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X-ray crystal structure of NGT-bound HexA
2GK1
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase
    Structure Weight: 471594.79
    Molecule: Beta-hexosaminidase alpha chain
    Polymer: 1 Type: protein Length: 507
    Chains: A, C, E, G
    EC#: 3.2.1.52   
    Organism: Homo sapiens
    Gene Name: Gene View for HEXA
    UniProtKB: Protein Feature View | Search PDB | P06865  
    Molecule: Beta-hexosaminidase beta chain
    Polymer: 2 Type: protein Length: 503
    Chains: B, D, F, H
    EC#: 3.2.1.52   
    Organism: Homo sapiens
    Gene Names: Gene View for HEXB HCC7 HEL-248
    UniProtKB: Protein Feature View | Search PDB | P07686  

    UniProtKB: Protein Feature View | Search PDB | Q5URX0  
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 4
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    2GJX  Crystallographic structure of human beta-Hexosaminidase A 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    BMA
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    BMA C6 H12 O6
    BETA-D-MANNOSE
    NAG
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    NAG C8 H15 N O6
    N-ACETYL-D-GLUCOSAMINE
    NGT
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    NGT C8 H13 N O4 S
    3AR,5R,6S,7R,7AR-5-HYDROXYMETHYL-2-METHYL- 5,6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D]THIAZOLE- 6,7-DIOL
     
  •   External Ligand Annotations Hide
    Identifier   Binding Affinity (Sequence Identity %)
    NGT
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    NGT
    Ki: 270000 nM (100) - data from BindingDB  
    N/Ain BindingMoad
    N/Ain PDBbind
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Lemieux, M.J.,  Mark, B.L.,  Cherney, M.M.,  Withers, S.G.,  Mahuran, D.J.,  James, M.N.

    Deposition:   2006-03-31
    Release:   2006-05-30
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
    Non-polymer description
    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.25
    R-Value: 0.277 (obs.)
    R-Free: 0.322
    Space Group: C 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 322.25 α = 90.00 
    b = 109.80 β = 91.48 
    c = 132.76 γ = 90.00