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C.el Phosphatome: A Catalogue of Actual and Pseudo Phosphatases Based on In-Silico Studies in Caenorhabditis elegans

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Abstract

Phosphatases are well known to carry out important functions via counter activity of kinases and they serve as mechanism for dephosphorylating the monophosphate esters from the phosphorylated serine, threonine, tyrosine and histidine residues. The biological relevance of phosphatases could be explored further employing newer technologies and models. Caenorhabditis elegans is a powerful genetic model system that bears significant homology with humans, hence providing with a precious tool towards studying important signalling pathways. We carried out the present study to catalogue the C. elegans protein phosphatome, referred here as ‘C.el phosphatome’ and annotated the corresponding dataset. We further classified these phosphatases based on presence of catalytic conserved motif; GDxHG, GDxVDRG, GNHE, RxxD, DGxxG, DG, GxxDN for Ser/Thr phosphatases, HC(x)5 R for tyrosine phosphatases and DxDxT/V for aspartate based phosphatases. Bioinformatics tool DAVID was employed to decipher the biological relevance of phosphatases. Our findings show Ser/Thr phosphatases (114), Tyr phosphatases (121) and Asp phosphatases (0) in C. elegans genome based on the hallmark sequence identification. Amongst them, 34 and 57 Ser/Thr and Tyr phosphatases respectively contain the catalytic motif. This catalogue offers a precious tool for further studies towards understanding important biological processes and disease conditions.

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Abbreviations

C. elegans :

Caenorhabditis elegans

C.el phosphatome:

Caenorhabditis elegans phosphatome

PTPs:

Protein tyrosine phosphatases

Ser/Thr phosphatase:

Serine/threonine phosphatase

Asp phosphatase:

Aspartate phosphatase

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Acknowledgements

SF acknowledges financial assistance for Senior Research Fellowship from Indian Council of Medical Research (BMS/FW/Bioch/2014-26260/Feb-15/06/UP/Govt). CDRI communication number: 9742.

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Authors and Affiliations

  1. Academy of Scientific and Innovative Research (AcSIR), CSIR-Central Drug Research Institute (CSIR-CDRI) Campus, Lucknow, India

    Soobiya Fatima & Aamir Nazir

  2. Laboratory of Functional Genomics and Molecular Toxicology, Division of Toxicology and Experimental Medicine, CSIR-Central Drug Research Institute, Lucknow, Uttar Pradesh, 226031, India

    Soobiya Fatima, Shikha Shukla & Aamir Nazir

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  1. Soobiya Fatima
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  2. Shikha Shukla
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Correspondence to Aamir Nazir.

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Fatima, S., Shukla, S. & Nazir, A. C.el Phosphatome: A Catalogue of Actual and Pseudo Phosphatases Based on In-Silico Studies in Caenorhabditis elegans. Protein J 37, 572–580 (2018). https://doi.org/10.1007/s10930-018-9794-6

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