Bio-computational analysis and characterization of Uncoupling protein 3 (UCP3) in different animals.

Praveen Kumar

Abstract


Uncoupling Proteins are the unique anionic transporters present on the inner membrane of Mitochondria. These proteins are known for its association with obesity and type 2 diabetes, skeletal muscles and heart diseases in this new era, it play important role in thermogenesis by uncoupling, with production of ROS (Reactive oxygen species). Mutations causing these proteins to become nonfunctional, and thereby causing dysfunctions of the normal body activity. Characterization of these UCPs in different animals shows the protein activity and its functional approach by through computational tools. Here the amino acid distribution and aliphatic index computed by expasy protparam infers most of these proteins are membrane proteins and stable as a function in thermogenesis at wide range of temperatures 77 to 97(Aliphatic index by CLC) and Amino acid in different animals were tabulated, and the circular cladogram of UCPs were constructed. Sequence alignment was done based on consence region of UCP, proteins revealed highly conserved regions, differ maximum at 140-160 region.  Protein homology prediction using (Phyre 2) reveals probability and scoring for a particular template and confidence level and percentage of Identity. The secondary structure analysis showed more number of coils and percentile turns (range: 27-34%). The positions of amino acids residues are ideal. The allowed and disallowed regions in Rampage are within the accepted limits for the model 3D structure of transport protein and mitochondrial carrier proteins was plotted 100% confidence, and percentage of identity 21% and 23% respectively. Ramachandran plot reveals phi and psi angles for the evaluation of residues with Pdb id 2LCK. By this, Uncoupling proteins are the functional markers that may consider for identification of obesity and type 2 diabetes and related disorders as competent drug targets for the disease and treatment by through bio computation and characterization.

 


Keywords


UCP3 protein, ROS (Reactive oxygen species), CLC work bench, Expasy Protparam, Phyre2, SOPMA, SVM prot, Ramachandran plot.

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DOI: http://dx.doi.org/10.7439/ijbr.v8i7.3871

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