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PDB Keyword
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3n6y

    Title Crystal structure of an immunoglobulin-like protein (PA1606) from PSEUDOMONAS AERUGINOSA at 1.50 A resolution. To be published
    Site JCSG
    PDB Id 3n6y Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS33851,NP_250297.1, 327463
    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 0.181
    Waters
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    Solvent Content 44.38

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 3n6y
    1. Assessment of protein structure refinement in CASP9
    JL MacCallum, A Prez, MJ Schnieders - Proteins: Structure, , 2011 - Wiley Online Library
     
    2. 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

    The protein NP_250297.1 is annotated as hypothetical protein.

    A sequence search at PFAM identifies NP_250297.1 to belong to the MG2 (

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    , macroglobulin) domain which is the domain of alpha-2-macroglobulin.

     Note from PFAM: This was added as a new family to Pfam PF12975 DUF3859. Seems to be a domain found associated within some LRR proteins and possibly at the C-terminus of a pentapeptide repeat protein. If you decide to publish it I might be able to push the sequence analysis a bit further.

    The monomer structure adopts a beta-sandwich fold shown below.

    SP17688A.png

     

    The oligomeric state of the protein as analyzed by the PISA server is a monomer, although there are two copies of the protein present in the crystallographic asymmetric unit, shown below.

    SP17688A_asu.png

     

    A search for structurally similar proteins by DALI returns several hits, but with weak Z-scores.

    DALI Structural Homologs
    N PDB Z-score RMSD LALI NRES %ID Description
    1 2hr0 7.2 3.4 91 641 12 Complement C3 Beta Chain
    2 3g6j 7.1 2.9 87 642 13 Complement C3 Beta Chain
    3 2wii 7.1 2.9 87 640 13 Complement C3 Beta Chain
    4 2a74 7.0 3.4 91 630 12 Complement Component C3c
    5 2x41 6.9 3.5 94 715 12 Beta-glucosidase
    6 2x42 6.8 3.5 94 715 12 Beta-glucosidase
    7 2x40 6.8 3.5 94 713 12 Beta-glucosidase
    8 2wt6 6.8 3.6 94 713 12 Beta-glucosidase
    9 2wt5 6.8 3.5 94 715 12 Beta-glucosidase
    10 2wt3 6.8 3.5 94 715 12 Beta-glucosidase

    A superposition of NP_250297.1 (green) with the top scoring protein, 2hr0 (magenta), shows that the superposition is limited to a small fragment of the total protein.

    SP17688A_2hr0.png

    Therefore the function of NP_250297.1 is difficult to infer from this analysis.

    Ligand Summary

    Reviews

    References

     

    No references found.

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