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1j5x

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

    Title Crystal structure of Glucosamine-6-phosphate deaminase (TM0813) from Thermotoga maritima at 1.8 A resolution. To be published
    Site JCSG
    PDB Id 1j5x Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1235,TM0813, 3.40.50.10490, 282222
    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 1
    Resolution (Å)
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    Rfree
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    Matthews' coefficent 2.51 Rfactor 0.192
    Waters
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    Solvent Content 50.60

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 1j5x
    1. Active site identification through geometry-based and sequence profile-based calculations: burial of catalytic clefts
    R Greaves, J Warwicker - Journal of molecular biology, 2005 - Elsevier
     
    2. High-throughput protein production for X-ray crystallography and use of size exclusion chromatography to validate or refute computational biological unit predictions
    D McMullan, JM Canaves, K Quijano - Journal of structural and , 2005 - Springer
     
    3. Computing protein structures from electron density maps: The missing fragment problem
    I Lotan, H Van Den Bedem, AM Deacon - Foundations of Robotics , 2005 - Springer
     
    4. Efficient recognition of protein fold at low sequence identity by conservative application of Psi_BLAST: validation
    FJ Stevens - Journal of Molecular Recognition, 2005 - Wiley Online Library
     
    5. Chronicles of the GTPase switch
    J Cherfils, M Zeghouf - Nature Chemical Biology, 2011 - nature.com
     
    6. Mutual information and variants for protein domain-domain contact prediction
    M Gomes, R Hamer, G Reinert - BMC Research , 2012 - biomedcentral.com
     

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    Protein Summary

    The TM0813 gene from Thermotoga maritima encodes a glucosamine-6-phosphate deaminase (PF01380, COG0449, EC 3.5.99.6). The TM0813 structure adopts a SIS (Sugar ISomerase) domain fold and shows strong similarity (main-chain rmsd of 1.8 Å over 291 residues with a sequence identity of 32%) with a glucosamine-6-phosphate deaminase from two other hyperthermophiles, Pyrococcus horikoshii (PDB ids: 2e5f, 2df8, 2dec) and Pyrococcus furiosus (2cb0) (Kim 2007). Similar results were obtained for a homolog from Listeria monocytogenes (PDB id: 2aml).

     

    [SIS domain fold family contains 3 children: mono-SIS, double-SIS and phosphoglucose isomerase (PGI) SIS. TM0813 is part of the double-SIS group along with 1wiw, 1tzb, 1tzc, 1x9i, 1x9h and others. Look at fold vs function variants]

     

    [Compare active site residues with 2cb0]

    Ligand Summary


    References

    Reviews

    References

     

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