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Kinetic and mutational studies of the adenosine diphosphate ribose hydrolase from Mycobacterium tuberculosis

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Abstract

Mycobacterium tuberculosis represents one of the world’s most devastating infectious agents – with one third of the world’s population infected and 1.5 million people dying each year from this deadly pathogen. As part of an effort to identify targets for therapeutic intervention, we carried out the kinetic characterization of the product of gene rv1700 of M. tuberculosis. Based on its sequence and its structure, the protein had been tentatively identified as a pyrophosphohydrolase specific for adenosine diphosphate ribose (ADPR), a compound involved in various pathways including oxidative stress response and tellurite resistance. In this work we carry out a kinetic, mutational and structural investigation of the enzyme, which provides a full characterization of this Mt-ADPRase. Optimal catalytic rates were achieved at alkaline pH (7.5–8.5) with either 0.5–1 mM Mg2+ or 0.02–1 mM Mn2+. K m and k cat values for hydrolysis of ADPR with Mg2+ ions are 200 ± 19 μM and 14.4 ± 0.4 s−1, and with Mn2+ ions are 554 ± 64 μM and 28.9 ± 1.4 s−1. Four residues proposed to be important in the catalytic mechanism of the enzyme were individually mutated and the kinetics of the mutant enzymes were characterized. In the four cases, the K m increased only slightly (2- to 3-fold) but the k cat decreased significantly (300- to 1900-fold), confirming the participation of these residues in catalysis. An analysis of the sequence and structure conservation patterns in Nudix ADPRases permits an unambiguous identification of members of the family and provides insight into residues involved in catalysis and their participation in substrate recognition in the Mt-ADPRase.

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Acknowledgments

This work was partially supported by NIGMS grant GM066895 (L.M.A.), grant J-497 from the Kate Jeffress Trust Foundation (S.F.O.), Cottrell College Science Award CC5180 from Research Corporation (S.F.O.), NIGMS AREA grant GM066715 (S.F.O.), and NCI grant P50 CA062924 - SPORE in Gastrointestinal Cancer (S.B.G). S.B.G. is an Alexander and Margaret Stewart Cancer fellow.

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Authors and Affiliations

  1. School of Chemistry and Materials Science, Rochester Institute of Technology, Rochester, NY, 14623, USA

    Suzanne F. O’Handley & Jennifer E. Cunningham

  2. Department of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA

    Puchong Thirawatananond, J. Alfonso Leyva, L. Mario Amzel & Sandra B. Gabelli

  3. Department of Biological Sciences, Konkuk University, Seoul, South Korea

    Lin-Woo Kang

  4. Physics Department, Pontificia Universidad Javeriana, Bogotá, D.C., Colombia

    J. Alfonso Leyva

  5. Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA

    Sandra B. Gabelli

  6. Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA

    Sandra B. Gabelli

Authors
  1. Suzanne F. O’Handley
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  2. Puchong Thirawatananond
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  3. Lin-Woo Kang
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  4. Jennifer E. Cunningham
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  5. J. Alfonso Leyva
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  6. L. Mario Amzel
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  7. Sandra B. Gabelli
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Correspondence to Sandra B. Gabelli.

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The authors declared no competing interests.

Additional information

Suzanne F. O’Handley, Puchong Thirawatananond and Lin-Woo Kang contributed equally to this work.

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O’Handley, S.F., Thirawatananond, P., Kang, LW. et al. Kinetic and mutational studies of the adenosine diphosphate ribose hydrolase from Mycobacterium tuberculosis . J Bioenerg Biomembr 48, 557–567 (2016). https://doi.org/10.1007/s10863-016-9681-9

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  • DOI: https://doi.org/10.1007/s10863-016-9681-9

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