POP-OUT | CLOSE
GOLGI MANNOSIDASE II D204A catalytic nucleophile mutant complex with Methyl (2-deoxy-2-acetamido-beta-D-glucopyranosyl)-(1->2)-ALPHA-D-mannopyranosyl- (1->3)-[ALPHA-D-mannopyranosyl-(1->6)-6-thio-alpha-D-mannopyranosyl- (1->6)]-BETA-D-mannopyranoside
3BVW
Primary Citation
 
 
  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Molecular Description Hide
    Classification: Hydrolase
    Structure Weight: 120741.42
    Molecule: Alpha-mannosidase 2
    Polymer: 1 Type: protein Length: 1045
    Chains: A
    EC#: 3.2.1.114   
    Fragment: Catalytic domain; UNP residues 76-1108
    Mutation: D204A
    Organism Drosophila melanogaster
    Gene Names alpha-Man-II GmII CG18802
    UniProtKB:   Protein Feature View | Search PDB | Q24451  
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Drosophila melanogaster   Taxonomy   Common Name: Fruit fly Expression System: Drosophila melanogaster  
     
  •   Related PDB Entries Hide
    Identifier Details
    1HTY  dGMII + Tris 
    1HWW  dGMII + Swainsonine 
    1HXK  dGMII + Deoxymannojirimicin 
    1PS2  dGMII + Kifunensine 
    1QWN  dGMII + 5fluoro-Gulosylfluoride 
    1QWU  dGMII acid-base catalyst mutant D34N1 + 5fluoro-Gulosylfluoride 
    1QX1  dGMII acid-base catalyst mutant D341N + 2F-mannosylF 
    1R33  dGMII + 5-thio-D-mannopyranosylamine 
    1R34  dGMII + 5-thio-D-mannopyranosylamidinium salt 
    1TQS  dGMII + Salacinol 
    1TQT  dGMII + Diastereomer of Salacinol 
    1TQU  dGMII + Ghavamiol 
    1TQV  dGMII + Blintol 
    1TQW  dGMII + Blintol Diastereomer 
    2ALW  dGMII + Noeuromycin 
    2F18  dGMII + (2R,3R,4S)-2-({[(1R)-2-hydroxy-1-phenylethyl]amino}methyl)pyrrolidine-3,4-diol 
    2F1A  dGMII + (2R,3R,4S)-2-({[(1S)-2-hydroxy-1-phenylethyl]amino}methyl)pyrrolidine-3,4-diol 
    2F1B  dGMII + (2R,3R,4S,5R)-2-({[(1R)-2-hydroxy-1-phenylethyl]amino}methyl)-5-methylpyrrolidine-3,4-diol 
    2F7O  dGMII + Mannostatin A 
    2F7P  dGMII + Benzyl-mannostatin A 
    2F7Q  dGMII + Aminocyclopentitetrol 
    2F7R  dGMII + Benzyl-aminocyclopentitetrol 
    3BUB  dGMII empty active site 
    3BUD  dGMII nucleophile mutant D204A empty active site 
    3BUI  dGMII nucleophile mutant D204A + tris 
    3BUP  dGMII acid-base catalyst mutant D341N + mannose 
    3BUQ  dGMII nucleophile mutant D204A + mannose 
    3BVT  dGMII_D204A + substrate WZ1 
    3BVU  dGMII_D204A + substrate WZ2 
    3BVV  dGMII_D204A + substrate WZ3 
    3BVX  dGMII_D204A + substrate WZ5 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name Interactions
    MPD
    Search 
    Download      		MPD C6 H14 O2
    (4S)-2-METHYL-2,4-PENTANEDIOL
    WZ4
    Search 
    Download      		WZ4 C33 H57 N O25 S
    methyl 2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl- (1->2)-alpha-D-mannopyranosyl-(1->3)-[alpha- D-mannopyranosyl-(1->6)-6-thio-alpha-D-mannopyranosyl- (1->6)]-beta-D-mannopyranoside
    		WZ4:3BVW
    ZN
    Search 
    Download      		ZN Zn
    ZINC ION
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
Reset Layout
 
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
Downloadable viewers:
 
 
 
  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Kuntz, D.A.,  Rose, D.R.

    Deposition:   2008-01-07
    Release:   2008-07-01
    Last Modified (REVDAT):   2009-02-24
     
  •   Revision History    Hide
    Mouse over text for details
    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   1.20
    R-Value: 0.133 (obs.)
    R-Free: 0.170
    Space Group: P 21 21 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 68.74 α = 90.00 
    b = 109.46 β = 90.00 
    c = 138.36 γ = 90.00