Naslov
Prokaryotic homologs help to define consensus sequences in peptidase family M49

Autori
Abramić, Marija ; Špoljarić, Jasminka ; Šimaga, Šumski

Izvornik
Periodicum biologorum (0031-5362) 106 (2004), 2; 161-168

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
consensus sequence; dipeptidyl peptidase III; M49 family; metallopeptidase

Sažetak
Background and Purpose: Peptidase family M49 (dipeptidyl peptidase III family) has been recently recognized among metallopeptidases, based on the unique structural motif, hexapeptide HELLGH, which harbors the predicted active site residues. We assumed that the new data of genomes sequencing also contain unknown members of this family and we attempted to define its evolutionary conserved amino acid sequence regions through the analysis of their primary structures. Methods: Similarity search and the multiple sequence alignment were performed by BLASTP and CLUSTALW program, respectively. PSIPRED method was used for protein secondary structure prediction. Results: The similarity search and additional manual stringency revealed 14 homologous protein sequences (members of family M49), two of them prokaryotic, whose multiple alignment gave five highly conserved regions. Two conserved linear motifs (consensus sequences) harboring four known active site residues of family M49 were defined as stretches of 16 and 6 amino acids located in the third and fourth conserved region. A part of sixteen-amino acid consensus sequence and the complete consensus sequence of six amino acid were predicted to reside in a alpha-helix. Conclusion: The most recent data on complete genome sequences helped to reveal that peptidase family M49 is distributed in four kingdoms of organisms (Eubacteria, Protista, Fungi and Animalia), and to define two consensus sequences containing the active site residues. Bacterial homologs have been unexpected and so far confined to the proteins from one human symbiont and one oral pathogen.

Izvorni jezik
Engleski

Znanstvena područja
Kemija

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