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Related Concept Videos

Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...
Conservation of Protein Domains02:26

Conservation of Protein Domains

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...
Proteomics01:33

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...
The Proteasome02:18

The Proteasome

Eukaryotic cells can degrade proteins through several pathways. One of the most important amongst these is the ubiquitin-proteasome pathway. It helps the cell eliminate the misfolded, damaged, or unwarranted cytoplasmic proteins in a highly specific manner.
In this pathway, the target proteins are first tagged with small proteins called ubiquitin. A series of enzymes carry out the ubiquitination of the target proteins - E1 (ubiquitin-activating enzyme), E2 (ubiquitin-conjugating enzyme), and E3...

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Related Experiment Video

Updated: Jul 2, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

ProtIdent: a web server for identifying proteases and their types by fusing functional domain and sequential

Kuo-Chen Chou1, Hong-Bin Shen

  • 1Institute of Image Processing & Pattern Recognition, Shanghai Jiaotong University, 800 Dongchuan Road, Shanghai, 200240, China. kcchou@gordonlifescience.org

Biochemical and Biophysical Research Communications
|September 9, 2008
PubMed
Summary

This study introduces ProtIdent, a novel tool for identifying proteases and their types from protein sequences. The predictor achieves over 92% accuracy, aiding drug development by classifying these vital enzymes.

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An Integrated Approach for Microprotein Identification and Sequence Analysis
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16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

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09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

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Area of Science:

  • Biochemistry
  • Bioinformatics
  • Computational Biology

Background:

  • Proteases are crucial enzymes involved in various life processes.
  • They are significant targets in pharmaceutical research and drug development.
  • Accurate classification of proteases is essential for understanding their functions.

Purpose of the Study:

  • To develop a computational tool for identifying proteases from uncharacterized protein sequences.
  • To classify identified proteases into one of the six known types (aspartic, cysteine, glutamic, metallo, serine, threonine).
  • To provide a reliable and accessible web server for protease identification.

Main Methods:

  • Development of a two-layer prediction system named "ProtIdent".
  • The first layer distinguishes between proteases and non-proteases.
  • The second layer classifies proteases into six functional types using fused functional domain and sequential evolution information.

Main Results:

  • ProtIdent achieved overall success rates exceeding 92% in both protease identification and type classification.
  • The predictor demonstrated high accuracy through rigorous cross-validation tests.
  • The tool is available as a public web server for researchers.

Conclusions:

  • ProtIdent is an effective computational tool for identifying and classifying proteases.
  • The fusion of functional domain and sequential evolution information enhances prediction accuracy.
  • This tool can significantly aid researchers in drug development and biological studies involving proteases.