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A Protocol for Computer-Based Protein Structure and Function Prediction
Published on: November 3, 2011
ARGpredict: A web server to predict arginylation events in a protein
Subhadwip Dey1, Pooja Agarwal1, Sachin Kumar1
1Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati 781039, India.
Abstract:
Arginylation is a well-known, evolutionarily conserved, and recognizable post-translational modification (PTM). In this modification, an arginine residue is enzymatically attached to the target residue, such as aspartic acid (D), glutamic acid (E), and oxidized cysteine (Cys-SO₂H, Cys-SO₃H) by arginyltransferase 1 (ATE1) utilizing arginyl-tRNA. This phenomenon occurs both at the N-terminal and mid-chain of a protein. Arginylation is required for various biological activities like overall cellular development, cytoskeletal organization, and cellular stress adaptation. For predicting arginylation likelihood, only laboratory-based experimental procedures are currently available. To solve this, we developed the web server ARGpredict to predict arginylation events in protein sequences. The designed web server analyzes the arginylation target sites and assigns specific scores. To evaluate its effectiveness, this web server was tested against various known and experimentally validated datasets. ARGpredict yielded promising prediction results, which were also verified by statistical methods. The web server is available at https://iitg.ac.in/sachinku/ARGpredict/.
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