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Related Concept Videos

Protein Organization01:24

Protein Organization

10.0K
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....
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Protein Organization01:13

Protein Organization

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Protein-protein Interfaces02:04

Protein-protein Interfaces

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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-Protein Interfaces02:04

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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.
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 Networks02:26

Protein Networks

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

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Integrated visual analysis of protein structures, sequences, and feature data.

Christian Stolte, Kenneth S Sabir, Julian Heinrich

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    |September 3, 2015
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    Summary
    This summary is machine-generated.

    Aquaria provides biologists with easier access to protein 3D structures and sequence features. This resource streamlines the mapping of sequence data onto structures, accelerating biological discovery.

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    Area of Science:

    • Structural biology
    • Bioinformatics
    • Molecular biology

    Background:

    • Biologists require access to atomic-resolution 3D protein structures.
    • Mapping sequence-based features (e.g., SNPs, modifications) onto structures is crucial for understanding protein function.

    Purpose of the Study:

    • To present Aquaria, a novel resource for accessing and analyzing protein structure information.
    • To detail the design choices in Aquaria that address key molecular biology tasks.
    • To demonstrate Aquaria's utility through case studies.

    Main Methods:

    • Developed Aquaria based on an all-against-all comparison of SwissProt and PDB sequences.
    • Conducted a requirements analysis for common molecular biology tasks.
    • Designed a user interface for exploring protein features and insights.

    Main Results:

    • Aquaria offers unprecedented access to protein structure data.
    • The resource streamlines the process of mapping sequence features onto 3D structures.
    • Case studies with domain experts validated the generation of biologically meaningful insights.

    Conclusions:

    • Aquaria's user interface simplifies the generation of insights from molecular structures.
    • The platform enhances the ease and speed of mapping sequence features onto protein structures.