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Related Concept Videos

Protein Organization01:24

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.
Protein Organization01:13

Protein Organization

Overview
Protein Organization01:24

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.
Protein Organization01:13

Protein Organization

Overview
Protein and Protein Structure02:15

Protein and Protein Structure

Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme can...
Protein and Protein Structures02:15

Protein and Protein Structures

Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme can...

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Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

WIWS: a protein structure bioinformatics Web service collection.

M L Hekkelman1, T A H Te Beek, S R Pettifer

  • 1Centre for Molecular and Biomolecular Informatics, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, 6525 GA 26 Nijmegen, The Netherlands.

Nucleic Acids Research
|May 27, 2010
PubMed
Summary
This summary is machine-generated.

The WHAT IF program now offers web services for protein structure bioinformatics, enhancing accessibility for structure quality checks, symmetry analysis, and geometric calculations. These services streamline molecular modeling and drug design workflows.

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05:08

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Area of Science:

  • Structural bioinformatics
  • Computational chemistry
  • Drug design

Background:

  • The WHAT IF program is a widely used tool in protein structure bioinformatics.
  • Originally interactive, its modular design allows for web service deployment.

Purpose of the Study:

  • To report a collection of WHAT IF-based web services for protein structure bioinformatics.
  • To make these services programmatically accessible.

Main Methods:

  • Deployment of the WHAT IF program as modular web services.
  • Adherence to WS-I profile and EMBRACE technical guidelines.
  • Provision of services via REST and SOAP paradigms.

Main Results:

  • A suite of WHAT IF-based web services is now available.
  • Services cover structure quality, symmetry, correction, hydrogen optimization, and geometric calculations.
  • Services are freely accessible and run on a dedicated computational cluster.

Conclusions:

  • The WHAT IF web services enhance accessibility for protein structure analysis.
  • These services facilitate molecular modeling and drug design.
  • Daily monitoring ensures function and availability of the web services.