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May 24, 2013 @ 12:48 AM
Otacon

Post: 336

Join Date: Nov 2010

Location: Queens

3 Address the following specific cases of similarity.  Again, be sufficiently thorough with your answers to these questions.  (15 pts)
a What conclusion might you make if you find that two nucleotide sequences are very similar?
 
 
b What conclusion might you make if you find that two protein sequences are very similar?
c What conclusion might you make if you find that two protein structures are very similar?
 
4 The BLOSUM similarity matrix contains numbers to score two amino acids in an alignment. Some of these numbers are positive, while others are negative. (20 pts)
 
a What does a positive score mean?  What does a negative score mean? Given a large hydrophobic amino acid, what kind of amino acid will give a positive score, and what kind of amino acid will give a negative score?
 

b When aligning to amino acids of the same kind, the scores are always positive.  However, some scores are higher than others—for instance, aligning two R’s gets a score of 5, while aligning two W’s gets a much higher score of 11.  Explain the reason for this difference.
May 24, 2013 @ 12:55 AM
至高

Post: 1440

Join Date: May 2012

Location: purgatory

3a - indicates evolutionary relationships and share a common ancestor.

( ͡° ͜ʖ ͡°)

May 24, 2013 @ 01:14 AM
REVS

moderator

Post: 3431

Join Date: Dec 2011

Location: Philadelphia, PA

3b - this sequence can show regions of similarity. The sequences of nucleotide or amino acid residues are represented as rows within a matrix. With sequences being similar, the matrix's are similar. 

3c- (possibly) - .  If proteins have similar binding surfaces or structures they are more likely to interact with similar molecules and ultimately carry out similar functions

4a. These scores are based off of calculating scores that measure the ratio of the likelihood of two amino acids appearing with a biological sense and the likelihood of the same acids appearing by chance. Every identity is given a score based on its observed frequencies in the alignment of related proteins. A positive score is given to more likely substitutions. A negative score is given to the less likely substitutions.

I prefer carcinogens to endorphins.

May 24, 2013 @ 01:35 AM
It's Only Hype

Post: 5496

Join Date: Jan 2008

There are smart people on HB

May 24, 2013 @ 02:16 AM
royda510

Post: 92

Join Date: Jan 2013

Yahoo answers, b.
May 24, 2013 @ 08:38 PM
Panther.

Post: 1772

Join Date: Apr 2012

Location: Miami, FL

Biology?

Mitochondria is the powerhouse of the cell

( ͡° ͜ʖ ͡°) Florida State Seminole

May 24, 2013 @ 08:52 PM
paulywalnuts

Post: 3049

Join Date: Nov 2011

Location: Philadelphia

questions 3 - look up conserved sequences on wikipedia

i master bait from time to time

May 25, 2013 @ 12:55 AM
oneallah

Post: 3273

Join Date: Mar 2012

Location: in yo closet

just write this and youll pass, london is  A GAWD
May 25, 2013 @ 01:12 AM
Otacon

Post: 336

Join Date: Nov 2010

Location: Queens

BIOINFORMATICS**** THANKS GUYS EVEN THOUGH SOME ANSWERS ARE WRONG THANKS!!!!!!
May 25, 2013 @ 01:14 AM
craigsagersuit

Post: 3001

Join Date: Nov 2011

Location: 909/626

Biology?

Mitochondria is the powerhouse of the cell
Lysosome dat garbage disposal


He's cute? I bet he ain't #Hansum


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