Lysyl+tRNA+Synthetase

code Gene Sequence: >NC_008611.1:c4654901-4653405 Mycobacterium ulcerans Agy99, complete genome code GTGAGCTCCGCCGAGTCAAACATTCCCGAGCAGTTCCGAATCCGTCGGGACAAGCGTGCTCGGTTATTGG CAGAGGGGTATGACCCCTATCCGGTAGCCATCGAACGCACTCACACGTTGGCCGAGATTCGTGCCACCTA TGCCGACCTACCGACAGATTCGGCGACCGAGGACATCGTCGGTGTCGCGGGTCGAGTGGTCTTCGCGCGT AACACCGGGAAACTGTGTTTTGCGACACTGCAGGACGGCGACGGCACCCAGCTGCAGGCGATGATCAGCC TCGACGAGGTGGGCCGCGAATCACTGGACAGGTGGAAGGCCGACGTCGACATCGGTGACGTCGTCTACGT GCACGGCACCGTGATCAGCTCCCGTCGGGGCGAACTATCGGTGCTCGCCGATTCCTGGCGGATGGCTGCC AAGGCCTTGCGGCCGCTGCCGGTCGCACACAAGGAGATGAGCGAGGAGTCGCGGGTTCGTCAGCGCTACG TCGATTTGATCGTGCGTCCACAGGCGCGGGAGGTCGCGCGACAGCGGATTGCGGTAATCCGTGCGGTGCG TAATGCGCTGGAGCGGCGCGGGTTTCTCGAAGTCGAAACGCCAATGTTGCAGACCTTGGCCGGCGGCGCT GCGGCGCGGCCGTTCGTCACCCATTCCAATGCCCTCGACATCGATCTTTACCTGCGTATCGCGCCGGAAC TGTTCCTCAAGCGTTGCATCGTGGGCGGTTTCGACAGGGTCTTTGAACTAAATCGGGTGTTCCGAAACGA AGGGTCTGATTCCACCCATTCCCCGGAATTCTCCATGCTGGAGACGTATCAGACCTATGGAACCTATGAC GATTCGGCCCTGATCACCAGAGAGCTTATTCAAGAAGTTGCTGACGAGGCGATCGGAACCAGACAACTCT CGATGCCTGACGGCAGCGTGTACGACATCGACGGAGAATGGGCAACTATGGAGATGTATTCCTCCTTGTC GGAGGCACTGGGGGAACAGATCACGCCAGAGACGACGGTTGCTCGCTTACGTGACATCGCAAGCGGACTT <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">GACGTAGAGATTGACAACAGTGTTTTTGGTCACGGCAAACTTGTCGAGGAACTCTGGGAACATGCTGTCG <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">GCAACAAGTTGACGGCGCCCACATTTGTCAAGGATTTCCCAGTCGAGACAACGCCATTGACTCGTCAGCA <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">CCGCAGTATCCCCGGAGTAACCGAGAAGTGGGATCTCTACGTGCGCGGAGTCGAACTGGCTACCGGGTAC <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">TCGGAATTAAACGATCCCGTCGTCCAGCGGGACAGATTCGCTGATCAGGCCCGTGCGGCGGCCGCGGGTG <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">ACGACGAGGCGATGCAACTTGACGAAGATTTTCTGACGGCTCTGGAGTACGGGATGCCCCCGTGTACTGG <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">AACTGGAATGGGCATCGATCGGTTGTTGATGTGTTTGACCGGACTGTCAATTAGGGAGACAGTTTTGTTC <span style="color: #000000; font-family: &#39;Courier New&#39;; font-size: 10pt;">CCGATTGTTCGCCCTCACTCCAACTGA BRENDA Link: https://www.brenda-enzymes.org/enzyme.php?ecno=6.1.1.6 *Target (protein/gene name): Lysyl-tRNA Synthetase code code *NCBI Gene # or RefSeq#:NC_008611.1 code

code *Protein ID (NP or XP #) or Wolbachia#:ABL06216 code

code *Organism (including strain)://Mcobacterium ulcerans// (Agy99) code

code Etiologic Risk Group (see link below): Unknown code

code */Disease Information (sort of like the Intro to your Mini Research Write up):Buruli Ulcer is caused by the protozoan //Mycobacterium ulcerans// in which the flesh is destroyed in patches of the body. Transmission method is currently unknown as it is found primarily in neglected populations. It is present in every habitable continent, but is only highly prevalent in underdeveloped tropical regions. code

code Link to TDR Targets page (if present):None code

code Link to Gene Database page (NCBI, EuPath databases -e.g. TryTryp, PlasmoDB, etc - or PATRIC, etc.) code

code Essentiality of this protein: Essential in other mycobaterium code

code Is it a monomer or multimer as biological unit? (make prediction at @http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html ): code

code Complex of proteins?:Single protein code

code Druggable Target (list number or cite evidence from a paper/database showing druggable in another organism): [] Lysyl tRNA synthetase is druggable in worm parasites by affecting the single protein. code

