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Online Journal of Bioinformatics©
Volume 19(2):200-207, 2018.
Pattern prediction for initiation region of a- Helix protein.
Baby Joseph1 and Vrundha M. Nair2
1Department(s) of Biotechnology, 2Bioinformatics, Malankara Catholic College, Mariagiri, Kaliakkavilai, Kanyakumari District, TamilNadu, India.
Joseph B, Nair VM., Pattern prediction for initiation region of a- Helix protein, Onl J Bioinform., 19(2):200-207, 2018. Not all proteins fold spontaneously in the cell. Molecular proteins chaperons assist target protein folding. One of the persistent problems in protein folding is to understand the relative importance of secondary and tertiary structure formation. Understanding initiation of protein folding could reveal treatment of misfolding in Alzheimer’s, Huntington’s, Parkinson's, CJD, Mad Cow (BSE) diseases and cancer. The conserved patterns of secondary structural elements may predict secondary structure prediction and protein folding. We describe a conserved pattern in the initiation region of the alpha helix. The 3D structural details of PDB flat files were utilized for the study and PERL to identify frequency of triplet occurrence in the upstream and downstream initiation site of alpha helix. Three high propensity conserved patterns were identified in the initiation region of the alpha helix.
Keywords: alpha helix, protein folding, initiation site, PERL, PDB.