Post-translational modifications in proteins: resources, tools and prediction methods
Posttranslational modifications (PTMs) refer to amino acid side chain modification in some proteins after their biosynthesis. There are more than 400 different types of PTMs affecting many aspects of protein functions. Such modifications happen as crucial molecular regulatory mechanisms to regulate...
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| Published in | Database : the journal of biological databases and curation Vol. 2021 |
|---|---|
| Main Authors | , |
| Format | Journal Article |
| Language | English |
| Published |
UK
Oxford University Press
07.04.2021
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| Subjects | |
| Online Access | Get full text |
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| Abstract | Posttranslational modifications (PTMs) refer to amino acid side chain modification in some proteins after their biosynthesis. There are more than 400 different types of PTMs affecting many aspects of protein functions. Such modifications happen as crucial molecular regulatory mechanisms to regulate diverse cellular processes. These processes have a significant impact on the structure and function of proteins. Disruption in PTMs can lead to the dysfunction of vital biological processes and hence to various diseases. High-throughput experimental methods for discovery of PTMs are very laborious and time-consuming. Therefore, there is an urgent need for computational methods and powerful tools to predict PTMs. There are vast amounts of PTMs data, which are publicly accessible through many online databases. In this survey, we comprehensively reviewed the major online databases and related tools. The current challenges of computational methods were reviewed in detail as well. |
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| AbstractList | Posttranslational modifications (PTMs) refer to amino acid side chain modification in some proteins after their biosynthesis. There are more than 400 different types of PTMs affecting many aspects of protein functions. Such modifications happen as crucial molecular regulatory mechanisms to regulate diverse cellular processes. These processes have a significant impact on the structure and function of proteins. Disruption in PTMs can lead to the dysfunction of vital biological processes and hence to various diseases. High-throughput experimental methods for discovery of PTMs are very laborious and time-consuming. Therefore, there is an urgent need for computational methods and powerful tools to predict PTMs. There are vast amounts of PTMs data, which are publicly accessible through many online databases. In this survey, we comprehensively reviewed the major online databases and related tools. The current challenges of computational methods were reviewed in detail as well. |
| Author | Zahiri, Javad Ramazi, Shahin |
| Author_xml | – sequence: 1 givenname: Shahin surname: Ramazi fullname: Ramazi, Shahin organization: Bioinformatics and Computational Omics Lab (BioCOOL), Department of Biophysics, Faculty of Biological Sciences Tarbiat Modares University, Jalal Ale Ahmad Highway, P.O. Box: 14115-111, Tehran, Iran – sequence: 2 givenname: Javad orcidid: 0000-0002-8360-2458 surname: Zahiri fullname: Zahiri, Javad organization: Bioinformatics and Computational Omics Lab (BioCOOL), Department of Biophysics, Faculty of Biological Sciences Tarbiat Modares University, Jalal Ale Ahmad Highway, P.O. Box: 14115-111, Tehran, Iran, Department of Neuroscience, University of California San Diego, La Jolla, CA, USA, Department of Pediatrics, University of California San Diego, La Jolla, CA, USA |
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| License | https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model This article is published and distributed under the terms of the Oxford University Press, Standard Journals Publication Model (https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model) |
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| Notes | Shahin Ramazi and Javad Zahiri contributed equally to this work. |
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| OpenAccessLink | https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab012/37044588/baab012.pdf |
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| PublicationDate | 2021-04-07 |
| PublicationDateYYYYMMDD | 2021-04-07 |
| PublicationDate_xml | – month: 04 year: 2021 text: 2021-04-07 day: 07 |
| PublicationDecade | 2020 |
| PublicationPlace | UK |
| PublicationPlace_xml | – name: UK |
| PublicationTitle | Database : the journal of biological databases and curation |
| PublicationYear | 2021 |
| Publisher | Oxford University Press |
| Publisher_xml | – name: Oxford University Press |
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