Lab 2: Protein Blast Search of Alkane Monooxygenase

1)      What protein did you search for?

Alkane monooxygenase– a protein used to help bacteria “eat” or metabolize hydrocarbons, like oil. Bacteria that can metabolize hydrocarbons play a big role in bioremediation because we can use them to help clean up accidents like oil spills. Because oil occurs naturally in the environment, it isn’t uncommon to find species of bacteria that have developed this trait.

2)      What specific protein did you select?

Alkane monooxygenase, particularly in bacteria found in arctic sediments, like Silicibacter pomeroyi, Gordonia sp., Prauserella rugosa, and Nocardioides sp., to name a few.

3)      The first 15 lines of the amino acid sequence that codes for this protein:

MNAPVHVDQNFEEVINAARSMREIDRKRYLWMISPALPVIGIGILAGYQFSPRPIKKIFA MNAPVHVDQNFEEVINAARSMREIDRKRYLWMISPALPVIGIGILAGYQFSPRPIKKIFAMNAPVHVDQNFEEVINAARSMREIDRKRYLWMISPALPVIGIGILAGYQFSPRPIKKIFA LGGPIVLHIIIPVIDTIIGKDASNPTSEEIKQLENDPYYARLVKSFIPLQYIANVYACYLLGGPIVLHIIIPVIDTIIGKDASNPTSEEIKQLENDPYYARLVKSFIPLQYIANVYACYL LGGPIVLHIIIPVIDTIIGKDASNPTSEEIKQLENDPYYARLVKSFIPLQYIANVYACYL  VSRKKTSFIDKILLGISMGAINGIAVNTAHELSHKADRLDHILSHLALVPTGYNHFRIEH VSRKKTSFIDKILLGISMGAINGIAVNTAHELSHKADRLDHILSHLALVPTGYNHFRIEHVSRKKTSFIDKILLGISMGAINGIAVNTAHELSHKADRLDHILSHLALVPTGYNHFRIEHPYGHHKRAATPEDPASSQMGETFYEFWPRTVFGSLKSAIEIETHRLKRKGKKFWSKDNEL PYGHHKRAATPEDPASSQMGETFYEFWPRTVFGSLKSAIEIETHRLKRKGKKFWSKDNELPYGHHKRAATPEDPASSQMGETFYEFWPRTVFGSLKSAIEIETHRLKRKGKKFWSKDNELLQGWGMSAAFHSSIIAIFGKGTIPYLVTQAFYGISLFEIINYIEHYGLKRQKRADGNYER LQGWGMSAAFHSSIIAIFGKGTIPYLVTQAFYGISLFEIINYIEHYGLKRQKRADGNYERLQGWGMSAAFHSSIIAIFGKGTIPYLVTQAFYGISLFEIINYIEHYGLKRQKRADGNYER

The first 10 amino acids: Methionine, Asparagine, Alanine, Proline, Valine, Histidine, Valine, Aspartic acid, Glutamate and Asparagine.

4)      The citation for the paper associated with this protein:
Kuhn, Emanuele. “New Alk Genes Detected in Antarctic Marine Sediments.”
 Environmental Microbiology, vol. 11, no. 3, 11 Mar. 2009,
pp. 669–673. NCBI PubMed, doi:10.1111/j.1462-2920.2008.01843.x.

5)      The first 15 lines of the nucleotide sequence:ctggtgttcg cctgctacct gtggtcggcg aacaacctgt 
cgtggctcgg catcgacggc gggctcggcc tcatctcgaa gatcggcctg gccatcagta tcggcgtgat gggcggcgtc ggtatcaaca ccgcgcacga gctcggccac aagaaggaca gcctcgagcg ttggttgtca aaaatcactc tggcacagac gttctacggc cacttctaca tcgagcacaa tcgcggccaccacgttcgcg tcgccactcc cgaggatccg gcgagctcga agttcggcga gagcttctgg gccttcctgc cacgcagcgt gtggggcagc ctgaagtcgt cctgggagct ggagaagacg cgcatggagc gactgggcaa gagcacgtgg agcattcaga acgacgtgct caacgcatgg ctgatgtcgg tggttctgta cggggtcctg atcgcggtgt tcggtccgat cgtattgccg ttcttgatca ttcaggccat ctacggattc tcactgctgg agacggtcaa ctacctcgagcactacggcc tgcagcgtca gaagaaggag aacggccgct acgagcgctg cactcccgag caca