› 3r7p

X-ray diffraction
2.7Å resolution

The crystal structure of I-LtrI

Released:
DOI: 10.2210/pdb3r7p/pdb
PDB entry 3r7p coloured by chain, front view.
PDB entry 3r7p coloured by chain, side view.
PDB entry 3r7p coloured by chain, top view.
Source organism: Leptographium truncatum
Primary publication:
Tapping natural reservoirs of homing endonucleases for targeted gene modification.
Takeuchi R, Lambert AR, Mak AN, Jacoby K, Dickson RJ, Gloor GB, Scharenberg AM, Edgell DR, Stoddard BL
Proc Natl Acad Sci U S A 108 13077-82 (2011)
PMID: 21784983

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
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111771 (preferred)
Entry contents:
1 distinct polypeptide molecule
4 distinct DNA molecules
Macromolecules (5 distinct):
Homing endonuclease LAGLIDADG domain-containing 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:
Ligand MN 1 x MN
Ligand MG 4 x MG
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

Quick links

Citations

17 review citations

Genome engineering with targetable nucleases.
Carroll D. (2014)
16 more

6 mentions without citation

Tapping natural reservoirs of homing endonucleases for targeted gene modification.
Takeuchi et al. (2011)
5 more