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

Statistics of sequence-structure threading

S H Bryant1, S F Altschul

  • 1Computational Biology Branch, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

Current Opinion in Structural Biology
|April 1, 1995
PubMed
Summary
This summary is machine-generated.

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

Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements.

Nucleic acids research·2001
Same author

The estimation of statistical parameters for local alignment score distributions.

Nucleic acids research·2001
Same author

Domain size distributions can predict domain boundaries.

Bioinformatics (Oxford, England)·2000
Same author

SAGEmap: a public gene expression resource.

Genome research·2000
Same author

Cn3D: sequence and structure views for Entrez.

Trends in biochemical sciences·2000
Same author

IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices.

Bioinformatics (Oxford, England)·2000
Same journal

Metabolic disruptions through a three-dimensional genomic lens.

Current opinion in structural biology·2026
Same journal

Collective variable design for biomolecular conformational dynamics.

Current opinion in structural biology·2026
Same journal

Polymer scaling in protein crowding: From dilute coils to semidilute meshes.

Current opinion in structural biology·2026
Same journal

Tuning the physicochemical properties of rationally designed protein-based biomolecular condensates.

Current opinion in structural biology·2026
Same journal

Editorial overview: Folding, binding and protein design.

Current opinion in structural biology·2026
Same journal

Macromolecular crowding reshapes the conformational landscapes of intrinsically disordered proteins: mechanisms, cellular contexts, and functional consequences.

Current opinion in structural biology·2026
See all related articles

New protein structure prediction methods use threading algorithms to align sequences with known structures based on energy calculations. Objective statistical tests, like Z-scores, are proposed to validate these predictions against chance similarities.

Area of Science:

  • Computational biology
  • Structural bioinformatics
  • Protein structure prediction

Background:

  • Recent advancements in protein structure prediction utilize novel recognition methods.
  • These methods involve 'threading' protein sequences through known structures to find energetically favorable alignments.

Purpose of the Study:

  • To evaluate the reliability of threading-based protein structure prediction methods.
  • To introduce objective statistical measures for validating prediction accuracy.

Main Methods:

  • Utilizing energy calculations to align protein sequences with known structures.
  • Proposing the use of Z-scores for statistical validation of threading results.
  • Suggesting simulation methods for approximating p-values in the absence of analytical solutions.

Related Experiment Videos

Main Results:

  • Threading methods expand the scope of comparative modeling for protein structure prediction.
  • Objective statistical tests are crucial to distinguish true structural similarity from chance factors.
  • Z-scores relative to composition-corrected distributions are proposed as a robust validation metric.

Conclusions:

  • Threading algorithms offer a powerful approach for predicting protein structures.
  • Rigorous statistical validation is essential to ensure the reliability of these predictions.
  • The proposed Z-score method provides an objective measure for evaluating threading experiment outcomes.