3R3P

Homing Endonuclease I-Bth0305I Catalytic Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.220 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Activity, specificity and structure of I-Bth0305I: a representative of a new homing endonuclease family.

Taylor, G.K.Heiter, D.F.Pietrokovski, S.Stoddard, B.L.

(2011) Nucleic Acids Res 39: 9705-9719

  • DOI: 10.1093/nar/gkr669
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Novel family of putative homing endonuclease genes was recently discovered during analyses of metagenomic and genomic sequence data. One such protein is encoded within a group I intron that resides in the recA gene of the Bacillus thuringiensis 03058 ...

    Novel family of putative homing endonuclease genes was recently discovered during analyses of metagenomic and genomic sequence data. One such protein is encoded within a group I intron that resides in the recA gene of the Bacillus thuringiensis 03058-36 bacteriophage. Named I-Bth0305I, the endonuclease cleaves a DNA target in the uninterrupted recA gene at a position immediately adjacent to the intron insertion site. The enzyme displays a multidomain, homodimeric architecture and footprints a DNA region of ~60 bp. Its highest specificity corresponds to a 14-bp pseudopalindromic sequence that is directly centered across the DNA cleavage site. Unlike many homing endonucleases, the specificity profile of the enzyme is evenly distributed across much of its target site, such that few single base pair substitutions cause a significant decrease in cleavage activity. A crystal structure of its C-terminal domain confirms a nuclease fold that is homologous to very short patch repair (Vsr) endonucleases. The domain architecture and DNA recognition profile displayed by I-Bth0305I, which is the prototype of a homing lineage that we term the 'EDxHD' family, are distinct from previously characterized homing endonucleases.


    Organizational Affiliation

    Graduate Program in Molecular and Cellular Biology and the Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA 98019, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mobile intron proteinA, B105Bacillus phage 0305phi8-36Mutation(s): 0 
Gene Names: ORF0290305phi8-36p029
Find proteins for A7KV39 (Bacillus phage 0305phi8-36)
Explore A7KV39 
Go to UniProtKB:  A7KV39
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.220 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.292α = 90
b = 52.292β = 90
c = 133.787γ = 90
Software Package:
Software NamePurpose
BOSdata collection
PHENIXmodel building
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-10-05
    Type: Initial release
  • Version 1.1: 2011-12-28
    Changes: Database references