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G1162 Pages: 2

What are nucleotides? Explain the structure of nucleic acids.

Briefly describe the different levels of CATH databases.

PART C
Answer any two full questions, each carries 9 marks.
Consider the sequences 51 = ACTCG and 82 = ACAGTAG. Assume that the
match score is +1, mismatch score is 0 and gap penalty is -1. Construct the
dynamic programming alignment grid for a global alignment between
sequences, 51 and 52, What is the score of the optimal global alignment and

what alignment does this score correspond to?

Use UPGMA to reconstruct a phylogenetic tree using the following distance
matrix.

| > | 12] 15 | 10] - |
E [15 [18 [13 | 5

Compare PAM & BLOSUM matrices.

What is phylogenetic analysis? Explain character based method of phylogenetic
analysis
PART 0

Answer any two full questions, each carries 12 marks.
With neat diagrams compare the secondary structure of a typical prokaryotic
gene and eukaryotic gene.
Explain the Chou-Fasman method for protein secondary structure prediction
What do you mean by gene prediction? What are the different approaches for
gene prediction?

Explain the process for comparative modelling of protein structure.

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