Answer to Question #131743 in Bioinformatics for Usman Khan

Question #131743

If you get a particular protein named ‘Keratin’. How will you retrieve its (a) Nucleic acid sequence (b) Protein sequence (c) Carbohydrate binding site, if present, (d) Protein chains (e) Amino acid frequency etc.? Describe in detail?

Expert's answer

To reveal nucleotide sequence - we need to do second generation sequencing (such as Illumina, Nanopore sequencing) or using bioinformatical databases from ncbi or rcsb.pdb

To reveal protein sequence - we need to make protein sequencing

Reveal carbohydrate binding site - using amino acid grouping methods that enable effective learning of sequence patterns and evaluated the performance of these methods- the best of our knowledge, however, the only reported methods for predicting carbohydrate-binding proteins are conventional homology-based methods. So we detect carbohydrate binding site by different computational methods. Protein chains is determined experimentally by X-ray crystallography or by swiss-modelling. Amino acid frequency is counted by software.

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