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The Open Protein Structure Annotation Network
PDB Keyword
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3dao

    Table of contents
    1. 1. Protein Summary
    2. 2. Ligand Summary

    Title Crystal structure of a Putative Phosphatase (RER070207001050) from Eubacterium rectale at 1.80 A resolution. To be Published
    Site JCSG
    PDB Id 3dao Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS7523,YP_002937310.1, 87570
    Molecular Weight
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    Da.
    Residues
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    Isoelectric Point
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    Sequence
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      BLAST   FFAS

    Structure Determination
    Method XRAY
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    Chains 2
    Resolution (Å)
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    Rfree
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    Matthews' coefficent 2.21 Rfactor 0.168
    Waters
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    Solvent Content 44.42

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 3dao
    1. Comparison of structure_based and threading_based approaches to protein functional annotation
    M Brylinski, J Skolnick - Proteins: Structure, Function, and , 2010 - Wiley Online Library
     
    2. Protein Physics by Advanced Computational Techniques: Conformational Sampling and Folded State Discrimination
    PC Tejada - 2011 - sissa.it
     

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    Protein Summary

    Gene EubRec_1417 from Eubacterium rectale encodes the YP_002937310 protein, a putative phosphatase that has sequence similarity to the haloacid dehalogenase-like hydrolase family PF08282 (E-value: 5.3e-43).  The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification.

    Pre-SCOP classifies 3dao in the alpha/beta class, HAD-like superfamily. 3dao structure consists of two HAD-like repeats, each consisting of a beta-sheet flanked by alpha-helices (Fig 1). There are two monomers in the crystal assymetric unit. These monomers do not superpose well. However, a superposition based on a single repeat only shows a domain motion between the monomers (Fig 2). There are numerous phosphatase structures that are structurally similar to 3dao (Fig. 3).

    GD4050C.png
    Fig 1. 3dao monomer structure consists of two similar domains.



    domain_shifted.png
    Fig 2 : The 3dao dimer superposition highlights the domain motion between monomers.

    all.png
    Fig 3: 3dao (orange) is superimposed on a sugar phosphatase SUPH (PDB code: 2hf2; Z=29) shown in yellow, ybiV from Escherichia coli K12 (PDB code: 1rlm; Z=28) shown in cyan, and TM0651 from Thermotoga maritima (PDB code: 1nf2; Z=27) shown in green.
     

    Ligand Summary

    Reviews

    References

     

    No references found.

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