Compare human colon cancer gene MLH1 with other genes.
- To use ORF finder to translate DNA sequence to protein sequence in all reading frames. -
- To use blastn, blastp, CD search and blast 2 sequence programs for searching and comparison. -
-Deadline- 11/06/2001

 

1. Compare MLH1 (answer of assignment 2.6) and mutS (answer of 2.7) sequence.

Use blast 2 sequences to compare two sequence,result:

"No significant similarity was found "

2. Translate the above two gene sequences to protein sequences.

3.Perform protein sequence homology searching for MLH1 in GenBank. Give the 10 highest hits.


4. Compare human MLH1 protein with MLH1 in M. musculus, R. norvegicus and D. melanogaster. Give the pairwise alignment and % of sequence smility.

from problem 3,we can find answers in the same page


5. Search the conserve domain (CD) for MLH1. Give the position of the CD, name of CD and Pfam ID number.

gnl|Pfam|pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, phytochrome-like ATPase.

gnl|Pfam|pfam01119, DNA_mis_repair, DNA mismatch repair protein. Also known as the mutL/hexB/PMS1 family.

gnl|Smart|smart00387, HATPase_c, Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

6. Show multiple alignment of MLH1 conserve domain with 5 sequences from the top of the CD alignment.