.
The Open Protein Structure Annotation Network
PDB Keyword
.

2qvp

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

    Title Crystal structure of uncharacterized protein (YP_926603.1) from Shewanella amazonensis SB2B at 2.00 A resolution. To be published
    Site JCSG
    PDB Id 2qvp Target Id
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Molecular Characteristics
    Source
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Alias Ids
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    TPS1650,YP_926603.1, 3.40.630.10, 92216
    Molecular Weight
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Da.
    Residues
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Isoelectric Point
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Sequence
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
      BLAST   FFAS

    Structure Determination
    Method XRAY
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Chains 3
    Resolution (Å)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Rfree
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Matthews' coefficent 2.52 Rfactor 0.161
    Waters
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Solvent Content 51.14

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    Ligand Information
    Ligands
    Metals

    Jmol

     
    parameter 'target' could not convert from 'list' to 'str' (click for details)
    Google Scholar output for 2qvp

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    Protein Summary

    The Sama_0725 (YP_926603.1) gene from Shewanella amazonensis encodes a protein that belongs to the succinylglutamate desuccinylase / aspartoacylase family (PF04952), one of the twelve families in the Peptidase_MH clan (MEROPS and PFAM). Its sequence conservation profile contains the motif H74-g75-e76-E77 probably involved in metal chelation. It is one of three closely related proteins from different Shewanella species solved by JCSG (3b2y from S. denitrificans and 3ieh from S. baltica). These three proteins form an outlier group which shares strong similarities with members of two other PFAM families from the same clan - PF10994 (DUF2817) and PF00246 (Zinc peptidase M14).  Based on gene co-ocurrence, STRING predicts a functional coupling with a putative O-methyl-transferase (Sama_1505, YP_927382) with a significance score of 0.74 and with an uncharacterized protein (Sama_1518) from PFAM family PF11143 (DUF2919) with a significance score of 0.74.

     

    SCOP classifies 2qvp in the alpha/beta class, phosphorylase/hydrolase-like fold, Zn-dependent exopeptidase superfamily, bacterial dinuclear Zn exopeptidase family (?). The most similar structure of a close homolog (65% seq. id.) from another species of Shewanella, 3b2y (Z=46), shows a metal ion (Ni) chelated by the side chain of conserved residues H75, E78 and two water molecules. Other DALI hits are with carboxypeptidase-A 3l2n (Z=23), and carboxypeptidase-B 2jew (Z=22). A significant hit (HHpred P-val=8e-29; FATCAT P-val=2e-7) is observed with 1m4l (Z=21), a metallocarboxypeptidase [Ref].

    Ligand Summary



    References

    Reviews

    References

     

    1. (No Results)

       


      Discuss this publication

    Files (0)

     
    You must login to post a comment.
    All content on this site is licensed under a Creative Commons Attribution 3.0 License
    Powered by MindTouch