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Accelerated method for comparing amino acid sequences with allowance for possible gaps. Plotting optimum
International Journal of Peptide and Protein Research
|March 1, 1981
Summary
This study introduces an accelerated method for comparing long amino acid sequences, accounting for gaps. It statistically validates sequence similarity and alignment, confirming homology in prolactin and somatotropin families.
Area of Science:
- Bioinformatics
- Computational Biology
- Molecular Evolution
Background:
- Comparing long amino acid or nucleotide sequences with numerous gaps is computationally intensive.
- Accurate sequence alignment is crucial for understanding evolutionary relationships and protein function.
Purpose of the Study:
- To develop an accelerated method for comparing long biological sequences, incorporating a significant number of potential gaps.
- To statistically evaluate sequence similarity and determine optimal alignments.
Main Methods:
- Limiting similarity charts (Sankoff's algorithm) to a diagonal band.
- Employing the Monte Carlo method for statistical evaluation of similarity.
- Identifying an optimal correspondence path for sequence alignment.
Main Results:
- Demonstrated high-level statistical significance for homology between prolactin and somatotropin sequence families.
- Proposed an optimal alignment for these families, including two gaps.
- Found no statistically significant similarity between proposed duplicated regions in the beta-galactosidase sequence.
Conclusions:
- The accelerated method provides an effective and statistically robust approach for comparing long biological sequences.
- The findings support the homology of prolactin and somatotropin families and refute proposed duplications in beta-galactosidase.
- This method enhances the efficiency and reliability of sequence analysis in bioinformatics.