Related Experiment Video
Updated: May 3, 2026

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
Published on: July 8, 2025
PPS: A computing engine to find Palindromes in all Protein sequences
Zameer Ahmed1, Manickam Gurusaran1, Prasanth Narayana1
1Supercomputer Education and Research Centre, Indian Institute of Science, Bangalore 560 012, India.
Unlabelled:
The primary structure of a protein molecule comprises a linear chain of amino acid residues. Certain parts of this linear chain are unique in nature and function. They can be classified under different categories and their roles studied in detail. Two such unique categories are the palindromic sequences and the Single Amino Acid Repeats (SAARs), which plays a major role in the structure, function and evolution of the protein molecule. In spite of their presence in various protein sequences, palindromes have not yet been investigated in detail. Thus, to enable a comprehensive understanding of these sequences, a computing engine, PPS, has been developed. The users can search the occurrences of palindromes and SAARs in all the protein sequences available in various databases and can view the three-dimensional structures (in case it is available in the known three-dimensional protein structures deposited to the Protein Data Bank) using the graphics plug-in Jmol. The proposed server is the first of its kind and can be freely accessed through the World Wide Web.
Availability:
URL http://pranag.physics.iisc.ernet.in/pps/
Related Concept Videos
Protein Families
Protein Families
Conservation of Protein Domains Over Different Proteins
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
Conservation of Protein Domains
Protein and Protein Structures
Protein and Protein Structure
A protein's shape is critical to its function. For example, an enzyme...

