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 putative Xaa-His dipeptidase (YP_718209.1) from Haemophilus somnus 129PT at 2.11 A resolution. To be published
    Site JCSG
    PDB Id 2qyv Target Id 375116
    Molecular Characteristics
    Source Haemophilus somnus 129pt
    Alias Ids TPS1648,YP_718209.1, 3.40.630.10, 452590 Molecular Weight 53629.44 Da.
    Residues 486 Isoelectric Point 5.25
    Sequence msdlqslqpkllwqwfdqicaiphpsykeeqlaqfiinwaktkgffaerdevgnvlirkpatvgmenrk pvvlqahldmvpqanegtnhnfdqdpilpyidgdwvkakgttlgadngigmasalavlesndiahpele vlltmteergmegaiglrpnwlrseilintdteengeiyigcaggenadlelpieyqvnnfehcyqvvl kglrgghsgvdihtgranaikvllrflaelqqnqphfdftlanirggsirnaipresvatlvfngditv lqsavqkfadvikaelaltepnliftlekvekpqqvfssqctkniihclnvlpngvvrnsdvienvvet slsigvlktednfvrstmlvrsliesgksyvasllkslaslaqgninlsgdypgwepqshsdildltkt iyaqvlgtdpeikvihaglecgllkkiyptidmvsigptirnahspdekvhipavetywkvltgilahipsr
      BLAST   FFAS

    Structure Determination
    Method XRAY Chains 2
    Resolution (Å) 2.11 Rfree 0.244
    Matthews' coefficent 4.17 Rfactor 0.220
    Waters 466 Solvent Content 70.52

    Ligand Information


    Google Scholar output for 2qyv
    1. PSI-2: structural genomics to cover protein domain family space
    BH Dessailly, R Nair, L Jaroszewski, JE Fajardo - Structure, 2009 - Elsevier
    2. Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard
    TC Terwilliger, PD Adams, RJ Read - Section D: Biological , 2009 - scripts.iucr.org
    3. Autoindexing the diffraction patterns from crystals with a pseudotranslation
    NK Sauter, PH Zwart - Acta Crystallographica Section D: Biological , 2009 - scripts.iucr.org
    4. Crystal structure and mutational analysis of aminoacylhistidine dipeptidase from vibrio alginolyticus reveal a new architecture of M20 metallopeptidases
    CY Chang, YC Hsieh, TY Wang, YC Chen - Journal of Biological , 2010 - ASBMB
    5. 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 HS_0004 gene (also known as pepD) gene (PF01546, cl09126) from Haemophilus somnus 129PT encodes for YP_718209, a zinc metallopeptidase (EC: More specifically, this protein is a M20C dipeptidase, hydrolizing the Xaa-His dipeptide.The mixed alpha/beta protein structure can be divided into two domains, one is a 3 layer alpha/beta/alpha sandwich (2qyv-CATH) and the other is a 2 layer alpha/beta sandwich. The functional oligomer is a dimer and about 80 residues of the N-terminus act as a dimerization domain (PF07687). It is interesting to notice that the 2 layer domain of this protein may have become duplicated. Other similar structures determined by PSI include 2rb7, 3gb0, 3ic1, 2pok, and 3isz.

    ToDo: Find out more about this putatively duplicated domain. Also, get some more information if this is changing the interface behavior.

    Ligand Summary





    No references found.

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