Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

Deducing protein structures using logic programming: exploiting minimum data of diverse types

¹EMBL Data Library, European Molecular Biology Laboratory, Heidelberg, Germany.

Journal of Theoretical Biology

|April 21, 1995

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

Copper in photosystem II: association with LHC II.

Photosynthesis research·2014

Same author

Issues in incorporation semantic integrity in molecular biological object-oriented databases.

Computer applications in the biosciences : CABIOS·1995

Same author

CDR3 length in antigen-specific immune receptors.

The Journal of experimental medicine·1994

Same author

Weighting in sequence space: a comparison of methods in terms of generalized sequences.

Proceedings of the National Academy of Sciences of the United States of America·1993

Same author

PALM--a pattern language for molecular biology.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·1993

Same author

Overseer: a nucleotide sequence searching tool.

Computer applications in the biosciences : CABIOS·1992

Same journal

The male-biased sex ratio in humans and its role in the transition from promiscuity to pair bonding.

Journal of theoretical biology·2026

Same journal

Quantifying the counter-intuitive effects of vaccination by coupling the transmission dynamics of COVID-19 and the evolution of human behaviors.

Journal of theoretical biology·2026

Same journal

An integrative model of FGF2-induced signaling and muscle cell proliferation.

Journal of theoretical biology·2026

Same journal

A hybrid reaction-diffusion and mechanical stimulus model for mandibular bone remodeling under chewing and vibratory loading.

Journal of theoretical biology·2026

Same journal

Integrated tick management strategies in fragmented peridomestic environments.

Journal of theoretical biology·2026

Same journal

Joint likelihood-free inference of the number of selected single nucleotide polymorphisms and their selection coefficients in an evolving population.

Journal of theoretical biology·2026

See all related articles

Protein modeling resolution is directly linked to constraint data quantity and quality. This study quantifies this relationship, showing high-resolution protein models are achievable with sufficient biophysical data.

Area of Science:

Structural biology
Computational biology
Biophysics

Background:

Protein structure determination is crucial for understanding biological function.
The accuracy of protein models is limited by the quantity and quality of available constraint data.
Developing predictive models requires quantifying the relationship between data input and output resolution.

Purpose of the Study:

To quantify the relationship between the amount of constraint data and achievable protein model resolution.
To establish an information-theoretic framework for calculating the bits of information per residue needed for protein modeling.
To demonstrate the feasibility of achieving high-resolution protein models using standard biophysical techniques.

Main Methods:

Utilized an information-theoretic framework to calculate the information bits per residue required for protein modeling.

Related Experiment Videos

Estimated the information content of various constraint types using a tetrahedral lattice enumeration of molecules (6-21 atoms).

Developed and tested an expert system for protein modeling using diverse data types on known proteins.

Main Results:

Established a quantifiable relationship between data amount and model resolution.
Determined that 5 bits of information per amino acid can yield C-alpha resolutions of 5 Å.
Demonstrated that such data can, in principle, be rapidly collected using standard biophysical techniques.

Conclusions:

The amount and quality of constraint data fundamentally dictate protein model resolution.
High-resolution protein models (e.g., 5 Å) are achievable with specific information thresholds (5 bits/residue).
Standard biophysical techniques can provide the necessary data for accurate protein modeling, advancing structural biology.