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Mth0212 in complex with ssDNA in space group P32
DOI:10.2210/pdb3g3y/pdb   NDB ID: PD1228
3G3Y
Primary Citation
 
 
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  •   Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 66011.86
    Molecule: Exodeoxyribonuclease
    Polymer: 1 Type: protein Length: 265
    Chains: A, B
    EC#: 3.1.11.2   
    Mutation: T2A
    Organism Methanothermobacter thermautotrophicus str. Delta H
    Gene Name MTH_212
    UniProtKB:   Protein Feature View | Search PDB | O26314  
    Molecule: 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3'
    Polymer: 2 Type: dna Length: 9
    Chains: I
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Methanothermobacter thermautotrophicus   Taxonomy   Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    3FZI  1.9 Angstrom structure of the thermophilic exonuclease III homologue Mth0212 
    3G00  Mth0212 in complex with a 9bp blunt end dsDNA at 1.7 Angstrom 
    3G0A  Mth0212 with two bound manganese ions 
    3G0R  Complex of Mth0212 and an 8bp dsDNA with distorted ends 
    3G1K  Mth0212 (WT) crystallized in a monoclinic space group 
    3G2C  Mth0212 in complex with a short ssDNA (CGTA) 
    3G2D  Complex of Mth0212 and a 4 bp dsDNA with 3'-overhang 
    3G38  The catalytically inactive mutant Mth0212 (D151N) in complex with an 8 bp dsDNA 
    3G3C  Mth0212 (WT) in complex with a 6bp dsDNA containing a single one nucleotide long 3'-overhang 
    3G4T  Mth0212 (WT) in complex with a 7bp dsDNA 
    3G8V  The rationally designed catalytically inactive mutant Mth0212(D151N) 
    3G91  1.2 Angstrom structure of the exonuclease III homologue Mth0212 
    3GA6  Mth0212 in complex with two DNA helices 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name Interactions
    GOL
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    Download      		GOL C3 H8 O3
    GLYCEROL
    MG
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    Download      		MG Mg
    MAGNESIUM ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    UPS
    Search      		UPS C9 H13 N2 O7 P S DU dnaLinking
     
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  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: PD1228
     
 
Data in orange boxes are gathered from external resources (when available).
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  Biological Assembly 1       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Lakomek, K.,  Dickmanns, A.,  Ficner, R.

    Deposition:   2009-02-03
    Release:   2010-03-09
    Last Modified (REVDAT):   2010-06-23
     
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    2011-07-13
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  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.50
    R-Value: 0.248 (obs.)
    R-Free: 0.298
    Space Group: P 32
    Unit Cell:
      Length [Å] Angles [°]
    a = 80.49 α = 90.00 
    b = 80.49 β = 90.00 
    c = 79.75 γ = 120.00