The Open Protein Structure Annotation Network
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    Table of contents
    1. 1. Protein Summary
    2. 2. Ligand Summary
    3. 3. References

    Title Crystal structure of a Putative Zinc Peptidase (NP_812461.1) from Bacteroides thetaiotaomicron VPI-5482 at 2.31 A resolution. To be published
    Site JCSG
    PDB Id 3ct9 Target Id 375081
    Molecular Characteristics
    Source Bacteroides thetaiotaomicron vpi-5482
    Alias Ids TPS1645,NP_812461.1, 3.40.630.10, 285251 Molecular Weight 39215.76 Da.
    Residues 355 Isoelectric Point 5.54
    Sequence mkydiptmtaeavsllkslisipsisreetqaadflqnyieaegmqtgrkgnnvwclspmfdlkkptil lnshidtvkpvngwrkdpftpreengklyglgsndagasvvsllqvflqlcrtsqnynliylasceeev sgkegiesvlpglppvsfaivgeptemqpaiaekglmvldvtatgkaghaardegdnaiykvlndiawf rdyrfekespllgpvkmsvtvinagtqhnvvpdkctfvvdirsnelysnedlfaeirkhiacdakarsf rlnssridekhpfvqkavkmgripfgsptlsdqalmsfasvkigpgrssrshtaeeyimlkeieeaigi yldlldglkl
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 2
    Resolution (Å) 2.31 Rfree 0.253
    Matthews' coefficent 2.33 Rfactor 0.194
    Waters 192 Solvent Content 47.30

    Ligand Information


    Google Scholar output for 3ct9
    1. Structural basis for catalysis by the mono-and dimetalated forms of the dapE-encoded N-succinyl-L, L-diaminopimelic acid desuccinylase
    BP Nocek, DM Gillner, Y Fan, RC Holz - Journal of molecular , 2010 - Elsevier
    2. Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate
    AT Brunger, D Das, AM Deacon, J Grant - Section D: Biological , 2012 - scripts.iucr.org
    3. Mutational and structural analysis of LN-carbamoylase: new insights into a peptidase M20/M25/M40 family member.
    S Martnez-Rodrguez, A Garca-Pino - Journal of , 2012 - Am Soc Microbiol

    Protein Summary

    The protein is a dimer in the crystal structure and also in solution as seen by size-exclusion chormatography. There are two molecules/asu of the unit cell as show below. Each protomer has two domains, a catalytic domain that belongs to the CATH family of zinc peptidases and a second domain (that is inserted into the first domain) that forms the dimerization domain.

    PSI-BLAST indicates hits to many acetylornithine deacetylases and proteins of unknown function from many organisms. But there are no structures of proteins that are close in sequence.
    This protein shows ~21% sequence identity to PDB:1vgy over ~96% of the protein and ~27% sequence identity to PDB:2rb7 over ~72% of the protein.

    Putative active site formed by residues H73, D104, E136, E137, E161, H328 as shown below.


    Ligand Summary





    No references found.

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