Peptide Utility (PU) search server: A new tool for peptide sequence search from multiple databases. Issue 12 (December 2022)

• Record Type: Journal Article
• Authors: Chamoli, Tanishq; Khera, Alisha; Sharma, Akanksha; Gupta, Anshul; Garg, Sonam; Mamgain, Kanishk; Bansal, Aayushi; Verma, Shriya; Gupta, Ankit; Alajangi, Hema K.; Singh, Gurpal; Barnwal, Ravi P.
• Is Part Of: Heliyon. Volume 8:Issue 12(2022)
• Publication Date: 2022-12
• Subjects: Proteins -- Peptide sequence -- PDB -- Homologous pairs -- Identical pairs; Research -- Periodicals; Medical sciences -- Periodicals; Natural history -- Periodicals; Social sciences -- Periodicals; Earth sciences -- Periodicals; Physical sciences -- Periodicals; 507.2
• DOI: 10.1016/j.heliyon.2022.e12283
• Languages: English
• ISSNs: 2405-8440

Abstract

Abstract: Proteins are essential building blocks in humans that have garnered huge attention from researchers worldwide due to their numerous therapeutic applications. To date, different computational tools have been developed to extract pre-existing information on these biological molecules, but most of these tools suffer from limitations such as non-user friendly interface, redundancy of data, etc. To overcome these limitations, a user-friendly interface, the Peptide Utility (PU) webserver (https://chain-searching.herokuapp.com/ ) has been developed for searching and analyzing homologous and identical protein/peptide sequences that can be searched from approximately 0.4 million sequences (structural and sequence information) in both online and offline modes. The PU web server can also be used to study different types of interactions in PDBSum, identifying the most dominating interface residues, the most prevalent interactions, and the interaction preferences of different residues. The webserver would also pave way for the design of novel therapeutic peptides and folds by identifying conserved residues in the three-dimensional structure space of proteins. Highlights: A logical approach to finding homologous and identical protein/peptide sequences. A Peptide Utility (PU) search webserver is developed for homologous and identical searching from the available sequences. Peptide sequences can be searched from the ∼0.4 million entries from different databases in both online and offline mode. This will open up avenues to explore peptide design for various pharmacological interventions. Abstract : Proteins; Peptide sequence; PDB, Homologous pairs; Identical pairs