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ProFunc: a server for predicting protein function from 3D structure.

Roman A Laskowski1, James D Watson, Janet M Thornton

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

Nucleic Acids Research
|June 28, 2005
PubMed
Summary
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ProFunc is a web server that predicts protein function using known 3D structures. It aids structural genomics by analyzing hypothetical proteins and identifying functional clues for experimental validation.

Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Determining protein function is crucial for understanding biological processes.
  • Structural genomics initiatives generate numerous protein structures with unknown functions.
  • Predictive tools are needed to assign putative functions to these proteins.

Purpose of the Study:

  • To introduce ProFunc, a web server designed for predicting protein function from 3D structures.
  • To provide a comprehensive analysis of protein sequence and structure for functional inference.
  • To assist researchers in structural genomics and comparative protein family analysis.

Main Methods:

  • Users submit protein 3D structure coordinates in PDB format.
  • ProFunc employs existing and novel methods for sequence and structural analysis.

Related Experiment Videos

  • The server identifies functional motifs and relationships to characterized proteins.

    • Main Results:

    • ProFunc provides a summary of analyses, offering an at-a-glance view of findings.
    • Detailed results are available, with different methods potentially yielding complementary information.
    • The tool helps in identifying potential functional clues for experimentally uncharacterized proteins.

    Conclusions:

    • ProFunc is a valuable resource for structural genomics, particularly for hypothetical proteins.
    • It facilitates comparative analysis within protein families.
    • The server offers a convenient way to access sequence and structural information for functional prediction.