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The Open Protein Structure Annotation Network
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1vla

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

    Title Crystal structure of Hydroperoxide resistance protein OsmC (TM0919) from Thermotoga maritima at 1.80 A resolution. To be published
    Site JCSG
    PDB Id 1vla Target Id 282788
    Molecular Characteristics
    Source Thermotoga maritima msb8
    Alias Ids TPS1245,TM0919, 84874 Molecular Weight 16002.84 Da.
    Residues 138 Isoelectric Point 6.43
    Sequence mqarwignmmfhvrtdsnhdvlmdtkeevggkdaaprplelvltglmgctgmdvvsilrkmkvidqmkd frieieyerteehpriftkvhlkyifkfdgeppkdkvekavqlsqekycsvsailkcsskvtyeivyen
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 1
    Resolution (Å) 1.80 Rfree 0.2213
    Matthews' coefficent 2.03 Rfactor 0.17034
    Waters 464 Solvent Content 38.89

    Ligand Information
    Ligands
    Metals

    Jmol

     
    Google Scholar output for 1vla
    1. Domain definition and target classification for CASP6
    M Tress, CH Tai, G Wang, I Ezkurdia - PROTEINS: , 2005 - Wiley Online Library
     
    2. Fast and accurate algorithms for protein side-chain packing
    J Xu, B Berger - Journal of the ACM (JACM), 2006 - dl.acm.org
     
    3. Refining homology models by combining replica_exchange molecular dynamics and statistical potentials
    J Zhu, H Fan, X Periole, B Honig - : Structure, Function, and , 2008 - Wiley Online Library
     
    4. The JCSG MR pipeline: optimized alignments, multiple models and parallel searches
    R Schwarzenbacher, A Godzik - Section D: Biological , 2007 - scripts.iucr.org
     
    5. Prediction of 3D metal binding sites from translated gene sequences based on remote_homology templates
    R Levy, M Edelman, V Sobolev - Proteins: Structure, Function, , 2009 - Wiley Online Library
     
    6. Prediction of protein domain boundaries from statistics of appearance of amino acid residues
    OV Galzitskaya, NV Dovidchenko, MY Lobanov - Molecular Biology, 2006 - Springer
     
    7. Antibodies as a model system for comparative model refinement
    BD Sellers, JP Nilmeier - : Structure, Function, and , 2010 - Wiley Online Library
     
    8. Protein structure prediction based on the sliced lattice model
    CC Wang, CB Yang, HY Ann - 2008 Conference on , 2005 - etd.lib.nsysu.edu.tw
     
    9. Investigating diproline segments in proteins: Occurrences, conformation and classification
    I Saha, N Shamala - Biopolymers, 2012 - Wiley Online Library
     
    10. Prediction of Protein Backbone Based on the Sliced Lattice Model
    CC Wang, CB Yang, HY Ann, HY Chang - 2008 - csie.npu.edu.tw
     

    Protein Summary

    Thermotoga maritima protein TM0919  belongs to the large family of OsmC-like proteins (PF02566, COG1765, and COG1764). Proteins from this family are present mostly in bacteria, but also in protists, slime molds and fungi and are involved in oxidative / osmotic stress response and hydroperoxide detoxification. Interestingly, eukaryotic proteins from this family do not form a common sub-tree and appear to represents independent gene transfer events.

    Other proteins from this family solved by JCSG are
    protein Psyc_0566 from Psychrobacter arcticus(2pn2) and Thermoplasma acidiophilumprotein NP_393673.1 (2onf).  Structurally, 1vla and its homologs (PDB structures 2onf, 1ml8, 2d7v, 1n2f, 1qwi, and 2opl) belong to the OsmC-like fold from alpha+beta class.

    Ligand Summary



    References

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