Characteristic Motif Analysis Of Protein Sequence Of Avian Reovirus

Avian reovirus (ARV) belongs to the genus Orthoreovirus, the reoviridae family, and is an important cause of poulty diseases. If the body is inflected by ARV, its immunity will be reduced and the possibility for inflecting other diseases will be increased. Avian reovirus is nearly identical in structure and molecular composition with the well-studied mammalian reovirus. The two genomes consist of10segments of double-stranded RNA that are divided into three size classes, L(large), M(medium) and S(small). Three size gene segments of avian reovirus encode the15kinds of proteins [λA, λB,λC,μA,μB(μBC、μBN), μNSC,μNS, P10, P17, σC, σA, σB,σNS]. In this paper, by searching sequence conserve motifs, avian reovirus15protein functional sites are found. The motif is a conserved region in the process of protein evolutions and they usually play an important role in protein functions. Thus, the characteristic motif analysis of protein sequence for avian reovirus becomes increasingly important for protein function study and further understanding the pathogenic mechanisms of the avian reovirus.To identify the reovirus-specific motifs in avian reovirus and explore the pathogenic mechanisms of avian reovirus, we analysis the protein sequences of avian reovirus. We extracted240protein sequences of avian reovirus from NCBI database, and constructed avian reovirus large datasets, medium datasets and small datasets, respectively. By using ScanProsite and MEME, the sequence motifs are extracted and their frequencies are analyzed. It is discovered that motifs (PS01177、 PS01208、PS00198、PS00197、PS00022、PS00028and PS01185) appear with more frequency. The motif PS00028is zinc finger motif with specific biological function. Human respiratory syncytial virus M2protein has zinc finger motif, and the motif function had been tested by experiment. Therefore, the zinc finger motif of avian reovirus protein may also perform specific biological function. In addition, the found other avian reovirus motifs will be helpful for finding avian reovirus protein functional sites in experiment.