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3nfv

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

    Title Crystal structure of an alginate lyase (BACOVA_01668) from Bacteroides ovatus at 1.95 A resolution. To be published
    Site JCSG
    PDB Id 3nfv Target Id
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    Related PDB Ids 3nnb 
    Molecular Characteristics
    Source
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    Alias Ids
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    TPS33842,ZP_02064699.1, 327388
    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 1
    Resolution (Å)
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    Rfree
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    Matthews' coefficent 2.46 Rfactor 0.156
    Waters
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    Solvent Content 49.99

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 3nfv
    1. Blind prediction of quaternary structures of homo-oligomeric proteins from amino acid sequences based on templates
    M Morita, M Kakuta, K Shimizu, S Nakamura - 2012 - hoajonline.com
     

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    Protein Summary

    This protein is a member of the PFAM alginate lyase family (

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    ). The structure is similar to other known structures, such as
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    (rmsd 2.9A for 274 Ca, seqid ~20%). The putative active site
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    residues are conserved (
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    ,
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    ,
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    ,
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    ,
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    , and
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    ) (Fig 1). However, the size of the active cleft are different in this structure and 1qaz (Fig 2).

     

    A second crystal structure in a different space group. A citrate from crystallization conditions is found in the active site (Fig 3). The overall structures of the two crystal forms are almost identical (rmsd 0.2A for 380 Ca atoms).

    Fig 1. 416788 (left) vs 1qaz (right), putative active site residues in sticks

    sp16874a.png

    Fig 2. surface representation of Fig 1. with active site in red

    sp16874a-surf.png

    Fig 3. Active site with citrate

    sp16874a-cit.png

    Ligand Summary

    Reviews

    References

     

    No references found.

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    Files (3)

    FileSizeDateAttached by 
     sp16874a-cit.png
    sp16874a citrate in the active site
    127.73 kB19:34, 22 Jun 2010qxuActions
     sp16874a-surf.png
    sp16874a vs 1qaz surf
    200.26 kB16:19, 8 Jun 2010qxuActions
     sp16874a.png
    sp16874a vs 1qaz
    206.11 kB16:19, 8 Jun 2010qxuActions
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