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Compilation and analysis of intein sequences

F B Perler1, G J Olsen, E Adam

  • 1New England Biolabs Inc., Beverly, MA 01915, USA. perler@neb.com

Nucleic Acids Research
|March 15, 1997
PubMed
Summary

This study analyzes intein sequences, identifying a new motif (Block H) and refining understanding of conserved residues. Inteins in similar extein locations are likely alleles, with significant divergence overall.

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Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Protein Chemistry

Background:

  • Inteins are protein splicing elements mediating post-translational modification.
  • Previous studies identified conserved motifs within inteins.

Purpose of the Study:

  • To compile and analyze available intein sequences as of September 1996.
  • To refine known intein motifs and identify new ones.
  • To investigate conserved splice junction residues and intein relationships.

Main Methods:

  • Sequence compilation from databases and literature.
  • Sequence analysis and motif identification.
  • Phylogenetic analysis of intein sequences.

Main Results:

  • A list of 36 intein sequences was compiled.
  • A new intein motif, Block H, was identified.
  • Three inteins lacked the previously conserved penultimate histidine residue.
  • Inteins in homologous positions across species appear to be alleles.
  • Multiple inteins within a single gene showed no greater similarity than inteins in different genes.
  • Phylogenetic analysis revealed high intein divergence, limiting robust tree generation except for alleles.

Conclusions:

  • Intein sequence analysis refines understanding of their structure and evolution.
  • The concept of intein alleles is proposed for closely related inteins in homologous positions.
  • High divergence suggests inteins may have evolved independently multiple times or undergone rapid evolution.

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