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1)
Obtain the
following protein sequences from any public database you wish and align using
CLUSTALW program. The protein sequences are: Human MDM2, Hamster MDM2, Murine
MDM2, Xenopus MDM2 and Zebrafish MDM2. The human MDM2 sequences is approximately
490 amino acids in length. Name three areas that are structually conserved
amongst these orthologs. According to the Guide Tree, which two sequences have
the highest similarity? Perform CLUSTALW just using Human MDM2 and Zebrafish
MDM2 sequences. Does the human/zebrafish alignment in this run differ from the
human/zebrafish alignment obtained in the first run? Explain why.
2)
4. There exists a
paralog of MDM2. Obtain the sequences of the human paralog MDMX and the mouse
paralog MDMX and perform multiple sequence alignment again together with the
original five MDM2 sequences. Give the domains (in amino acid number ranges)
that are highly conserved within sequences of this entire family. Use the human
MDM2 amino acid numbers as the reference when explaining the ranges that are
conserved. |