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Structure of IDP90564

Crystal structure of transketolase in complex with thiamine diphosphate, ribose-5-phosphate (pyranose form) and magnesium ion

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CSGID target
IDP90564 
PDB Id
3M7I (NCBI MMDB) 
Authors
Nocek, B., Makowska-Grzyska, M., Maltseva, N., Grimshaw, S., Anderson, W., Joachimiak, A., CSGID 
Responsible person
Boguslaw Nocek 
Responsible lab
Argonne National Laboratory 
Deposition Date
Mar 16, 2010 
Release Date
Apr 07, 2010 

Annotation

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Slides:
  • Asymmetric unit
  • Biological unit
  • B-factors distribution
  • B-factors distribution on the surface
  • Homolog superposition
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    Ligands

    Ligand code Name Ligand type
    TPP thiamine diphosphate biological
    RP5 ribose-5-phosphate, pyranose form biological
    EDO 1,2-ethanediol
    MG unknown
    MSE selenomethionine modified residue

    Structure information

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    Unit cell parameters

    Space Group
    C 1 2 1  
    Unit Cell

    a=130.34Å, b=70.95Å, c=69.19Å
    α=90.00, β=109.40, γ=90.00  
    Solvent content
    42.59  
    Matthews coefficient
    2.14  

    Refinement

    Data for the highest resolution shell is in parentheses.
    Resolution range
    40.00-1.75Å (1.80-1.75Å)  
    Rall(%)
    17.1  
    Rwork(%)
    16.7 (22.6)  
    Rfree(%)
    21.1 (26.7)  
    Num. observed reflections
    57816 (3972)  
    Num. Rfree reflections
    2890 (176)  
    Completeness(%)
    96.8 (90.4)  

    Model parameters

    Num Atoms
    5279  
    Num Waters
    328  
    Num Hetatoms
    0  
    Model mean isotropic B factor (Å2)
    23.720  
    RMSD bond length (Å)
    0.022  
    RMSD bond angle
    1.858°  
    Filename uploaded
    H2-0316-RIBOSE_DEPOSIT.pdb (uploaded on Mar 16, 2010 7:32 PM)  
    Inserted
    Mar 16, 2010