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

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

6.1K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
6.1K
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

52
Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
52
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

7.3K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
7.3K
Convergent Evolution01:54

Convergent Evolution

28.2K
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.
28.2K
Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

4.0K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
4.0K
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

72
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
72

You might also read

Related Articles

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

Sort by
Same author

What will be the future of computational biology for macromolecules in the era of AI?

PLoS computational biology·2026
Same author

Identification of protein secretion systems and type III effectors in wood-associated bacteria of the genus <i>Xylophilus</i>.

Microbiology spectrum·2026
Same author

BetaDescribe: Providing rich descriptions from protein sequences.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

mTACT: A cell type-specific transportome-scale amiRNA toolbox to overcome functional redundancy in Arabidopsis.

Plant physiology·2025
Same author

Whole-genome resequencing of the wild barley diversity collection: a resource for identifying and exploiting genetic variation for cultivated barley improvement.

G3 (Bethesda, Md.)·2025
Same author

Triphenylphosphonium is an effective targeting moiety for plant mitochondria.

The New phytologist·2025

Related Experiment Video

Updated: Aug 12, 2025

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.5K

Using evolutionary data to make sense of macromolecules with a "face-lifted" ConSurf.

Barak Yariv1, Elon Yariv1, Amit Kessel1

  • 1George S. Wise Faculty of Life Sciences, Department of Biochemistry and Molecular Biology, Tel Aviv University, Tel Aviv, Israel.

Protein Science : a Publication of the Protein Society
|January 31, 2023
PubMed
Summary

ConSurf is a web server that analyzes evolutionary rates in proteins, RNA, and DNA to identify critical functional regions. Recent upgrades enhance usability and integrate AlphaFold structures for deeper insights into macromolecular function.

Keywords:
ConSurfevolutionary conservationfunction predictionfunctional regions

More Related Videos

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
07:09

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

9.6K
Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

16.0K

Related Experiment Videos

Last Updated: Aug 12, 2025

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

3.5K
A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
07:09

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

9.6K
Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

16.0K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Molecular Evolution

Background:

  • ConSurf is a web server for analyzing evolutionary rates across homologous sequences.
  • Identifying functionally important regions, like catalytic sites, is crucial for understanding protein function.
  • Previous versions of ConSurf have been instrumental in this analysis.

Purpose of the Study:

  • To report on significant improvements and new features of the ConSurf web server since its last update in 2016.
  • To enhance the user-friendliness and analytical capabilities for studying evolutionary patterns in biological macromolecules.
  • To highlight the integration of new tools and structural data for more insightful analyses.

Main Methods:

  • Utilizing hidden Markov model-based search tools to collect homologous sequences.
  • Implementing a Python re-implementation of the computational pipeline for improved maintainability and a standalone version.
  • Integrating AlphaFold model structures for proteins, accessible via UniProt ID, to map evolutionary rates onto 3D structures.

Main Results:

  • ConSurf now features a user-friendly interface for easier analysis and result visualization.
  • The pipeline effectively assembles representative homologous sets for proteins and nucleic acids.
  • Evolutionary rates can now be readily mapped onto available AlphaFold structures, enhancing structural-functional insights.

Conclusions:

  • The updated ConSurf server provides a powerful and accessible tool for analyzing evolutionary rates in proteins, RNA, and DNA.
  • The integration of AlphaFold structures significantly increases the relevance and utility of ConSurf for the research community.
  • The standalone Python pipeline facilitates broader adoption and further development of ConSurf's capabilities.