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Related Concept Videos

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...
Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
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...
Amyloid Fibrils03:03

Amyloid Fibrils

Amyloid fibrils are aggregates of misfolded proteins.  Under most circumstances, misfolded proteins are either refolded by chaperone proteins or degraded by the proteasome. However, in the case of a mutation or a disease, these proteins can accumulate to form large clusters and often further assemble to form elongated fibers, called fibrils. 
Amyloid deposits were observed as early as 1639 in the liver and the spleen.   In 1854, Rudolph Virchow performed iodine staining, normally used to...

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Updated: May 24, 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

Protein inference: a review.

Ting Huang1, Jingjing Wang, Weichuan Yu

  • 1Dalian University of Technology, China.

Briefings in Bioinformatics
|March 1, 2012
PubMed
Summary
This summary is machine-generated.

Protein inference, assembling peptides into proteins, is vital in proteomics. This review classifies current methods to aid understanding and develop new algorithms for accurate protein identification.

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A Protocol for Computer-Based Protein Structure and Function Prediction
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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

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Last Updated: May 24, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
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Published on: July 12, 2022

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
06:50

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

Area of Science:

  • Proteomics
  • Bioinformatics
  • Computational Biology

Background:

  • Protein inference is crucial for analyzing mass spectrometry data in proteomics.
  • Challenges include degenerate peptides and 'one-hit wonders', complicating protein identification.
  • Accurate protein inference is essential for understanding biological systems.

Purpose of the Study:

  • To review and classify existing protein inference methods.
  • To provide a comprehensive understanding of the current landscape of protein inference.
  • To stimulate the development of novel protein inference algorithms.

Main Methods:

  • Classification of protein inference methods based on peptide identification sources.
  • Categorization of algorithms by their underlying principles.
  • Literature review of established and emerging protein inference techniques.

Main Results:

  • A structured overview of diverse protein inference strategies.
  • Identification of key algorithmic approaches and their characteristics.
  • Highlighting the strengths and limitations of current methods.

Conclusions:

  • Understanding existing methods is key to advancing protein inference.
  • The review provides a foundation for developing more robust and accurate algorithms.
  • Future research can build upon this classification to address current challenges in proteomics.