title: Functional annotation of conserved hypothetical proteins from Haemophilus influenzae Rd KW20.
abstract: Haemophilus influenzae is a Gram negative bacterium that belongs to the family Pasteurellaceae, causes bacteremia, pneumonia and acute bacterial meningitis in infants. The emergence of multi-drug resistance H. influenzae strain in clinical isolates demands the development of better/new drugs against this pathogen. Our study combines a number of bioinformatics tools for function predictions of previously not assigned proteins in the genome of H. influenzae. This genome was extensively analyzed and found 1,657 functional proteins in which function of 429 proteins are unknown, termed as hypothetical proteins (HPs). Amino acid sequences of all 429 HPs were extensively annotated and we successfully assigned the function to 296 HPs with high confidence. We also characterized the function of 124 HPs precisely, but with less confidence. We believed that sequence of a protein can be used as a framework to explain known functional properties. Here we have combined the latest versions of protein family databases, protein motifs, intrinsic features from the amino acid sequence, pathway and genome context methods to assign a precise function to hypothetical proteins for which no experimental information is available. We found these HPs belong to various classes of proteins such as enzymes, transporters, carriers, receptors, signal transducers, binding proteins, virulence and other proteins. The outcome of this work will be helpful for a better understanding of the mechanism of pathogenesis and in finding novel therapeutic targets for H. influenzae.
authors.affiliation: Department of Computer Science, Jamia Millia Islamia, Jamia Nagar, New Delhi, India.
authors.forename: Mohd
authors.initials: M
authors.lastname: Shahbaaz
authors.affiliation: Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi, India.
authors.forename: Md Imtaiyaz
authors.initials: MI
authors.lastname: Hassan
authors.affiliation: Center for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, Jamia Nagar, New Delhi, India.
authors.forename: Faizan
authors.initials: F
authors.lastname: Ahmad
mesh_terms: D000595:Amino Acid Sequence / Q000235:genetics; D001426:Bacterial Proteins / Q000145:classification / Q000235:genetics*; D019295:Computational Biology / Q000379:methods*; D006193:Haemophilus influenzae / Q000235:genetics*; D006801:Humans; D058977:Molecular Sequence Annotation / Q000379:methods*; D008969:Molecular Sequence Data; D040901:Proteomics / Q000379:methods; D012372:ROC Curve; D017422:Sequence Analysis, DNA / Q000379:methods
chemical_list: D001426:Bacterial Proteins