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A Protocol for Computer-Based Protein Structure and Function Prediction
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The ProFunc Function Prediction Server.

Roman A Laskowski1

  • 1European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. roman@ebi.ac.uk.

Methods in Molecular Biology (Clifton, N.J.)
|April 29, 2017
PubMed
Summary
This summary is machine-generated.

The ProFunc web server aids in protein function identification using sequence and structure analysis. This tool helps researchers understand protein roles, supporting structural genomics efforts.

Keywords:
Fold matchingFunction predictionMotifsProFuncProtein 3D structureStructural templates

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Area of Science:

  • * Bioinformatics
  • * Structural Biology
  • * Computational Biology

Background:

  • * Protein function determination is crucial for understanding biological processes.
  • * Experimental or homology-modeled 3D protein structures provide a basis for functional inference.
  • * The structural genomics effort requires efficient tools for analyzing novel protein structures.

Purpose of the Study:

  • * To introduce the ProFunc web server for protein function prediction.
  • * To provide a tool that integrates sequence and structure-based methods for functional analysis.
  • * To support the structural genomics initiative by offering a means to interpret protein structures.

Main Methods:

  • * Utilizes a combination of sequence-based and structure-based computational methods.
  • * Accepts protein 3D coordinates in Protein Data Bank (PDB) file format.
  • * Compares query protein structures/sequences against a database of known proteins to infer function.

Main Results:

  • * Identifies potential functions by matching query proteins to known proteins.
  • * Generates detailed analysis reports accessible via password-protected web pages.
  • * Provides both summary and in-depth functional insights.

Conclusions:

  • * ProFunc is a valuable resource for predicting protein function from 3D structural data.
  • * The server aids researchers in interpreting the biological roles of proteins.
  • * It serves as a key tool in the ongoing structural genomics efforts.