Succinate+dehydrogenase+flavoprotein,+putative+(T.+cruzi)

[] //Trypanosoma cruzi// is a flagellate protozoan that is the cause of Chagas disease, also known as American trypanosomiasis. This disease is characterized as a tropical parasitic disease that is contracted when infected feces from organisms in the family Reduviidae enters the bloodstream. This protozoan can cause death in infected individuals by causing heart failure and disease of the internal organs. There is currently no treatment or cure for chronic forms of infection.
 * Target (protein/gene name):** Succinate dehydrogenase flavoprotein, putative
 * NCBI Gene # or RefSeq#**: XM_804331.1
 * Protein ID (NP or XP #) or Wolbachia#:** XP_809424.1
 * Organism (including strain):** //Trypanosoma cruzi//
 * Background/Disease Information (sort of like the Intro to your Mini Research Write up):**


 * Essentiality of this protein:** The protein shows a significant decrease in fitness for T. brucei when inhibited, which means there is probably a similar effect in T. cruzi.
 * Complex of proteins?:**
 * Druggable Target:** This has a druggability of .8, on a 0 to 1 scale.

===**-- link to Sigma (or other company) page for assay or assay reagents (substrates) ** === []
 * *EC#: ** 1.3.5.1
 * Link to BRENDA EC# page:**
 * --** Show screenshot of BRENDA enzyme mechanism schematic
 * Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):** Colorimetric-continuous assay using iodonitrotetrazolium chloride.

[]
 * -- link (or citation) to paper that contains assay information:**

-- PDB # or closest PDB entry if using homology model: 1YQ3 -- For Homology Model option: Show pairwise alignment of your BLASTP search in NCBI against the PDB Query Coverage: 98% Max % Identities: 60% % Positives 76% Chain used for homology: Chain A
 * List cost and quantity of substrate reagents and supplier **
 * Structure Available (PDB or Homology model)**


 * Current Inhibitors:** The structure is putative, but known succinate dehydronase inhibitors are carboxin, thenoyltrifluoroacetone, malate, and oxiloacetate.
 * Expression Information (has it been expressed in bacterial cells):** It has been expressed in BL21(DE3)

MLRRIFARFSPKLSKAYPMIDHTFDCVVVGAGGSGLRAAMGVAASGYDVACISKLYPSRS HTIAAQGGINAALANCEEDDWRWHVYDTVKGSDWLGDQDAIQYMCQEAPCVVSELESMGL PFLRTKDGFIYQRAFGGQSIHFGGKQARRTCAASDRTGHAMLHTLYGQSFQYGVNFFNEY YCLDLIVEDGCCRGVVAMSIDDGTIHRFRSKYTILATGGYGRCWFTTTSAKSCTGDGTAM VARAGLPAEDMEFVQFHPTGIYGPGVLITEGARGEGGYLVNSEGERFMERYAPKAKDLAS RDVVSRAITLEVLAGRGCGPKKDHVLLQLHHLPPEQLHEKLPGISESAHIFAGVDVTKES IPIVPTVHYNMGGIPTLWTGEVVSPRNGDDDAIVPGLLAAGECACASVHGANRLGANSLL DIVVFGKSCANTVIFNLTKEGRNQPELRPDAGESSIADLDGILHNKGDIPVARIRERMKE TMALYAAVFRTEESMLKGQGIIEECYRDYSHVFVHDKSPVWNSNLIEALELRNLLTNALL TITGAAVRRESRGAHARDDYPERDDHNWMKHTLAYLDDKNGKARLAYRRVHNEMLTNELE SIPPAKRVY [|http://earth.lab.nig.ac.jp/~dclust/cgi-bin/barley_pub/blast_viewer/showflatdata.cgi?CLNID=45654&CLNLIBID=54&DBID=1#115] atgcttcgcc gcatatttgc ccgcttctcc ccgaagctga gtaaggcgta cccgatgatt
 * Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):**
 * length of your protein in Amino Acids** 609aa
 * Molecular Weight of your protein in kiloDaltons using the [|Expasy ProtParam] website** 66903.9 grams/mole
 * Molar Extinction coefficient of your protein at 280 nm wavelength:** 73770
 * TMpred graph Image ** (@http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
 * CDS Gene Sequence (paste as text only):**

