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Related Concept Videos

Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...
Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to form...
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 Organization01:24

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

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Related Experiment Video

Updated: May 26, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

Structural position correlation analysis (SPCA) for protein family.

Qi-Shi Du1, Jian-Zong Meng, Cheng-Hua Wang

  • 1State Key Laboratory of Non-food Biomass Energy and Enzyme Technology, National Engineering Research Center for Non-food Biorefinery, Guangxi Academy of Sciences, Nanning, Guangxi, China. qishi_du@yahoo.com.cn

Plos One
|December 14, 2011
PubMed
Summary
This summary is machine-generated.

Structural position correlation analysis (SPCA) reveals functional networks in protein families by focusing on conserved structures over sequences. This method uncovers distantly allosteric interactions crucial for protein engineering.

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A Protocol for Computer-Based Protein Structure and Function Prediction

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Last Updated: May 26, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

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Published on: July 12, 2022

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
07:49

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

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

Area of Science:

  • Biochemistry
  • Structural Biology
  • Computational Biology

Background:

  • Proteins within a family share similar 3D structures and conserved regions despite differing amino acid sequences.
  • Catalytic and functional residues in conserved regions collaborate to perform biological functions.
  • Communication signals are transmitted through positional networks to regulate protein family functions.

Purpose of the Study:

  • To develop and present a computational approach, structural position correlation analysis (SPCA), for analyzing correlations between structural segments.
  • To investigate the hypothesis that structural conservation is more critical than sequence conservation in protein families.
  • To understand how local structural changes inform protein functional evolution.

Main Methods:

  • Structural Position Correlation Analysis (SPCA) was developed to analyze correlations between structural segments.
  • A standard protein P(0) was defined as the reference point for the protein family.
  • Structural position displacements between P(0) and individual proteins P(i) were analyzed to determine functional differences.

Main Results:

  • SPCA identifies correlation relationships among structural segments that sequence-based methods miss.
  • The analysis reveals a functional communication network among structural segments within protein families.
  • This network effectively illustrates distantly allosteric interactions.

Conclusions:

  • SPCA is effective in detecting structural segment correlations not found by sequence analysis.
  • The revealed functional communication networks provide insights into protein allostery.
  • The findings offer valuable information for protein engineering applications.