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Related Concept Videos

Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
Protein Organization01:24

Protein Organization

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.
Protein Organization01:13

Protein Organization

Overview
Protein Organization01:24

Protein Organization

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.
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,...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...

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Updated: May 18, 2026

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
06:50

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

Abstracting knowledge from the Protein Data Bank.

Nicholas Furnham1, Roman A Laskowski, Janet M Thornton

  • 1EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. nickf@ebi.ac.uk

Biopolymers
|October 2, 2012
PubMed
Summary
This summary is machine-generated.

The Protein Data Bank (PDB) has over 80,000 structural models, advancing our understanding of protein function, molecular biology, and evolution over 40 years.

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
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Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
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Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

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Related Experiment Videos

Last Updated: May 18, 2026

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

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

Published on: July 16, 2017

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
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Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

Area of Science:

  • Structural Biology
  • Biochemistry
  • Molecular Evolution

Background:

  • The Protein Data Bank (PDB) was established 40 years ago.
  • It has accumulated over 80,000 experimentally determined structural models.
  • These models include proteins, DNA, and RNA fragments.

Observation:

  • Most protein models in the PDB have enhanced understanding of specific protein functions.
  • This includes insights into catalytic residue conformation and molecular interactions.
  • The PDB data also reveals details about interactions with other proteins, substrates, and nucleic acids.

Findings:

  • The comprehensive data in the PDB offers a vast resource for generalized knowledge.
  • This knowledge extends to protein molecular biology and evolutionary pathways.
  • The study reviews the evolution of protein structural analysis over four decades.

Implications:

  • The PDB serves as a critical repository for structural biology research.
  • Continued analysis of PDB data will further illuminate protein function and evolution.
  • This resource is fundamental for advancing molecular biology and understanding life's processes.