1DC1

RESTRICTION ENZYME BSOBI/DNA COMPLEX STRUCTURE: ENCIRCLEMENT OF THE DNA AND HISTIDINE-CATALYZED HYDROLYSIS WITHIN A CANONICAL RESTRICTION ENZYME FOLD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.190 
  • R-Value Observed: 0.190 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis.

van der Woerd, M.J.Pelletier, J.J.Xu, S.Friedman, A.M.

(2001) Structure 9: 133-144

  • DOI: 10.1016/s0969-2126(01)00564-0
  • Primary Citation of Related Structures:  
    1DC1

  • PubMed Abstract: 
  • Restriction endonucleases form a diverse family of proteins with substantial variation in sequence, structure, and interaction with recognition site DNA. BsoBI is a thermophilic restriction endonuclease that exhibits both base-specific and degenerate ...

    Restriction endonucleases form a diverse family of proteins with substantial variation in sequence, structure, and interaction with recognition site DNA. BsoBI is a thermophilic restriction endonuclease that exhibits both base-specific and degenerate recognition within the sequence CPyCGPuG.


    Related Citations: 
    • Cloning and sequence comparison of AvaI and BsoBI restriction modification systems
      Ruan, H., Lunnen, K.D., Scott, M.E., Moran, L.S., Slatko, B.E., Pelletier, J.J., Hess, E.J., Benner II, J., Wilson, G.G.
      (1996) Mol Gen Genet 252: 695

    Organizational Affiliation

    Department of Biological Sciences, Purdue University, 47907, West Lafayette, IN, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BSOBI RESTRICTION ENDONUCLEASEAB323Geobacillus stearothermophilusMutation(s): 0 
Gene Names: bsoBIR
EC: 3.1.21.4
Find proteins for P70985 (Geobacillus stearothermophilus)
Explore P70985 
Go to UniProtKB:  P70985
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*T*AP*TP*AP*CP*TP*CP*GP*AP*GP*TP*AP*T)-3')C, W13N/A
    Small Molecules
    Ligands 1 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    DIO
    Query on DIO

    Download CCD File 
    A, B
    1,4-DIETHYLENE DIOXIDE
    C4 H8 O2
    RYHBNJHYFVUHQT-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 1.70 Å
    • R-Value Free: 0.253 
    • R-Value Work: 0.190 
    • R-Value Observed: 0.190 
    • Space Group: P 21 21 21
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 80.294α = 90
    b = 87.823β = 90
    c = 99.454γ = 90
    Software Package:
    Software NamePurpose
    X-PLORmodel building
    X-PLORrefinement
    DENZOdata reduction
    SCALEPACKdata scaling
    X-PLORphasing

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History 

    • Version 1.0: 2001-02-21
      Type: Initial release
    • Version 1.1: 2008-04-27
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance