Return to Nathan Wong.
Bioprospecting
1. Identifying the Task
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Building a Bioprospecting Pipeline
2. Test Implementation on Sample Protein
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Acetoacetate decarboxylase
Candidate Tree mapping (25 Family Members) for WP_097268572
| NCBI Protein ID | DNA Sequence | Gene Name | Identity Score | Nucleotide Accession | Protein Sequence |
|---|---|---|---|---|---|
| WP_074295497 | TCAAGCGGCGTAGTTCTTGAGAATGCGCAGGTCCGTCACGGAGTACGCCATGCCGAGCCGGTAACCGCGGCCGACGCGCAGTGGCGCAATCAGATGCATGTCCTCGCCGTCGACTTCAGGAATCTTCAGTTCCGCCGAGCCGGTCCAGACGTCCACGATCGCGAGATTGTCCGTAAGCGACATGGTGAGTTCATCGACCGGCGGTTTCTCCTGAAGACCCGCTGCGAGTTGCGGAAAGTAACGGCGCATCGTCGTAGGCCGATTGAAAACACTCGCAGGGTTTGCGACAGGTTCGTCGAGCTGGATCCGGGCGGTGGCCAGCCGTTCGCCGTGCGCGGATACGCTGGCGCCGAAGCGGCTGCCTTTGGCCAGCGGCGCCGCGGCCAGACTCGGTGCGGAGAAACTGCGGGTCTGGTAGACGCTGGCGAGCTTCTTGGGGAACCCCTGCGCCCAGCCGCGAGCGATGGCCGCGTCGTTATCGACGAAGATGTACGGGCAGTAGTTGACCGGCATACCGTCGAAGACGGCCTCGACCAGAACGAAGGCCTCGCGGTATTGATAGCGGGCGGGGTCCGTCAATTCGTCATTGGAACCTGTGAACTGCCAATCCAGAAACCAGAAGAAGGCACGCCCGGCGGATTGCTCGTCCACAGTGACGCCCGGCGGCAGAAGCGCGGCGATCGCTTTCGGATCGGCCCAGTATTCGATGGCGAGACAGTCGCTCGAGTAGTGCCACGGCGGCAACGTCGCCAGGGCCGACTTACCTTGCGGAGTGACAGGAACTGAAAACGCTTTAGGCAT | acetoacetate decarboxylase [Paraburkholderia phenazinium] | 494.582 | NZ_FSRU01000001 | MPKAFSVPVTPQGKSALATLPPWHYSSDCLAIEYWADPKAIAALLPPGVTVDEQSAGRAFFWFLDWQFTGSNDELTDPARYQYREAFVLVEAVFDGMPVNYCPYIFVDNDAAIARGWAQGFPKKLASVYQTRSFSAPSLAAAPLAKGSRFGASVSAHGERLATARIQLDEPVANPASVFNRPTTMRRYFPQLAAGLQEKPPVDELTMSLTDNLAIVDVWTGSAELKIPEVDGEDMHLIAPLRVGRGYRLGMAYSVTDLRILKNYAA |
| WP_085481386 | ATGCCTAAAGCGTTTTCAGTTCCCATTACTCCGCAAGGAAAGTCCGCACTGGCTACGCAGCCGCCATGGCACTATTCCAGCGACTGCCTCGCCATCGAATACTGGACTGATCCAAAAGCGATTGAAACGCTCCTGCCGCCTGGCCTCAGGGTGGACGAGAACTCCGCAGGGCGCGCCTTCTTCTGGTTTCTGGACTGGCAGTTCACCGCGTCCAATGACGAGTTGACAGACCCTGCCCGGTATCAATACCGCGAAGCCTTCGTTCTGGTCGAGGCAATCTTCGAAGGGACTCCGGTCAACTACTGCCCCTACATCTTCGTCGATAACGATGCTGCCATCGCGCGCGGCTGGGCGCAGGGGTTTCCAAAAAAATTTGCGAGCGTCTACCAGACACGCAGTTTCTCCGCCCCCAGTCCAGCGGCTGCGCCAGTCGCCAAAGGAAGTCGCTTCGGTGCCAGCGTATCGGCGCACGGAGAACGACTGGCGACCGCCCGTATCCAACTCGAGGAGCCTGTCGCAGACCCGACGACGATATTCAACCGACCCACGACAATGCGCCGTTACTTTCCCCAACTCGCGGCCGGTCATCATGACAAGCCGCCAGTCGACGAACTGACGATGTCGCTCACGGACAATCTCGCGATCGTGGATGTCTGGACCGGTTCGGCGGAACTGAAGATTCCCGAAGTCGACGGCGAAGACATGCACCTGCTTGCTCCGCTGCGTGTCGGCAAGGGTTATCGGTTAGGTATGGCGTATTCCGTGACAGACCTGCGCATTCTGAAGAACTACGCCAACTGA | acetoacetate decarboxylase [Paraburkholderia susongensis] | 470.315 | NZ_FXAT01000002 | MPKAFSVPITPQGKSALATQPPWHYSSDCLAIEYWTDPKAIETLLPPGLRVDENSAGRAFFWFLDWQFTASNDELTDPARYQYREAFVLVEAIFEGTPVNYCPYIFVDNDAAIARGWAQGFPKKFASVYQTRSFSAPSPAAAPVAKGSRFGASVSAHGERLATARIQLEEPVADPTTIFNRPTTMRRYFPQLAAGHHDKPPVDELTMSLTDNLAIVDVWTGSAELKIPEVDGEDMHLLAPLRVGKGYRLGMAYSVTDLRILKNYAN |
| WP_091007258 | TCACCCGACGTAGTTCTTCAGAATGCGCAGATCCGTCACGGAGTACGCCATGCCGAGCCGATAACCGCGACCGACGCGCAGCGGCGCGATCAGATGCATGTCCTCGCCGGCCACCTCGGGAATCTTCAGTTCCGCCGACCCAGCCCAGACATCGACGATCGCGAGATTGTCGGTGAGCGACATCGTGAGTTCGTCGACCGGTGGTTTTTCCTGCAGGCCGGCTGCGAGTTGCGGAAAGTAACGGCGCATCGTTGTCGGCCGATTGAAAACGGTCGTAGGGTCCGCGACAGCTTCCTCGAGCTGGATACGCGCAGTGGCCAGCCGTTCGCCATGCGCCGACACACTCGCGCCGAAGCGGCTTCCCGTGGCAAGCGGCGCAGCGGCCAGACTCGGCGCGGAGAAGCTCCGCGTCTGATAGACGCTGGCGAGTTTCTTCGGAAACCCCTGCGCCCATCCGCGAGCAATCGCGGCATCGTTATCGACGAAGATGTACGGGCAGTAGTTGACCGGCACGCCATCGAAAATCGCTTCAACCAGAACGAACGCTTCACGGTATTGATAGCGCGCGGGGTCGGTCAGTTCGTCGTTGGAGCCCGTGAACTGCCAGTCGAGAAACCAGAAGAACGCGCGCCCCGCCGATTTCTCATCGACCGTCACCCCAGGCGGAAGGAGCGCAGCGATCGCTTTCGGGTCGGCCCAGTATTCGATCGCCATGCAATCGCTGGAGTAGTGCCACGGCGGCAGCGTCGCGAGCGCGGACTTTCCATGCGGTGTAATGGGCACTGAAAACGCTTTGGGCAT | acetoacetate decarboxylase [Paraburkholderia megapolitana] | 496.508 | NZ_CP041743 | MPKAFSVPITPHGKSALATLPPWHYSSDCMAIEYWADPKAIAALLPPGVTVDEKSAGRAFFWFLDWQFTGSNDELTDPARYQYREAFVLVEAIFDGVPVNYCPYIFVDNDAAIARGWAQGFPKKLASVYQTRSFSAPSLAAAPLATGSRFGASVSAHGERLATARIQLEEAVADPTTVFNRPTTMRRYFPQLAAGLQEKPPVDELTMSLTDNLAIVDVWAGSAELKIPEVAGEDMHLIAPLRVGRGYRLGMAYSVTDLRILKNYVG |
Access the raw DNA sequences and Protein sequences here (in addition to other metadata information): Detailed Tree Information
View the raw family fasta file: Family Fasta File
View the raw phyml phylogeny file: Phyml File
3. Execute Pipeline
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Obtain results for all proteins of interest (13 proteins)
Results of 13 Proteins of Interest (300 Family Members each)