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Preliminary analysis to target pyruvate phosphate dikinase from wolbachia endosymbiont of Brugia malayi for designing anti-filarial agents

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Abstract

Filariasis causing nematode Brugia malayi is shown to harbor wolbachia bacteria as symbionts. The sequenced genome of the wolbachia endosymbiont from B.malayi (wBm) offers an unprecedented opportunity to identify new wolbachia drug targets. Genome analysis of the glycolytic/gluconeogenic pathway has revealed that wBm lacks pyruvate kinase (PK) and may instead utilize the enzyme pyruvate phosphate dikinase (PPDK; ATP: pyruvate, orthophosphate phosphotransferase, EC 2.7.9.1). PPDK catalyses the reversible conversion of AMP, PPi and phosphoenolpyruvate into ATP, Pi and pyruvate. Most organisms including mammals exclusively possess PK. Therefore the absence of PPDK in mammals makes this enzyme as attractive wolbachia drug target. In the present study we have modeled the three dimensional structure of wBm PPDK. The template with 50% identity and 67% similarity in amino acid sequence was employed for homology-modeling approach. The putative active site consists of His476, Arg360, Glu358, Asp344, Arg112, Lys43 and Glu346 was selected as site of interest for designing suitable inhibitor molecules. Docking studies were carried out using induced fit algorithms with OPLS force field of Schrödinger’s Glide. The lead molecules which inhibit the PPDK activity are taken from the small molecule library (Pubchem database) and the interaction analysis showed that these compounds may inhibit the function of PPDK in wBm.

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Abbreviations

PPDK:

pyruvate phosphate dikinase

PK:

pyruvate kinase

PEP:

phosphoenol pyruvate

OPLS-AA:

optimized liquid solution all atoms

ATP:

adenosine triphosphate

wBm :

Wolbachia Brugia malayi

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Authors and Affiliations

  1. Centre of Advanced study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai, 600025, India

    Malathy Palayam, Karthik Lakshminarayanan, Manohar Radhakrishnan & Gunasekaran Krishnaswamy

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  1. Malathy Palayam
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  2. Karthik Lakshminarayanan
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  3. Manohar Radhakrishnan
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  4. Gunasekaran Krishnaswamy
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Correspondence to Gunasekaran Krishnaswamy.

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Palayam, M., Lakshminarayanan, K., Radhakrishnan, M. et al. Preliminary analysis to target pyruvate phosphate dikinase from wolbachia endosymbiont of Brugia malayi for designing anti-filarial agents. Interdiscip Sci Comput Life Sci 4, 74–82 (2012). https://doi.org/10.1007/s12539-011-0109-2

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