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Related Concept Videos

Introduction to Structures01:30

Introduction to Structures

A structure is defined as a system of interconnected members designed to support or transfer forces and successfully withstand the loads acting on them. The internal forces of a structure can be determined by decomposing the structure and analyzing the free-body diagrams of the individual members or of a combination of members. This helps in understanding the structural elements' behavior and ensuring that the structure is stable and can withstand the subjected loads.
There are three main...
Structural Isomerism02:34

Structural Isomerism

Isomerism in Complexes
Isomers are different chemical species that have the same chemical formula. Structural isomerism of coordination compounds can be divided into two subcategories, the linkage isomers and coordination-sphere isomers.
Linkage isomers occur when the coordination compound contains a ligand that can bind to the transition metal center through two different atoms. For example, the CN− ligand can bind through the carbon atom or through the nitrogen atom. Similarly, SCN− can be...
Structural Classification of Joints01:20

Structural Classification of Joints

Joints, also known as articulations, are classified based on their structural characteristics, i.e., based on whether the articulating surfaces of the adjacent bones are directly connected by fibrous connective tissue or cartilage, or whether the articulating surfaces contact each other within a fluid-filled joint cavity. These differences serve to divide the joints of the body into three structural classifications.
A fibrous joint is where the adjacent bones are united by fibrous connective...
Structural Protein Function01:56

Structural Protein Function

Structural proteins are a category of proteins responsible for functions ranging from cell shape and movement to providing support to major structures such as bones, cartilage, hair, and muscles. This group includes proteins such as collagen, actin, myosin, and keratin.
Collagen, the most abundant protein in mammals, is found throughout the body. In connective tissue, such as skin, ligaments, and tendons, it provides tensile strength and elasticity.  In bones and teeth, it mineralizes to form...
Structural Protein Function01:56

Structural Protein Function

Structural proteins are a category of proteins responsible for functions ranging from cell shape and movement to providing support to major structures such as bones, cartilage, hair, and muscles. This group includes proteins such as collagen, actin, myosin, and keratin.
Collagen, the most abundant protein in mammals, is found throughout the body. In connective tissue, such as skin, ligaments, and tendons, it provides tensile strength and elasticity.  In bones and teeth, it mineralizes to form...
Structural Organization of the Human Body: An Overview01:18

Structural Organization of the Human Body: An Overview

It is convenient to consider the body's structures in terms of fundamental levels of organization that increase in complexity: subatomic particles, atoms, molecules, organelles, cells, tissues, organs, organ systems, and organisms.
To study the chemical level of organization, scientists consider the simplest building blocks of matter: subatomic particles, atoms, and molecules. All matter in the universe is composed of one or more unique pure substances called elements, familiar examples of...

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Related Experiment Video

Updated: Jun 10, 2026

Analyzing and Building Nucleic Acid Structures with 3DNA
16:24

Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

Superpose3D: a local structural comparison program that allows for user-defined structure representations.

Pier Federico Gherardini1, Gabriele Ausiello, Manuela Helmer-Citterich

  • 1Centre for Molecular Bioinformatics, Department of Biology, University of Rome Tor Vergata, Rome, Italy.

Plos One
|August 12, 2010
PubMed
Summary
This summary is machine-generated.

Superpose3D is novel software for protein structural comparison. It allows flexible user-defined descriptions to accurately identify functional sites like enzyme active sites.

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Related Experiment Videos

Last Updated: Jun 10, 2026

Analyzing and Building Nucleic Acid Structures with 3DNA
16:24

Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

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

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions
13:43

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions

Published on: June 24, 2013

Area of Science:

  • Structural bioinformatics
  • Computational biology
  • Protein structure analysis

Background:

  • Protein structural comparison is crucial for identifying functional sites.
  • The effectiveness of comparison methods depends heavily on the chosen structural representation.
  • Different functional sites necessitate focusing on distinct protein residue characteristics.

Purpose of the Study:

  • To develop a flexible software tool for local structural comparison of proteins.
  • To enable users to customize structure descriptions for specific analytical needs.
  • To enhance the accuracy of identifying similar functional protein patches.

Main Methods:

  • Developed superpose3D, a novel C++ software for structural comparison.
  • Implemented a flexible syntax for user-defined protein structure descriptions.
  • Applied the software to identify sets of residues with similar 3D positions in different protein structures.

Main Results:

  • Demonstrated the advantages of superpose3D through various test cases.
  • Showcased that a single representation is insufficient for all analyses.
  • Highlighted the utility of a flexible program tailored to diverse requirements.
  • Provided insights into interpreting database screening results for structural motifs.

Conclusions:

  • Superpose3D offers a powerful and adaptable solution for local protein structural comparison.
  • User-defined representations are essential for accurate functional site identification.
  • The software facilitates tailored analyses for diverse structural bioinformatics tasks.