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 Experiment Videos

Local protein sequence similarity does not imply a structural relationship.

M J Sternberg1, S A Islam

  • 1Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, London, UK.

Protein Engineering
|December 1, 1990
PubMed
Summary

Local sequence similarity in proteins does not reliably predict structural similarity when evolutionary or functional links are absent. Such findings suggest caution when predicting protein structure based solely on local sequence matches.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Association between Type of Cooking Fuel and Hypertension among Women Aged 30-49 Years in Bangladesh: A Cross-sectional Study.

Mymensingh medical journal : MMJ·2025
Same author

Platelet Count as a Prognostic Factor in Stage IV Non-Small Cell Lung Cancer.

Mymensingh medical journal : MMJ·2022
Same author

Association of Low Level of High Density Lipoprotein cholesterol with Acute Coronary syndrome.

Mymensingh medical journal : MMJ·2018
Same author

Admission Troponin I and Post Thrombolytic ST-Segment Resolution in Prediction of Early Risk Stratification in ST- Elevation Myocardial Infarction.

Mymensingh medical journal : MMJ·2018
Same author

Acute anti-obesity effects of intracerebroventricular 11β-HSD1 inhibitor administration in diet-induced obese mice.

Journal of neuroendocrinology·2018
Same author

Mesoblastic Nephroma in a 22 Years Old Woman.

Mymensingh medical journal : MMJ·2015

Area of Science:

  • Bioinformatics
  • Structural Biology
  • Computational Biology

Background:

  • Database searches can identify sequence similarities between unrelated protein fragments.
  • It is often assumed that sequence similarity implies structural similarity, particularly for substructures.

Purpose of the Study:

  • To investigate whether local sequence similarity between proteins predicts structural similarity in the absence of evolutionary or functional relationships.
  • To assess the validity of structure predictions based on local sequence similarity.

Main Methods:

  • Identified local sequence similarities in proteins with known conformations using a standard database search algorithm.
  • Defined significant sequence similarity as a chance probability less than 1%.
  • Analyzed 69 identified false homologies for sequence identity and conservative changes.

Related Experiment Videos

Main Results:

  • Many identified false homologies exhibited around 25% sequence identity and 25% conservative changes.
  • These aligned fragments generally lacked significant similarity in secondary or tertiary structure.
  • Local sequence similarity did not indicate structural similarity without evolutionary or functional support.

Conclusions:

  • Local sequence similarity alone is insufficient to infer structural similarity between evolutionarily or functionally unrelated proteins.
  • Structure predictions based on local sequence similarity to unrelated proteins of known conformation are likely unreliable.