catalytic domain of intron endonuclease I-TevI, E75A mutant

Experimental Data Snapshot

  • Resolution: 1.60 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.197 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


Catalytic domain structure and hypothesis for function of GIY-YIG intron endonuclease I-TevI.

Van Roey, P.Meehan, L.Kowalski, J.C.Belfort, M.Derbyshire, V.

(2002) Nat Struct Biol 9: 806-811

  • DOI: https://doi.org/10.1038/nsb853
  • Primary Citation of Related Structures:  
    1LN0, 1MK0

  • PubMed Abstract: 

    I-TevI, a member of the GIY-YIG family of homing endonucleases, consists of an N-terminal catalytic domain and a C-terminal DNA-binding domain joined by a flexible linker. The GIY-YIG motif is in the N-terminal domain of I-TevI, which corresponds to a phylogenetically widespread catalytic cartridge that is often associated with mobile genetic elements. The crystal structure of the catalytic domain of I-TevI, the first of any GIY-YIG endonuclease, reveals a novel alpha/beta-fold with a central three-stranded antiparallel beta-sheet flanked by three helices. The most conserved and putative catalytic residues are located on a shallow, concave surface and include a metal coordination site. Similarities in the three-dimensional arrangement of the catalytically important residues and the cation-binding site with those of the His-Cys box endonuclease I-PpoI suggest the possibility of mechanistic relationships among these different families of homing endonucleases despite completely different folds.

  • Organizational Affiliation

    Wadsworth Center, New York State Department Health, Albany, New York 12201-0509, USA. vanroey@wadsworth.org

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Intron-associated endonuclease 197Tequatrovirus T4Mutation(s): 1 
EC: 3.1
Find proteins for P13299 (Enterobacteria phage T4)
Explore P13299 
Go to UniProtKB:  P13299
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP13299
Sequence Annotations
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Resolution: 1.60 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.197 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 28.36α = 90
b = 39.43β = 90
c = 97.42γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-10-30
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-10-27
    Changes: Database references, Derived calculations