› 1cyq

X-ray diffraction
1.93Å resolution

INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX

Released:
DOI: 10.2210/pdb1cyq/pdb
PDB entry 1cyq coloured by chain, front view.
PDB entry 1cyq coloured by chain, side view.
PDB entry 1cyq coloured by chain, top view.
Source organism: Physarum polycephalum
Primary publication:
A novel endonuclease mechanism directly visualized for I-PpoI.
Galburt EA, Chevalier B, Tang W, Jurica MS, Flick KE, Monnat RJ, Stoddard BL
Nat Struct Biol 6 1096-9 (1999)
PMID: 10581547

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113565 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Intron-encoded endonuclease I-PpoI Chains: A, B
Molecule details ›
Chains: A, B
Length: 162 amino acids
Theoretical weight: 17.61 KDa
Source organism: Physarum polycephalum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q94702 (Residues: 2-163; Coverage: 99%)
Sequence domains: Zinc-binding loop region of homing endonuclease
Structure domains: Homing Intron 3 (I-ppo) Encoded Endonuclease; Chain A
5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3' Chains: C, D
Molecule details ›
Chains: C, D
Length: 21 nucleotides
Theoretical weight: 6.44 KDa
Source organism: Physarum polycephalum
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 2 x MG
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P3121
Unit cell:
a: 113.866Å b: 113.866Å c: 89.04Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.204 0.204 0.235
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

10 review citations

Structure and function of type II restriction endonucleases.
Pingoud et al. (2001)
9 more

2 mentions without citation

Structural classification of zinc fingers: survey and summary.
Krishna et al. (2003)
1 more