An Algorithm to Classify Amino Acid Sequences into Protein Groups of Bothrops jararacussu Venomous Gland
| Autor: | Suzelei C. França, Fernando Camargo, Luiz Paulo Camargo, Andreimar M. Soares, Milton Faria, Silvana Giuliatti |
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| Rok vydání: | 2005 |
| Předmět: |
Sequence database
biology Molecular Sequence Data Computational Biology Sequence alignment General Medicine Jararacussu biology.organism_classification Biochemistry Domain (software engineering) Automation Exocrine Glands Protein sequencing Structural Biology Crotalid Venoms Animals Bothrops Amino Acid Sequence ORFS Databases Protein Cluster analysis Algorithm Algorithms Sequence (medicine) |
| Zdroj: | Protein & Peptide Letters. 12:333-337 |
| ISSN: | 0929-8665 |
| Popis: | An algorithm for automatic clustering of database protein sequences from Bothrops jararacussu venomous gland, according to sequence similarities of their domains, is described. The program was written in C and Perl languages. This algorithm compares a domain with each ORF protein sequence in the database. Each nucleotide FASTA sequence generates six ORFs. As a result, the user has a list containing all sequences found in a specific domain and a display of the sequence, domain and number of hits. The algorithm lists only the sequences that present a minimum similarity of 30 hits and the best alignment. This limit was considered appropriate. The algorithm is available in the Internet (www.compbionet.org.br/cgi-domains/homesnake) and it can quickly and accurately organizes large database into classes. |
| Databáze: | OpenAIRE |
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