Bioinformatics and molecular modelling Essay Example | Topics and Well Written Essays - 2000 words

Bioinformatics and molecular(a) modelling - Essay lessonPlant lipases be practically considered to be involved in regulating certain plant life growths and developments (Bos and Laxminarayan, 2011 42). They are mainly found in seeds where triglycerides are stored in the form of intracellular structures or the oil bodies. Lipases ordinarily hydrolyze triglycerides to fatty acids and glycerol that produces energy needed for seed germination. The plant lapses are usually sort out into three main groups with the first group consisting of the triacylglycerol hydrolases that are mainly found in seeds. Their study is live since they are responsible for seed alteration especially during storage. The second group is the acylhydrolases that are found in various plant tissues. They frequently exhibit limited specificity for their substrates therefore, they are unable to hydrolyze triglycerides. However, they are argument to catalyze some esterification processes or reactions (Appel an d Feytmans, 2009 p. 68). The profound acylhydrolases include phospholipases A and B, sulfolipases, glycolipases, and monoglyceride lipases. The last group in this kinsfolk is the phosphorlipases that involve plant metabolism, degradation, and rearrangement. Other than the above miscellanea, the recent studies have led to different classification of lipases found on comparison of the eras of their aminic acid among other fundamental biological and physicochemical properties (Gupta, 2007 34). This modern classification led to eleven subfamilies. Despite being a member of many protein families, the lipases often have homogeneous architecture that is described by the ?-hydrolase fold. The activities of all lipases often rely on the catalytic triad that is usually fromed by the Asp, Ser, and His residues. In the sequence of the amino acid especially involving ?/? hydrolases, these three residues often follow the user-Asp-His order. Additionally, lipases often share the consensus se quence defined by the Gly-Xaa-Ser-Xaa-Gly where X may be a residue of an amino acid (Bos and Laxminarayan, 2011 p. 33). The three dimensional structure of any protein molecule often provides valuable insight into the molecular function, organization, docking stimulation, and the effective designing of drug experiments. The lack of an experimentally determined crystal structure, the homology modeling may be used to provide an opportunity in obtaining a reasonable 3D model. Currently, the 3D models often provide a perfect means of predicting the structure of biomolecules since it yields models that are suitable for a wide exertion spectrum that are structurally based thereby providing molecular design for mechanism investigation. The 3D approach is able-bodied of providing a reasonable structure model that is often related to template that shares more than 25 share sequence identity. An Arabidopsis thaliana lipase model is greatly proposed to investigate the model organism mainly in the plant biology since it is relatively small and and it is genetically tractable genome. Methods The Target and Template Proteins The model is perfect in determining adequate template for the homology modeling for the Arabidopsis thaliana. This sequence allows the alignment of amino acid sequence against the protein data bank (PDB) and this is performed by means of BLAST algorithm. According to the sequence algorithm, both the template (1HLG) and the drive share 31 percent of the sequence identity.