Web-Based Computational Tools for the Prediction and Analysis of Posttranslational Modifications of Proteins

Vladimir A Ivanisenko; Timofey V Ivanisenko; Olga V Saik; Pavel S Demenkov; Dmitry A Afonnikov; Nikolay A Kolchanov

doi:10.1007/978-1-4939-9055-9_1

Web-Based Computational Tools for the Prediction and Analysis of Posttranslational Modifications of Proteins

Methods Mol Biol. 2019:1934:1-20. doi: 10.1007/978-1-4939-9055-9_1.

Authors

Vladimir A Ivanisenko¹, Timofey V Ivanisenko², Olga V Saik², Pavel S Demenkov², Dmitry A Afonnikov², Nikolay A Kolchanov²

Affiliations

¹ Institute of Cytology and Genetics SB RAS, Novosibirsk State University, Novosibirsk, Russia. salix@bionet.nsc.ru.
² Institute of Cytology and Genetics SB RAS, Novosibirsk State University, Novosibirsk, Russia.

PMID: 31256369
DOI: 10.1007/978-1-4939-9055-9_1

Abstract

The increase in the number of Web-based resources on posttranslational modification sites (PTMSs) in proteins is accelerating. This chapter presents a set of computational protocols describing how to work with the Internet resources when dealing with PTMSs. The protocols are intended for querying in PTMS-related databases, search of the PTMSs in the protein sequences and structures, and calculating the pI and molecular mass of the PTM isoforms. Thus, the modern bioinformatics prediction tools make it feasible to express protein modification in broader quantitative terms.

Keywords: Amino acid sequence; Database; Protein 3D structure; Protein posttranslational modification prediction; Web-based resources.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Amino Acid Sequence
Computational Biology / methods*
Databases, Protein
Internet*
Molecular Weight
Protein Processing, Post-Translational*
Proteins* / chemistry
Proteins* / metabolism
Search Engine
Software*
User-Computer Interface
Web Browser

Substances

Proteins