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The Open Protein Structure Annotation Network
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2od4

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

    Title Crystal structure of hypothetical protein (JCVI_PEP_1096665735785) from an environmental metagenome (unidentified marine microbe), Sorcerer II Global Ocean Sampling experiment at 1.70 A resolution. To be published
    Site JCSG
    PDB Id 2od4 Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1509,JCVI_PEP_1096665735785
    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 2.26 Rfactor 0.159
    Waters
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    Solvent Content 45.59

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 2od4
    1. Pfam 10 years on: 10 000 families and still growing
    SJ Sammut, RD Finn, A Bateman - Briefings in bioinformatics, 2008 - Oxford Univ Press
     
    2. Probing metagenomics by rapid cluster analysis of very large datasets
    W Li, JC Wooley, A Godzik - PLoS One, 2008 - dx.plos.org
     

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    Protein Summary

    The gene ID JCVI_PEP_1096665735785 from a marine metagenome sample encodes a protein of unknown function.  

    The 2od4 structure belongs to the alpha+beta class, ferredoxin-like fold, dimeric alpha+beta barrel superfamily (SCOP54861).  However, no significant sequence similarity can be detected with known ferredoxin-like proteins. DALI top hits are with ferredoxin-like proteins such as 3e8o, 2fb0 and 1y0h (Z=11). Structurally, the protein is rather similar to the C-terminal domain of aminotransferase-like enzyme 3HT5.  Accordingly, a 26% sequence identity with the aminotransferase class I from Nitrosopumilus maritimus (YP_001581880) can be detected for the 28-90 fragment of this target.

    Ligand Summary



    References

    Reviews

    References

     

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