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1o3u

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

    Title Crystal structure of an HEPN domain protein (TM0613) from Thermotoga maritima at 1.75 A resolution. PROTEINS 54 806-809 2004
    Site JCSG
    PDB Id 1o3u Target Id 282486
    Molecular Characteristics
    Source Thermotoga maritima msb8
    Alias Ids TPS1221,TM0613, 89389 Molecular Weight 14094.09 Da.
    Residues 123 Isoelectric Point 5.17
    Sequence mdaakddlehakhdlehgfynwacfssqqaaekavkavfqrmgaqawgysvpdflgelssrfeipeelm dhaleldkaciptrypdalpsgsprnrysrieaerlvnyaekiirfcedllsri
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 1
    Resolution (Å) 1.75 Rfree 0.237
    Matthews' coefficent 1.74 Rfactor 0.179
    Waters 128 Solvent Content 28.84

    Ligand Information
    Ligands
    Metals

    Jmol

     
    Google Scholar output for 1o3u
    1. Microbial biochemistry, physiology, and biotechnology of hyperthermophilic Thermotoga species
    SB Conners, EF Mongodin, MR Johnson - FEMS microbiology , 2006 - Wiley Online Library
     
    2. Shotgun crystallization strategy for structural genomics II: crystallization conditions that produce high resolution structures for T. maritima proteins
    R Page, AM Deacon, SA Lesley - Journal of structural and , 2005 - Springer
     
    3. Autoindexing with outlier rejection and identification of superimposed lattices
    NK Sauter, BK Poon - Journal of Applied Crystallography, 2010 - scripts.iucr.org
     
    4. Crystal structure of an HEPN domain protein (TM0613) from Thermotoga maritima at 1.75 resolution
    H Erlandsen, JM Canaves, MA Elsliger - Proteins: Structure, , 2004 - Wiley Online Library
     
    5. Exploring the Role of CH. Interactions on the Structural Stability of Single Chain All-Alpha Proteins
    V Shanthi, K Ramanathan - Applied biochemistry and , 2010 - Springer
     
    6. Comparing protein contact maps via Universal Similarity Metric: an improvement in the noise-tolerance
    S Rahmati, JI Glasgow - journal of computational biology and drug , 2009 - Inderscience
     
    7. End-to-end and end-to-middle interhelical interactions: new classes of interacting helix pairs in protein structures
    TS Ghosh, SK Chaitanya - Section D: Biological , 2009 - scripts.iucr.org
     
    8. Carbohydrate utilization pathway analysis in the hyperthermophile Thermotoga maritima
    SB Conners - 2006 - repository.lib.ncsu.edu
     
    9. The Universal Similarity Metric, applied to contact maps comparison in a two-dimensional space
    S Rahmati - 2008 - catspaw.its.queensu.ca
     
    10. Complete Prokaryotic Genomes: Reading and Comprehension
    MY Galperin, EV Koonin - Systems Biology: Genomics, 2007 - books.google.com
     

    Protein Summary

    Gene TM0613 from Thermotoga maritima encodes the NP_228423 protein that contains a putative nucleotide-binding domain (HEPN) (COG2250; smart00748; Pfam05168) present in several bacterial drug resistance and human proteins involved in neurodegenerative processes (PubMed: 12765831, 14997578).

    It is unknown if TM0613 phylogenetic cooccurrence (detected using string.embl.de server) with TM0841 (S-layer-like array protein;  reviewed in PubMed: 10648507) and TM1652 is significant enough to implicate functional interdependence between those proteins.

    TM0613 structure, 1o3u, has a up-and-down four-helical bundle fold (SCOP sunid: 47161) and belongs to the SCOP family of HEPN domains (probable bi-partite nucleotidyltransferase subunit; SCOP sunid 89022). TM0613 predicted partner is a putative catalytic subunit encoded by TM0614. DALI top hits are with the TT1696 protein PDB:1ufb (Z=18), the AF0298 protein PDB:2hsb (Z=15) and the CO2003 protein PDB:2q00 (Z=11).

    Ligand Summary



    References

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