Characterization for mfs_1 gene from Riemerella anatipestifer by bioinformatics analysis

摘要

The bioinformatics analysis of mfs_1 gene from Riemerella anatipestifer (RA) by kinds of bioinformatics software, such as BLASTN2.2.14, ORF Finder, BLASTP and FASTA procedures, DNAstar 7.0, Chips and Cusp programs of the EMBOSS, SignalP V4.0 Server, ProtScale, BepiPred1.0 Server, PredictProtein Sever, PSORT and MEGA software. Importing the sequence into all of these bioinformatics software in the suitable form according to their requirements respectively, the characterization of mfs_1 gene would be listed. In this paper, the analysis results indicated that the mfs_1 gene was possible just an open reading frame (ORF) containing 1218bp nucleotides, this predicted ORF of this gene was expected to encode an estimated 405 putative protein with a putative molecular mass of 44499.54Da and an isoelectric point (pI) of 9.64. The mfs_1 gene had a base composition of 334 adenine (27.42%), 210 cytosine (17.24%), 248 guanine (20.30%), 426 thymine (34.98%) bases, and a GC content of 37.60%. The polypeptide encoded by the gene was composed of 188 hydrophobic amino acids, 93 hydrophilic amino acids, 30 basic amino acids, and 18 acidic amino acids. Phylogenetic tree of the amino acids sequences showed this gene had a close evolutionary relationship with Flavobacteriaceae bacterium 3519–10, Flavobacterium indicum GPTSA100-9, Elizabethkingia anophelis Ag1, Myroides odoratimimus CIP 101113, Pedobacter sp. BAL39, Myroides odoratimimus CCUG 10230, and Myroides odoratus DSM 280, indicating that this gene may had a same or similar function with them. Amino acid sequence analysis showed that 12 obvious transmembrane regions were located among all 405 amino acids but without a signal peptide. Eleven N-myristoylation sites, three Casein kinase II phosphorylation sites, two Protein kinase C phosphoraylation sits, one N-glycosylation site, one amidation site and one sugar export protein site were searched in the protein. Most of the total proteins were located in cytoplasmic. These res- lts provided rational data to elucidate biological function and physiological features of the gene.