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Related Concept Videos

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,...
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,...
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Protein Folding01:25

Protein Folding

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.
Protein Structure Is Critical to Its Biological Function
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Protein and Protein Structure02:15

Protein and Protein Structure

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The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
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An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

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Published on: July 12, 2022

Do natural proteins differ from random sequences polypeptides? Natural vs. random proteins classification using an

Davide De Lucrezia1, Debora Slanzi, Irene Poli

  • 1European Centre for Living Technology, University Ca' Foscari Venice. Venice, Italy.

Plos One
|May 23, 2012
PubMed
Summary
This summary is machine-generated.

Natural proteins are significantly edited from random sequences, with evolutionary editing detectable through structural features. An Evolutionary Neural Network Algorithm (ENNA) accurately distinguishes natural from random proteins based on structure.

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Area of Science:

  • Biochemistry
  • Structural Biology
  • Evolutionary Biology

Background:

  • The origin of extant proteins as products of natural selection versus random sequences edited by evolution remains a key question.
  • Previous studies comparing natural and random protein sequences yielded contradictory results, often focusing on primary structure.

Purpose of the Study:

  • To investigate whether natural proteins are significantly edited from random polypeptides using structural features.
  • To assess the efficacy of an Evolutionary Neural Network Algorithm (ENNA) in distinguishing natural from random proteins based on structural properties.

Main Methods:

  • Comparison of 762 natural proteins with an equal number of random polypeptides of similar length (average 70 amino acids).
  • Utilized an ad hoc Evolutionary Neural Network Algorithm (ENNA) with 11 structure-related variables (e.g., net charge, volume, secondary structure percentages, hydrophobicity).

Main Results:

  • The ENNA correctly distinguished natural from random proteins with 94.36% accuracy.
  • Misclassified random polypeptides showed significant fold similarity to portions or subdomains of extant proteins at atomic resolution.

Conclusions:

  • Natural proteins are substantially edited from random polypeptides, and evolutionary editing is detectable via structural analysis.
  • The ENNA effectively predicts whether a protein chain is natural or random using simple structural descriptors.