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Related Concept Videos

Protein Organization01:24

Protein Organization

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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.
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Protein Organization01:13

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Protein Folding01:22

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Proteins are chains of amino acids linked together by peptide bonds. Upon synthesis, a protein folds into a three-dimensional conformation, critical to its biological function. Interactions between its constituent amino acids guide protein folding, and hence the protein structure is primarily dependent on its amino acid sequence.
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Protein and Protein Structure02:15

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Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
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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.
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A Protocol for Computer-Based Protein Structure and Function Prediction
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A Protocol for Computer-Based Protein Structure and Function Prediction

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ALIGNSEC: viewing protein secondary structure predictions within large multiple sequence alignments.

Gilbert Deléage1

  • 1Lyon University-CNRS, LBTI-UMR5305, Institute of Biology and Chemistry of Proteins, 7 passage du Vercors, 69367 Lyon cedex 07, France.

Bioinformatics (Oxford, England)
|September 30, 2017
PubMed
Summary
This summary is machine-generated.

ALIGNSEC is a module within ANTHEPROT for visualizing and editing large-scale multiple sequence alignments with secondary structure predictions. This tool aids researchers in analyzing complex protein sequence data efficiently.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Structural Bioinformatics

Background:

  • Large-scale multiple sequence alignments are crucial for understanding protein evolution and function.
  • Integrating secondary structure predictions enhances the interpretability of these alignments.
  • Existing tools may lack interactive features for complex alignment visualization and editing.

Purpose of the Study:

  • To introduce ALIGNSEC, a novel module for ANTHEPROT.
  • To provide an interactive tool for the display, editing, and printing of large-scale multiple alignments.
  • To facilitate the integration of secondary structure predictions within alignment analysis.

Main Methods:

  • ALIGNSEC is developed as a module within the ANTHEPROT software package.
  • The module supports interactive visualization of multiple sequence alignments.
  • It allows for the editing and printing of alignments, incorporating secondary structure data.

Main Results:

  • ALIGNSEC offers an integrated environment for handling large-scale multiple alignments.
  • Secondary structure predictions can be seamlessly displayed and managed alongside sequence data.
  • The tool provides interactive functionalities for alignment manipulation.

Conclusions:

  • ALIGNSEC enhances the analysis of protein sequence alignments by integrating secondary structure information.
  • The ANTHEPROT package, including ALIGNSEC, is freely available for academic use.
  • This module offers a valuable resource for researchers in bioinformatics and structural biology.