IN SILICO STUDY FOR PREDICTION OF DRUGTARGETS IN HELICOBACTER PYLORI

Abstract

.ABSTRACT
In Silico Study, was conducted to search and predict essential biotargets which
might be as drug targets in Helicobacter pylori. Gene sequences (Protein sequences)
of the bacterium and its host (Homo sapiens) were retrieved from the Database for
Essential Genes (DEG) (http://tubic.tju.edu.cn/deg/).
The retrieved sequences were subjected to alignment process using BLASTP
2.2.23+(http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastSearch&PROG
_DEF=blastn&BLAST_PROG_DEF=megaBlast&BLAST_SPEC=blast2seq ) with
different bioinformatic parameters and different matrices such as
PAM70,BLOSUM62 at different levels of E-values "0.001, 0.01, 0.05" to estimate
the essential bacterial genes that non-homologous with the human. Results showed
that 55 genes out of 323 essential bacterial genes have no homology with human
essential genes (118). The products of these genes (55 genes) were subjected to
programs to estimate the cellular location such as PSORTb v.3.0
(http://www.psort.org/psortb/index.html) and TMHMM
(http://www.cbs.dtu.dk/services/TMHMM/). The two programs showed that 22%
of non-homologous genes (12 protein) were associated with cell membrane, 24%
(13 protein) had unknown location, and the rest 54% (30 protein) were found in
the cytoplasm. It could be predicted that the membrane proteins might be good
targets for vaccine development and as well for antibiotics affected the cell
membrane.