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

Related Concept Videos

Protein Organization

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence....

You might also read

Related Articles

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

Sort by

Same author

RNAbpFlow: base pair-augmented SE(3) flow matching for conditional RNA 3D structure generation.

Nature methods·2026

Same author

ORIGAMI: Orientation-Aware Graph Neural Network for Assessing Multimeric Interfaces of Protein Complex Structures.

bioRxiv : the preprint server for biology·2026

Same author

xBind: an integrated webserver for large language model-enabled cross-molecular protein binding site prediction.

Nucleic acids research·2026

Same author

PARSEbp: pairwise agreement-based RNA scoring with emphasis on base pairings.

Bioinformatics advances·2026

Same author

Management of Hyperglycemia in Hospitalized Patients.

Annals of internal medicine·2025

Same author

PARSEbp: Pairwise Agreement-based RNA Scoring with Emphasis on Base Pairings.

bioRxiv : the preprint server for biology·2025

Same journal

Correction to 'New origin firing is inhibited by APC/CCdh1 activation in S-phase after severe replication stress'.

Nucleic acids research·2026

Same journal

VeloRM: disentangling pre- and post-splicing RNA modification dynamics at single-cell resolution.

Nucleic acids research·2026

Same journal

Accessibility of telomeric overhangs to stabilizing small-molecule ligands.

Nucleic acids research·2026

Same journal

Multivalent interactions mediate SNAIL transcription factor stimulation of the nucleosome deacetylase activity of the CoREST complex.

Nucleic acids research·2026

Same journal

Genome-wide mapping of DNA G-quadruplexes in Trypanosoma brucei chromatin reveals enrichment in coding regions and transcription start sites.

Nucleic acids research·2026

Same journal

Correction to 'The Gene Ontology knowledgebase in 2026'.

Nucleic acids research·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Nov 5, 2025

Neutron Crystallography Data Collection and Processing for Modelling Hydrogen Atoms in Protein Structures

Neutron Crystallography Data Collection and Processing for Modelling Hydrogen Atoms in Protein Structures

Published on: December 1, 2020

DeepRefiner: high-accuracy protein structure refinement by deep network calibration.

Md Hossain Shuvo¹, Muhammad Gulfam¹, Debswapna Bhattacharya^1,2

¹Department of Computer Science and Software Engineering, Auburn University, Auburn, AL 36849, USA.

Nucleic Acids Research

|May 17, 2021

Summary

This summary is machine-generated.

DeepRefiner is a deep learning-based webserver for high-accuracy protein structure refinement. It achieved top rankings in CASP13 and CASP14 for its advanced refinement capabilities.

More Related Videos

A Protocol for Computer-Based Protein Structure and Function Prediction

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Published on: July 25, 2013

Related Experiment Videos

Last Updated: Nov 5, 2025

Neutron Crystallography Data Collection and Processing for Modelling Hydrogen Atoms in Protein Structures

Neutron Crystallography Data Collection and Processing for Modelling Hydrogen Atoms in Protein Structures

Published on: December 1, 2020

A Protocol for Computer-Based Protein Structure and Function Prediction

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Published on: July 25, 2013

Area of Science:

Computational Biology
Structural Biology
Bioinformatics

Background:

Protein structure refinement is crucial for accurate biological interpretation.
Existing methods may lack the accuracy or flexibility required for diverse applications.
Deep learning offers a promising avenue for enhancing protein structure refinement.

Purpose of the Study:

To introduce DeepRefiner, a novel deep learning-based webserver for high-accuracy protein structure refinement.
To provide a configurable and user-friendly platform for protein structure refinement.
To evaluate the performance of DeepRefiner in rigorous benchmarking experiments.

Main Methods:

Development of a deep learning model utilizing advanced neural network architectures.
Implementation of a webserver with customizable refinement modes (adventurous/conservative).
Extensive testing and validation through participation in Critical Assessment of Techniques for Protein Structure Prediction (CASP) experiments.

Main Results:

DeepRefiner ranked as the No. 2 refinement server in CASP13 and CASP14.
Demonstrated superior performance compared to other leading refinement servers.
The webserver provides interactive results retrieval with quantitative and visual analysis.

Conclusions:

DeepRefiner represents a significant advancement in automated protein structure refinement.
The deep learning approach enables high-accuracy and adaptable refinement strategies.
The user-friendly webserver facilitates accessibility and application in structural biology research.