Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Intrinsically Disordered Proteins02:18

Intrinsically Disordered Proteins

19.3K
Intrinsically disordered proteins are a group of proteins that do not fold into specific three-dimensional structures. Their structural flexibility allows them to complement ordered proteins to perform functions that are inaccessible to rigid structures. They are more common in eukaryotes than prokaryotes and may either be exclusively intrinsically disordered or hybrid proteins, consisting of a mix of ordered and disordered regions. The absence of a rigid structure in these proteins can be...
19.3K
Intrinsically Disordered Proteins02:18

Intrinsically Disordered Proteins

2.8K
2.8K
The Evidence for Evolution02:55

The Evidence for Evolution

47.7K
Genetic variations accumulating within populations over generations give rise to biological evolution. Evolutionary changes can result in the formation of novel varieties and entire new species. These changes are responsible for the diverse forms of life inhabiting the planet. The evidence for evolution suggests that all living organisms descended from common ancestors.
47.7K
Convergent Evolution01:54

Convergent Evolution

31.7K
Evolution shapes the features of organisms over time, ensuring that they are suited for the environments in which they live. Sometimes, selection pressure leads to the rise of similar but unrelated adaptations in organisms with no recent common ancestors, a process known as convergent evolution.
31.7K
Eukaryotic Evolution01:24

Eukaryotic Evolution

40.4K
The endosymbiont theory is the most widely accepted theory of eukaryotic evolution; however, its progression is still somewhat debated. According to the nucleus-first hypothesis, the ancestral prokaryote first evolved a membrane to enclose DNA and form the nucleus. Conversely, the mitochondria-first hypothesis suggests that the nucleus was formed after endosymbiosis of mitochondria.
Contrary to the endosymbiont theory, the eukaryote-first hypothesis proposes that the simpler prokaryotic and...
40.4K
Synteny and Evolution02:31

Synteny and Evolution

3.8K
John H. Renwick first coined the term “synteny” in 1971, which refers to the genes present on the same chromosomes, even if they are not genetically linked. The species with common ancestry tend to show conserved syntenic regions. Therefore, the concept of synteny is nowadays used to describe the evolutionary relationship between species.
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
3.8K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Foundation neural-networks quantum states as a unified Ansatz for multiple hamiltonians.

Nature communications·2025
Same author

Towards a robust approach to infer causality from molecular dynamics simulations.

The Journal of chemical physics·2025
Same author

Reconstruction of Ancestral Protein Sequences Using Autoregressive Generative Models.

Molecular biology and evolution·2025
Same author

Automatic feature selection and weighting in molecular systems using Differentiable Information Imbalance.

Nature communications·2025
Same author

Coarse-Grained Molecular Dynamics with Normalizing Flows.

Journal of chemical theory and computation·2024
Same author

Unsupervised modeling of mutational landscapes of adeno-associated viruses viability.

BMC bioinformatics·2024

Related Experiment Video

Updated: Jan 26, 2026

Paramagnetic Relaxation Enhancement for Detecting and Characterizing Self-Associations of Intrinsically Disordered Proteins
07:24

Paramagnetic Relaxation Enhancement for Detecting and Characterizing Self-Associations of Intrinsically Disordered Proteins

Published on: September 23, 2021

2.2K

The intrinsic dimension of protein sequence evolution.

Elena Facco1, Andrea Pagnani2,3,4, Elena Tea Russo1

  • 1SISSA, Trieste, Italy.

Plos Computational Biology
|April 9, 2019
PubMed
Summary

Protein sequence evolution is constrained, not random. Researchers calculated the intrinsic dimension (ID) of protein families, finding it consistently low (6-12) and influenced by evolutionary history (phylogeny).

More Related Videos

Mutagenesis and Functional Selection Protocols for Directed Evolution of Proteins in E. coli
09:01

Mutagenesis and Functional Selection Protocols for Directed Evolution of Proteins in E. coli

Published on: March 16, 2011

31.1K
Molecular Evolution of the Tre Recombinase
12:02

Molecular Evolution of the Tre Recombinase

Published on: May 29, 2008

10.1K

Related Experiment Videos

Last Updated: Jan 26, 2026

Paramagnetic Relaxation Enhancement for Detecting and Characterizing Self-Associations of Intrinsically Disordered Proteins
07:24

Paramagnetic Relaxation Enhancement for Detecting and Characterizing Self-Associations of Intrinsically Disordered Proteins

Published on: September 23, 2021

2.2K
Mutagenesis and Functional Selection Protocols for Directed Evolution of Proteins in E. coli
09:01

Mutagenesis and Functional Selection Protocols for Directed Evolution of Proteins in E. coli

Published on: March 16, 2011

31.1K
Molecular Evolution of the Tre Recombinase
12:02

Molecular Evolution of the Tre Recombinase

Published on: May 29, 2008

10.1K

Area of Science:

  • Computational Biology
  • Protein Evolution
  • Bioinformatics

Background:

  • Protein structure and function are maintained through specific mutation patterns, not random changes.
  • Understanding the constraints on protein sequence evolution is crucial for predicting evolutionary trajectories.

Purpose of the Study:

  • To quantitatively assess the variability allowed in protein sequence evolution.
  • To compute the intrinsic dimension (ID) of protein families to measure evolutionary flexibility.

Main Methods:

  • Calculation of the intrinsic dimension (ID) for sequences within selected protein families.
  • Comparison of observed ID values with those generated by maximum entropy models.
  • Inclusion of phylogenetic information to refine ID calculations.

Main Results:

  • The intrinsic dimension (ID) of protein sequences within families is consistently low, ranging from 6 to 12.
  • Observed ID values are significantly lower than expected from models considering only correlations between mutations.
  • Phylogenetic relationships are critical for accurately reproducing the observed intrinsic dimension in natural protein families.

Conclusions:

  • Protein sequence evolution operates within a limited dimensional space, indicating strong evolutionary constraints.
  • Simple correlation models are insufficient to explain the observed low intrinsic dimension.
  • Phylogeny plays a vital role in shaping the evolutionary landscape of protein sequences.