Crystal Structure of Lactococcus lactis Formamido-pyrimidine DNA Glycosylase (alias Fpg or MutM) Non Covalently Bound to an AP Site Containing DNA.
DOI:10.2210/pdb1kfv/pdb   NDB ID: PD0277
1KFV
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 78343.21
    Molecule: 5'-D(*CP*TP*CP*TP*TP*TP*(PDI)P*TP*TP*TP*CP*TP*C)-3'
    Polymer: 1 Type: dna Length: 13
    Chains: D, G
    Details: contains a 1,3 propanediol site (PDI)
    Molecule: 5'-D(*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*AP*G)-3'
    Polymer: 2 Type: dna Length: 13
    Chains: E, H
    Molecule: Formamido-pyrimidine DNA glycosylase
    Polymer: 3 Type: protein Length: 271
    Chains: A, B
    EC#: 3.2.2.23    4.2.99.18   
    Mutation: P1G
    Organism: Lactococcus lactis
    Gene Names: mutM fpg
    UniProtKB: Protein Feature View | Search PDB | P42371  
     
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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Lactococcus lactis   Taxonomy   Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    1EE8   1ee8 is Thermus thermophilus MutM (FPG) 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    GOL
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    GOL C3 H8 O3
    GLYCEROL
    ZN
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    ZN Zn
    ZINC ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    PDI
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    PDI C3 H9 O5 P nonPolymer
    MSE
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    MSE C5 H11 N O2 Se MET lPeptideLinking
     
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  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:PD0277
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly 1       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Serre, L.,  Pereira de Jesus, K.,  Boiteux, S.,  Zelwer, C.,  Castaing, B.

    Deposition:   2001-11-23
    Release:   2002-06-14
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
    2011-07-13
    Non-polymer description
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.55
    R-Value: 0.251 (work)
    R-Free: 0.285
    Space Group: P 1 21 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 69.88 α = 90.00 
    b = 62.03 β = 104.70 
    c = 80.97 γ = 90.00