Crystal structure of methyl CpG binding domain of MBD4 in complex with the 5mCG/hmCG sequence
DOI:10.2210/pdb3vyb/pdb   NDB ID: NA2057
3VYB
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase/dna
    Structure Weight: 16555.98
    Molecule: Methyl-CpG-binding domain protein 4
    Polymer: 1 Type: protein Length: 69
    Chains: A
    EC#: 3.2.2   
    Fragment: methyl CpG binding domain, UNP residues 69-136
    Organism: Mus musculus
    Gene Name: Mbd4
    UniProtKB: Protein Feature View | Search PDB | Q9Z2D7  
    Molecule: DNA (5'-D(*GP*TP*CP*AP*CP*TP*AP*CP*(5CM)P*GP*GP*AP*CP*A)-3')
    Polymer: 2 Type: dna Length: 14
    Chains: B
    Molecule: DNA (5'-D(*GP*TP*CP*(5HC)P*GP*GP*TP*AP*GP*TP*GP*AP*CP*T)-3')
    Polymer: 3 Type: dna Length: 14
    Chains: C
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Mus musculus   Taxonomy   Common Name: Mouse Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    3VXV    
    3VXX    
    3VYQ    
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    ACT
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    ACT C2 H3 O2
    ACETATE ION
    EDO
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    EDO C2 H6 O2
    1,2-ETHANEDIOL
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    5CM
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    5CM C10 H16 N3 O7 P DC dnaLinking
    5HC
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    5HC C10 H16 N3 O8 P DC dnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:NA2057
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
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