Abstract
Comparison of bioinformatic data is a common application in the life sciences and beyond. In this communication, a novel Java based software tool, ProteinParser, is outlined. This software tool calculates a detailed consensus, or most common, amino acid at a given position in an aligned protein set, whilst also generating a full consensus protein FASTA output. A second application of this software tool, computing a consensus amino acid given a tolerance threshold, is also demonstrated. The phytase and the common bacterial β-lactamase proteins are analysed as 'proof of concept' examples. Consensus proteins, as generated by ProteinParser, are regularly utilised in the selection of residues for protein stabilisation mutagenesis; however, this widely applicable software tool will find many alternative applications in areas such as protein homology modelling.
| Original language | English |
|---|---|
| Pages (from-to) | 69-76 |
| Number of pages | 8 |
| Journal | Computer Methods and Programs in Biomedicine |
| Volume | 85 |
| Issue number | 1 |
| DOIs | |
| Publication status | Published - Jan 2007 |
| Externally published | Yes |
Keywords
- Amino acid frequency counting
- Consensus concept
- Protein alignment
- Protein stabilisation
Fingerprint
Dive into the research topics of 'ProteinParser-A community based tool for the generation of a detailed protein consensus and FASTA output'. Together they form a unique fingerprint.Cite this
- APA
- Author
- BIBTEX
- Harvard
- Standard
- RIS
- Vancouver