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1o5k

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

    Title Crystal structure of Dihydrodipicolinate synthase (TM1521) from Thermotoga maritima at 1.80 A resolution. To be published
    Site JCSG
    PDB Id 1o5k Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1296,TM1521, 89431, 84792
    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 2.12 Rfactor 0.13941
    Waters
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    Solvent Content 41.42

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 1o5k
    1. The importance of alignment accuracy for molecular replacement
    R Schwarzenbacher, A Godzik - Section D: Biological , 2004 - scripts.iucr.org
     
    2. The crystal structures of native and (S)-lysine-bound dihydrodipicolinate synthase from Escherichia coli with improved resolution show new features of biological
    RCJ Dobson, MDW Griffin, GB Jameson - Section D: Biological , 2005 - scripts.iucr.org
     
    3. Dihydrodipicolinate synthase from Thermotoga maritima
    FG Pearce, MA Perugini, HJ Mckerchar - Biochemical , 2006 - ncbi.nlm.nih.gov
     
    4. Crystal structure and kinetic study of dihydrodipicolinate synthase from Mycobacterium tuberculosis
    G Kefala, G Evans, M Griffin, S Devenish, F Pearce - Biochem. J, 2008 - biochemj.org
     
    5. Crystal structure of dihydrodipicolinate synthase (BA3935) from Bacillus anthracis at 1.94 resolution
    E Blagova, V Levdikov, N Milioti - Proteins: Structure, , 2006 - Wiley Online Library
     
    6. An iterative knowledge_based scoring function for proteinprotein recognition
    SY Huang, X Zou - Proteins: Structure, Function, and , 2008 - Wiley Online Library
     
    7. Structural and functional characterization of Staphylococcus aureus dihydrodipicolinate synthase
    TS Girish, E Sharma, B Gopal - FEBS letters, 2008 - Elsevier
     
    8. 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
     
    9. Characterization and crystal structure of lysine insensitive Corynebacterium glutamicum dihydrodipicolinate synthase (cDHDPS) protein
    EA Rice, GA Bannon, KC Glenn, SS Jeong - Archives of biochemistry , 2008 - Elsevier
     
    10. Conserved main_chain peptide distortions: A proposed role for Ile203 in catalysis by dihydrodipicolinate synthase
    RCJ Dobson, MDW Griffin, SRA Devenish - Protein , 2008 - Wiley Online Library
     
    11. High throughput processing of the structural information in the protein data bank
    Z Szabadka, V Grolmusz - Journal of Molecular Graphics and Modelling, 2007 - Elsevier
     
    12. The purification, crystallization and preliminary X-ray diffraction analysis of dihydrodipicolinate synthase from Clostridium botulinum
    RCJ Dobson, SC Atkinson, MA Gorman - Section F: Structural , 2008 - scripts.iucr.org
     
    13. Structure of dihydrodipicolinate synthase from Methanocaldococcus jannaschii
    B Padmanabhan, RW Strange, SV Antonyuk - Section F: Structural , 2009 - scripts.iucr.org
     
    14. Characterisation of monomeric dihydrodipicolinate synthase variant reveals the importance of substrate binding in optimizing oligomerization
    FG Pearce, RCJ Dobson, GB Jameson - et Biophysica Acta (BBA , 2011 - Elsevier
     
    15. Crystal structure of YagE, a putative DHDPS_like protein from Escherichia coli K12
    S Manicka, Y Peleg, T Unger, S Albeck - Proteins: Structure, , 2008 - Wiley Online Library
     
    16. Identification of biochemical and putative biological role of a xenolog from Escherichia coli using structural analysis
    V Bhaskar, M Kumar, S Manicka - Proteins: Structure, , 2011 - Wiley Online Library
     
    17. Preliminary crystallographic analysis of L-2-keto-3-deoxyarabonate dehydratase, an enzyme involved in an alternative bacterial pathway of L-arabinose metabolism
    N Shimada, B Mikami, S Watanabe - Section F: Structural , 2007 - scripts.iucr.org
     
    18. Structural investigation of MosA
    KH Nienaber - 2008 - library.usask.ca
     

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    Protein Summary

    The gene TM1521 from Thermotoga maritima encodes dihydrodipicolinate synthase, a DHDPS enzyme superfamily PF00701 COG0329.  DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.  The other name of the enzyme is N-acetylneuraminate lyase.  DHDPS is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta-semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a conserved lysine residue [Ref]. The functional enzyme is a homotetramer consisting of a dimer of dimers. The activity of DHDPS is allosterically regulated by the feedback inhibitor (S)-lysine.  The structure of E.coli homologue and its multiple mutant forms have been previously solved 1S5W, 2A6N.

    Ligand Summary



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