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Related Concept Videos

Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
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 Organization01:13

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.

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Updated: Jun 6, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

An Integrated Database for Complex Protein Structure Modeling.

Qiang Wang1, Roland L Dunbrack

  • 1Fox Chase Cancer Center.

Proceedings. IEEE International Conference on Bioinformatics and Biomedicine
|December 15, 2010
PubMed
Summary
This summary is machine-generated.

A new database, IDOPS, integrates protein sequence and domain data for improved homology modeling. It addresses limitations of existing databases, ensuring high coverage of Protein Data Bank (PDB) entries for complex protein structure prediction.

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Last Updated: Jun 6, 2026

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Area of Science:

  • Structural Bioinformatics
  • Computational Biology
  • Protein Structure Prediction

Background:

  • Homology modeling relies on sequence searches against protein structure databases.
  • Complex modeling, like ligand-protein interactions, requires more than sequence data.
  • Existing databases (SCOP, PFAM) lack timely coverage of new Protein Data Bank (PDB) entries due to manual curation.

Purpose of the Study:

  • To introduce IDOPS, a novel relational database for enhanced protein structure modeling.
  • To integrate diverse biological information for more accurate protein modeling.
  • To overcome the coverage limitations of current protein domain databases.

Main Methods:

  • Developed a new relational database, IDOPS.
  • Integrated sequence and biological information from remediated PDB files.
  • Incorporated protein domain information generated using HMM profiles of PFAM families.
  • Implemented a regular update protocol to ensure high coverage.

Main Results:

  • IDOPS successfully integrates sequence and domain information.
  • The database is regularly updated, maintaining high coverage of PDB entries.
  • Provides a more comprehensive resource for complex protein structure modeling.

Conclusions:

  • IDOPS offers a timely and comprehensive solution for protein structure modeling.
  • The integrated approach improves the accuracy and scope of homology modeling.
  • Addresses the need for updated biological information in structural bioinformatics.