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The Open Protein Structure Annotation Network
PDB Keyword
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3m1u

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

    Title Crystal structure of a Putative gamma-D-glutamyl-L-diamino acid endopeptidase (DVU_0896) from DESULFOVIBRIO VULGARIS HILDENBOROUGH at 1.75 A resolution. To be Published
    Site JCSG
    PDB Id 3m1u Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS31041,YP_010117.1, PF00877
    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 2.08 Rfactor 0.139
    Waters
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    Solvent Content 40.74

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 3m1u

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    Protein Summary

    Gene DVU_0896 from Desulfovibrio vulgaris hildenborough encodes the YP_010117 protein that belongs to the NlpC/P60 domain family (PF00877).

    3m1u structure corresponds to the 32-464 fragment of YP_010117 and contains four domains: the N1 domain (1:145), SH3b1, SH3b2 and a catalytic domain at the C-terminus.  The SH3-like domain reveals SH3-like barrel fold type SCOP50036, while the NlpC/P60 domain belongs to the cysteine proteinases fold type SCOP54000. DALI top hits are with 3h41, 2evr, 2hbw, and 2fg0.

    3m1u is another member of the N-terminal SH3b domain + C-terminal NlpC/P60 domain group solved by JCSG (together with 2evr and 3h41). The structure series 2evr -->3h41--->3m1u show an increasing order of complexity, but with similar putative active sites. The N1 domain, that wraps around the SH3b1 and the catalytic domain, seems to function as a stablizing factor of the two interacting domain.

     

    Figure. 1. 3m1u structure with each domain depicted in a different color

     

    tt6205a.png

    Ligand Summary

    Reviews

    References

     

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    tt6205b
    133.43 kB21:51, 2 Feb 2010qxuActions
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