61 gaccacacct ttgactgtgt ggtggttggt gccggtggtt cagggcttcg tgctgcgatg

121 ggcgttgccg cgtccggcta cgacgtggca tgcatctcca aactctatcc atcaaggtca

181 cacaccattg ctgcccaggg cggcatcaac gcagcacttg ccaactgtga ggaggacgac

241 tggcgttggc atgtgtacga taccgtgaag ggaagtgact ggctggggga ccaggatgca

301 attcagtaca tgtgccaaga agctccgtgt gtggtctcag aactagagag catgggactt

361 cccttcttgc gtacaaaaga tggatttatt tatcaacgtg catttggcgg ccaatctatt

421 cactttggtg gaaaacaggc gcgccggacg tgtgccgcgt cggaccgcac gggacacgca

481 atgctccaca cactctatgg gcaatcgttt cagtacggcg tgaacttttt taacgaatat

541 tattgcttag acctgattgt agaagatgga tgctgccgtg gagtggttgc catgagcatc

601 gatgatggca caattcatcg cttccgatcc aagtacacta ttcttgccac cggtggttac

661 ggccgctgct ggtttacaac aacaagcgcc aagtcttgta ccggagacgg gacggcaatg

721 gtggcacgtg cagggctgcc ggcggaagac atggaatttg tgcagttcca cccaacggga

781 atttacggtc ctggtgtgct gattaccgag ggggcccgtg gcgagggtgg ttacctcgtc

841 aacagtgaag gggagcgctt catggagcga tacgccccca aggcaaagga tttggcgtct

901 cgtgatgtgg tgtcacgcgc cattacgttg gaggttcttg caggacgtgg ctgtggcccc

961 aagaaggatc acgtcctgct gcaacttcat catctcccac ccgagcaact acatgagaag

1021 cttcccggta tctccgagag cgcacatatt tttgcgggtg tggacgtgac gaaggagtcc

1081 atccctatcg tgccgacggt gcactacaac atgggaggca tcccaacatt gtggacgggc

1141 gaggtagtca gtccccggaa tggcgatgac gatgcgatcg tcccaggtct tttggcggcg

1201 ggcgagtgtg cgtgcgcgag tgtgcatggg gcaaatcgtc tgggtgccaa ctccctcctc

1261 gacattgttg tttttggcaa atcatgtgcg aacaccgtca tatttaacct gacgaaggaa

1321 ggacgcaatc agccggagct gcggcccgat gccggggagt cgtccattgc cgatcttgac

1381 ggcattctgc acaacaaggg ggacatccct gtcgcacgca tccgtgagcg catgaaggag

1441 acgatggcgc tctacgcagc cgtgtttcgc actgaggaga gcatgctcaa gggacagggg

1501 atcattgaag aatgttaccg ggattactcc catgtgtttg tccacgacaa gtccccggtg

1561 tggaacagca accttattga ggcgctcgag ctgcgtaatt tgctcacaaa cgcgcttttg

1621 accatcactg gagctgccgt gcggcgggag tctcgtgggg cacatgcacg cgacgactac

1681 ccggagcgag acgaccacaa ctggatgaag catacacttg cgtacctcga tgacaaaaac

1741 ggtaaagccc gtcttgcgta ccgccgagta cacaacgaaa tgctaacaaa tgaacttgaa

1801 agcatccctc ctgccaagcg tgtttactag Because the structure is putative, the above information is not available yet. [|http://blast.ncbi.nlm.nih.gov/Blast.cgi#alnHdr_71414659] Do Not Need this info for Spring (but still copy these lines to your Target page for now) -- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
 * GC% Content for gene:**
 * CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only):**
 * GC% Content for gene (codon optimized):**
 * Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):**
 * ( link to DNA Works output text file - **that should be saved in your Google Docs folder after you did the primer design protocol)


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