Abstract
Search vectors composed of Gly, Ala, Arg, and Pro (GARP) residues retrieve 98% of each of the ribosomal proteins in prokaryotic species with no false hits. Different combinations of G, A, R and P and insertions differentiate each ribosomal protein from all others. Amino acids in two sequence positions separate Gram+ from Gram- bacteria. Specific residues separate proteins of cyanobacteria and chloroplasts from all other species. Structural information played an essential role in developing a GARP based technique to achieve perfect sequence alignment. It is possible to understand why GARP residues are 100% conserved in specific positions in families of proteins present in all species.
| Original language | English |
|---|---|
| Pages (from-to) | 99-111 |
| Number of pages | 13 |
| Journal | International Journal of Bioinformatics Research and Applications |
| Volume | 8 |
| Issue number | 1-2 |
| DOIs | |
| State | Published - Mar 2012 |
Keywords
- Accurate alignment
- GARP
- Genetic code evolution
- Gly, Ala, Arg and Pro
- Gram negative bacteria
- Gram positive bacteria
- Molecular evolution
- Ribosomal protein L1
- Ribosome
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