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Related Concept Videos

Protein Families02:47

Protein Families

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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...
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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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Protein-protein Interfaces02:04

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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 Organization01:24

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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.
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Conservation of Protein Domains Over Different Proteins02:26

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Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
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Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

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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.
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ProSeqAProDB: Prosequence Assisted Protein Database.

Nikita Ray1, Rahul Kumar Vishwakarma1, Aakriti Jain1

  • 1Department of Biophysics, University of Delhi South Campus, Benito Juarez Road, New Delhi, Delhi 110021, India.

Journal of Molecular Biology
|February 24, 2023
PubMed
Summary
This summary is machine-generated.

Prosequences, or prodomains, assist protein folding by overcoming kinetic barriers. The ProSeqAProDb database now enables evolutionary and structural studies of these unique proteins.

Keywords:
databasefoldingintramolecular chaperoneprosequenceproteases

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Evolutionary Biology

Background:

  • Proteins requiring prosequences (prodomains) for folding were identified in the early 1990s.
  • These prosequences act as intramolecular chaperones (IMCs), aiding proteins with folding kinetic barriers before cleavage.
  • Despite numerous examples, the evolutionary aspects and unique characteristics of these proteins remain understudied.

Purpose of the Study:

  • To systematically investigate proteins that depend on prosequences for folding.
  • To analyze the evolutionary differences and similarities of prosequence-assisted proteins.
  • To explore potential unique structural facets, biological roles, and conserved features of prosequences.

Main Methods:

  • Development of ProSeqAProDb, a comprehensive database for prosequence-assisted proteins.
  • Curated data includes protein information, prosequence details, and organism/family categorization.
  • Database is accessible online at https://proseqaprodb.mkulab.in.

Main Results:

  • The database currently houses 2140 prosequence-assisted proteins from diverse origins (eukaryotic, bacterial, viral, archaeal).
  • Data spans 690 organisms and is categorized into 960 protein families.
  • Provides a foundational dataset for comparative analysis.

Conclusions:

  • ProSeqAProDb facilitates systematic research into the origin, function, and evolution of prosequence-assisted proteins.
  • The database aims to advance the understanding of alternative protein folding strategies.
  • Enables global researchers to explore the broader implications for protein folding mechanisms.