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Related Concept Videos

Protein-protein Interfaces02:04

Protein-protein Interfaces

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 polypeptide...
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

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 polypeptide...
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 Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...

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Related Experiment Video

Updated: Jul 14, 2026

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells
08:38

Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells

Published on: March 3, 2015

PIC: Protein Interactions Calculator.

K G Tina1, R Bhadra, N Srinivasan

  • 1Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India.

Nucleic Acids Research
|June 23, 2007
PubMed
Summary

The Protein Interactions Calculator (PIC) identifies crucial protein interactions, including hydrogen bonds and hydrophobic interactions, essential for understanding protein stability and function. This tool aids in visualizing these molecular interactions within protein structures and complexes.

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Identifying Protein-protein Interaction Sites Using Peptide Arrays
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Identifying Protein-protein Interaction Sites Using Peptide Arrays

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Genome-wide Protein-protein Interaction Screening by Protein-fragment Complementation Assay (PCA) in Living Cells
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Published on: March 3, 2015

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Identifying Protein-protein Interaction Sites Using Peptide Arrays
07:44

Identifying Protein-protein Interaction Sites Using Peptide Arrays

Published on: November 18, 2014

Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Protein structure and interactions are fundamental to molecular stability and function.
  • Understanding inter-residue interactions is key to deciphering protein behavior.
  • Various weak and strong forces contribute to protein structural integrity.

Purpose of the Study:

  • To introduce the Protein Interactions Calculator (PIC) server for analyzing protein interactions.
  • To provide a comprehensive tool for identifying diverse types of molecular interactions within proteins and complexes.
  • To facilitate the visualization and analysis of residue-level interactions.

Main Methods:

  • Utilizes 3D coordinate sets of protein structures.
  • Computes various interactions: disulfide bonds, hydrophobic, ionic, hydrogen bonds, aromatic-aromatic, aromatic-sulfur, and cation-pi.
  • Calculations based on standard, published criteria.

Main Results:

  • PIC server identifies and quantifies multiple types of inter-residue interactions.
  • Provides accessible surface area and residue-depth information.
  • Enables visualization of interactions using RasMol and Jmol interfaces.

Conclusions:

  • PIC offers a centralized platform for comprehensive protein interaction analysis.
  • Facilitates detailed study of interactions involving buried or exposed residues.
  • Enhances understanding of protein stability and function through detailed interaction mapping.