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The Open Protein Structure Annotation Network
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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 282683
    Molecular Characteristics
    Source Thermotoga maritima msb8
    Alias Ids TPS1235,TM0813, 3.40.50.10490, 282222 Molecular Weight 37369.23 Da.
    Residues 330 Isoelectric Point 5.75
    Sequence msktlkeitdqknelkkffenfvlnlekteifseiqknltdevlfvgcgssynlaltisyyfervlkir tkaipagevafqkipdleerglaflfsrtgnttevllandvlkkrnhrtigitieeesrlakesdlplv fpvreeaivmtksfsmillslmfladkiagnsterfselvgyspeffdiswkviekidlkehdhfvflg mseffgvslesalkciemsltfseaystleyrhgpkalvkkgtlvfmqkvsgmdeqekrlrkeleslga tvlevgeggdipvsndwksaflrtvpaqilgyqkaisrgispdkpphlektvvl
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 1
    Resolution (Å) 1.80 Rfree 0.231
    Matthews' coefficent 2.51 Rfactor 0.192
    Waters 294 Solvent Content 50.60

    Pathway

    Reactions found in Metabolic Reconstruction for TM0813

    Name: glucosamine-6-phosphate deaminase reversible
    Metabolic Subsystem: Aminosugar Metabolism
    Reaction: : gam6p + h2o <==> f6p + nh4
    Classification: EC:3.5.99.6
     

    Ligand Information
    Ligands
    Metals

    Jmol

     
    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
     

    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

     

    No references found.

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