*GP*TP*CP*TP*AP*AP*AP*CP*GP*TP*CP*GP*TP*AP*T)-3') Chain: B
Molecule details ›
Chain: B
Length: 16 nucleotides
Theoretical weight: 4.91 KDa
Source organism: Leptographium truncatum
Expression system: Not provided
DNA (5'-D(P*AP*GP*GP*AP*GP*CP*AP*TP*TP*TP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 11 nucleotides
Theoretical weight: 3.41 KDa
Source organism: Leptographium truncatum
Expression system: Not provided
DNA (5'-D(*CP*AP*AP*AP*TP*GP*CP*TP*CP*CP*TP*AP*TP*AP*C)-3') Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 4.51 KDa
Source organism: Leptographium truncatum
Expression system: Not provided
DNA (5'-D(P*GP*AP*CP*GP*TP*TP*TP*AP*GP*AP*CP*C)-3') Chain: E
Molecule details ›
Chain: E
Length: 12 nucleotides
Theoretical weight: 3.66 KDa
Source organism: Leptographium truncatum
Expression system: Not provided

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: C2
Unit cell:
a: 113.089Å b: 42.595Å c: 103.195Å
α: 90° β: 110.63° γ: 90°
R-values:
R R work R free
0.196 0.192 0.27
Expression systems:
  • Escherichia coli
  • Not provided