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code *EC#: code code Link to BRENDA EC# page: [] code

code [] code

code Enzyme Assay information (spectrophotometric, coupled assay ?, reagents): code

code -- link to Sigma (or other company) page for assay (see Sigma links below) code

code -- -or link (or citation) to paper that contains assay https://www.sciencedirect.com/science/article/pii/030090849290158B?via%3Dihubinformationhttps://www.sciencedirect.com/science/article/pii/030090849290158B?via%3Dihub code

code -- links to assay reagents (substrates) pages.http://www.bio-rad.com/en-us/sku/5000006-bio-rad-protein-assay-dye-reagent-concentrate-450-ml?ID=5000006 code

code --- List cost and quantity of substrate reagents, supplier, and catalog #$129.00 for Bio-Rad Protein Assay Reagent, 450 ml #5000006 code

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code Structure (PDB or Homology model) code code -- PDB # or closest PDB entry if using homology model: code

code -- For Homology Model option: code

code Show pairwise alignment of your BLASTP search in NCBI against the PDB code

code Query Coverage: code

code Max % Identities: code

code % Positives code

code Chain used for homology: code

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code Current Inhibitors: None for mycobacterium code code Expression Information (has it been expressed in bacterial cells):E. coli BL21 (DE3) code

code Purification Method:https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1432-1033.1978.tb12064.x code

code Image of protein (PyMol with features delineated and shown separately): code

code *Amino Acid Sequence (paste as text only - not as screenshot or as 'code'): MAHHHHHHMSSAESNIPEQFRIRRDKRARLLAEGYDPYPVAIERTHTLAEIRATYADLPTDSATEDIVGVAGRVVFARNT GKLCFATLQDGDGTQLQAMISLDEVGRESLDRWKADVDIGDVVYVHGTVISSRRGELSVLADSWRMAAKALRPLPVAHKE MSEESRVRQRYVDLIVRPQAREVARQRIAVIRAVRNALERRGFLEVETPMLQTLAGGAAARPFVTHSNALDIDLYLRIAP ELFLKRCIVGGFDRVFELNRVFRNEGSDSTHSPEFSMLETYQTYGTYDDSALITRELIQEVADEAIGTRQLSMPDGSVYD IDGEWATMEMYSSLSEALGEQITPETTVARLRDIASGLDVEIDNSVFGHGKLVEELWEHAVGNKLTAPTFVKDFPVETTP LTRQHRSIPGVTEKWDLYVRGVELATGYSELNDPVVQRDRFADQARAAAAGDDEAMQLDEDFLTALEYGMPPCTGTGMGI DRLLMCLTGLSIRETVLFPIVRPHSN code

code *length of your protein in Amino Acids 506 code

code Molecular Weight of your protein in kiloDaltons using the [|Expasy ProtParam] website code 56511.80 code code

Molar Extinction coefficient of your protein at 280 nm wavelength: 48360

code TMpred graph Image (@http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it. code code *CDS Gene Sequence (paste as text only):>lcl|ORF1 MISLDEVGRESLDRWKADVDIGDVVYVHGTVISSRRGELSVLADSWRMAA KALRPLPVAHKEMSEESRVRQRYVDLIVRPQAREVARQRIAVIRAVRNAL ERRGFLEVETPMLQTLAGGAAARPFVTHSNALDIDLYLRIAPELFLKRCI VGGFDRVFELNRVFRNEGSDSTHSPEFSMLETYQTYGTYDDSALITRELI QEVADEAIGTRQLSMPDGSVYDIDGEWATMEMYSSLSEALGEQITPETTV ARLRDIASGLDVEIDNSVFGHGKLVEELWEHAVGNKLTAPTFVKDFPVET TPLTRQHRSIPGVTEKWDLYVRGVELATGYSELNDPVVQRDRFADQARAA AAGDDEAMQLDEDFLTALEYGMPPCTGTGMGIDRLLMCLTGLSIRETVLF PIVRPHSN code

code *GC% Content for gene:58.717435 code

code *CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only):>lcl|ORF1 MISLDEVGRESLDRWKADVDIGDVVYVHGTVISSRRGELSVLADSWRMAA KALRPLPVAHKEMSEESRVRQRYVDLIVRPQAREVARQRIAVIRAVRNAL ERRGFLEVETPMLQTLAGGAAARPFVTHSNALDIDLYLRIAPELFLKRCI VGGFDRVFELNRVFRNEGSDSTHSPEFSMLETYQTYGTYDDSALITRELI QEVADEAIGTRQLSMPDGSVYDIDGEWATMEMYSSLSEALGEQITPETTV ARLRDIASGLDVEIDNSVFGHGKLVEELWEHAVGNKLTAPTFVKDFPVET TPLTRQHRSIPGVTEKWDLYVRGVELATGYSELNDPVVQRDRFADQARAA AAGDDEAMQLDEDFLTALEYGMPPCTGTGMGIDRLLMCLTGLSIRETVLF PIVRPHSN code

code *GC% Content for gene (codon optimized):58.717435 code

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code Do Not Need this info for Spring (but still copy these lines to your Target page for now) code code Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers): code

code (link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol) code

code -- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to. code

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code Primer design results for 'tail' primers (this is just 2 sequences):