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Related Experiment Videos

The Sequence Attribute Method for Determining Relationships Between Sequence and Protein Disorder.

Xie, Arnold, Romero

    Genome Informatics. Workshop on Genome Informatics
    |November 10, 2000
    PubMed
    Summary

    This study ranks 38 sequence attributes for distinguishing protein order from disorder. Attributes related to cysteine, aromatics, flexibility, and charge are most effective for predicting these structural states.

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    Area of Science:

    • Biochemistry
    • Structural Biology
    • Bioinformatics

    Background:

    • Protein structure is classified as either ordered or disordered.
    • Predicting these structural states from amino acid sequences is crucial for understanding protein function.
    • Bayes' Theorem provides a framework for calculating conditional probabilities.

    Purpose of the Study:

    • To quantitatively compare 38 different sequence attributes for their ability to discriminate between ordered and disordered protein states.
    • To rank these attributes based on their predictive power.

    Main Methods:

    • Calculated conditional probability P(s|x) using Bayes' Theorem, where s is the structural state (ordered/disordered) and x is an attribute value over a 21-amino acid window.
    • Generated conditional probability plots to visualize the correlation between attributes and structural states.

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  • Rank-ordered 38 sequence attributes based on their discriminatory power.

    • Main Results:

    • Conditional probability plots effectively visualize the correlation between sequence attributes and protein structural states.
    • Attributes related to cysteine, aromatic residues, flexibility, and charge demonstrated the highest efficacy in distinguishing between order and disorder.
    • A quantitative ranking of 38 attributes was established.

    Conclusions:

    • Sequence attributes can be quantitatively assessed for their ability to predict protein structural states.
    • Specific amino acid properties, including those of cysteine, aromatics, flexibility, and charge, are strong indicators of protein order or disorder.