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Protein Folding

Protein Folding

Protein Folding

Protein Folding

Proteins are chains of amino acids linked together by peptide bonds. Upon synthesis, a protein folds into a three-dimensional conformation, critical to its biological function. Interactions between its constituent amino acids guide protein folding, and hence the protein structure is primarily dependent on its amino acid sequence.
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...

Protein Folding

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Protein Organization

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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....

Protein Organization

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Updated: Apr 30, 2026

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

SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information.

Marco Biasini¹, Stefan Bienert¹, Andrew Waterhouse¹

¹Biozentrum, University of Basel, Basel 4056, Switzerland SIB Swiss Institute of Bioinformatics, Basel 4056, Switzerland.

Nucleic Acids Research

|May 1, 2014

Summary

SWISS-MODEL is an automated protein structure homology modeling system. The latest version offers improved template selection, quality estimation, and a user-friendly interface for building accurate 3D protein models.

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

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Published on: July 25, 2013

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Last Updated: Apr 30, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction

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Published on: November 3, 2011

Quaternary Structure Modeling Through Chemical Cross-Linking Mass Spectrometry: Extending TX-MS Jupyter Reports

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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 homology modeling is crucial for understanding protein function when experimental data is lacking.
Automated servers simplify the generation of 3D protein models, eliminating the need for specialized software or large databases.

Purpose of the Study:

To describe the latest version of the SWISS-MODEL expert system for protein structure modeling.
To highlight enhancements in template selection, model quality estimation, and user interface.

Main Methods:

Utilized an improved SWISS-MODEL pipeline with extensive model quality estimation for template selection.
Integrated quaternary structure and ligand annotations into the template library.
Developed a new web interface for interactive template searching, clustering, and structural comparison.

Main Results:

The enhanced SWISS-MODEL system provides estimates of resulting model accuracy.
The system supports building complete structural models, including oligomeric states.
User-guided template selection enables modeling of proteins in different functional states.

Conclusions:

The latest SWISS-MODEL version offers a robust and user-friendly platform for generating reliable protein 3D models.
Continuous evaluation by the CAMEO system ensures ongoing accuracy assessment.
SWISS-MODEL facilitates structural modeling for a wide range of research applications.