Biotech Final - Lab 1

Question 1

What is a homolog?

Answer 1

A gene related to a second gene by descent from a common ancestral DNA sequence.

Question 2

An effective method for analyzing protein sequences is to examine _______ ________ between a protein of interest and a group of protein ________.

Answer 2

i) Conserved domains

ii) Homologs

Question 3

What are conserved domains?

Answer 3

Conserved domains are recurring units in polypeptide chains (sequence and structure motifs).

Question 4

The extent of similarity between conserved domains of protein homologs can be determined by what?

Answer 4

Comparative analysis

Question 5

Using a CD search one can?

Answer 5

1) Locate functional domains
2) Establish evolutionary relationship among protein families
3) Interpret mutation studies
4) Make predictions on the structure and function of unknown structure

Question 6

What does the CDD (conserved domain database) contain?

Answer 6

Sequence alignments that define the features that are conserved within each domain family.

Question 7

The CDD serves as a classification resource that groups proteins based on?

Answer 7

The presence of pre-defined domains

Question 8

CDD entries often name the domain family and describe the _______ of conserved residues in ______ and ________.

Answer 8

i) function
ii) binding
iii) catalysis

Question 9

The CD search is designed to interact with the _____ databases to perform multiple _______ alignments and detailed statistical analysis using the ______ software.

Answer 9

i) NCBI
ii) sequence
iii) BLAST

Question 10

What does the Blast software return?

Answer 10

E-values (expectation values), the more hits, the higher the value.