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Bioinformatics Characterization of Potential New Beta-Glucuronidase from Streptococcus equi subsp. zooepidemicus

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Abstract

Recently, the gene coding for a new beta-glucuronidase enzyme has been identified and cloned from Streptococcus equi subsp. zooepidemicus. This is another report of a beta-glucuronidase gene cloned from bacterial species. The ORF Finder analysis of a sequenced DNA (EMBL, AJ890474) revealed a presence of 1,785 bp large ORF potentially coding for a 594 aa protein. Three protein families in (Pfam) domains were identified using the Conserved Domain Database (CDD) analysis: Pfam 02836, glycosyl hydrolases family 2, triose phosphate isomerase (TIM) barrel domain; Pfam 02837, glycosyl hydrolases family 2, sugar binding domain; and Pfam 00703, glycosyl hydrolases family 2, immunoglobulin-like beta-sandwich domain. To gain more insight into the enzymatic activity, the domains were used to generate a bootstrapped unrooted distance tree using ClustalX. The calculated distances for two domains, TIM barrel domain, and sugar-binding domain were comparable and exhibited similarity pattern based on function and thus being in accordance with recently published works confirming beta-glucuronidase activity of the enzyme. The calculated distances and the tree arrangement in the case of centrally positioned immonoglobulin-like beta-sandwich domain were somewhat higher when compared to other two domains but clustering with other beta-glucuronidases was rather clear. Nine proteins, including beta-glucuronidases, beta-galactosidase, and mannosidase were selected for multiple alignment and subsequent distance tree creation.

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Authors and Affiliations

  1. CPN spol. s r.o, Dolní Dobrouč 401, 56102, Dolní Dobrouč, Czech Republic

    Ján Krahulec & Jana Krahulcová

  2. Department of Molecular Biology, Faculty of Nature Sciences, Comennius University, Bratislava, Slovakia

    Tomáš Szemes

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  1. Ján Krahulec
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Correspondence to Ján Krahulec.

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Krahulec, J., Szemes, T. & Krahulcová, J. Bioinformatics Characterization of Potential New Beta-Glucuronidase from Streptococcus equi subsp. zooepidemicus . Mol Biotechnol 44, 232–241 (2010). https://doi.org/10.1007/s12033-009-9234-0

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