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Protein Networks02:26

Protein Networks

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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.
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Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
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Protein and Protein Structure02:15

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The organelle-specific signaling sequences direct proteins synthesized in the cytosol to their final destination like ER, mitochondria, peroxisomes, etc. Some of the proteins directed to ER are then trafficked via vesicles to other organelles within the cell or the extracellular environment through the Golgi complex. For example, the rough ER synthesizes soluble proteins for transportation to the lysosomes or secretion out of the cell. It can also synthesize transmembrane proteins that can...
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Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation
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Altering Indispensable Proteins in Controlling Directed Human Protein Interaction Network.

Xizhe Zhang

    IEEE/ACM Transactions on Computational Biology and Bioinformatics
    |July 12, 2018
    PubMed
    Summary
    This summary is machine-generated.

    Indispensable proteins in human networks are sensitive to network changes. Structural control theory findings may be unreliable due to incomplete protein-protein interaction data.

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    Area of Science:

    • Systems Biology
    • Network Science
    • Computational Biology

    Background:

    • Complex systems can be controlled via driver nodes.
    • Human protein-protein interaction (PPI) networks are analyzed using structural control theory.
    • Indispensable proteins are key targets for viruses and drugs.

    Purpose of the Study:

    • To investigate the stability of indispensable proteins in the human PPI network.
    • To assess the impact of network structural changes on indispensable proteins.
    • To evaluate the reliability of structural control theory in incomplete networks.

    Main Methods:

    • Developed a method to alter the human PPI network structure.
    • Identified indispensable proteins before and after structural modifications.
    • Compared sets of indispensable proteins to assess stability.

    Main Results:

    • Few network alterations significantly change the classification of indispensable proteins.
    • Some indispensable proteins are highly sensitive to minor structural changes.
    • Indispensable proteins exhibit varying degrees of sensitivity to network modifications.

    Conclusions:

    • Indispensable proteins are not robust to structural changes in the human PPI network.
    • Incomplete network data can lead to unreliable identification of indispensable proteins.
    • Structural control theory applications require caution due to network incompleteness.