Target+-1-deoxy-D-xylulose+5-phosphate+reductoisomerase+(Francisella+Tularensis)


 * Target (protein/gene name):** 1-deoxy-D-xylulose 5-phosphate reductoisomerase

3191554 https://www.ncbi.nlm.nih.gov/protein/YP_170496.1
 * NCBI Gene # or RefSeq#:**
 * Protein ID (NP or XP #) or Wolbachia#:** YP_170496.1


 * Organism:** //Francisella tularensis subsp. tularensis SCHU S4//
 * amino acid sequences for different strains of the organism came out 100% identical
 * just use SCHU S4


 * Etiologic Risk Group (see link below):** Risk Group 3

-also known as the "rabbit fever" -bacterium found in animals (especially rodents, rabbits & hares) -spread by: getting infected insect bites, handling infected sick or dead animal, eating/drinking contaminated food/water, or inhaling airborne bacteria -not known to spread from person to person -can be treated with antibiotics -symptoms: sudden fever, chills, headaches, diarrhea, muscle aches, progressive weakness -about 400 cases in the United States every year -10-50 organisms can cause the disease/ highly infectious http://www.bt.cdc.gov/agent/tularemia/facts.asp
 * Background/Disease Information:**

http://www.ncbi.nlm.nih.gov/pubmed?term=(1-deoxy-D-xylulose%205-phosphate%20reductoisomerase)%20AND%20Francisella%20Tularensis
 * Essentiality of this protein:**

EC#: 1.1.1.267
 * Complex of enzymes:**

http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.267&Suchword=&organism%5B%5D=Francisella+tularensis&show_tm=0
 * Link to BRENDA EC# page:**

([])
 * Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):**
 * MEP synthase activity was evaluated at 22°C by spectrophotometrically monitoring the enzyme catalyzed oxidation of NADPH using an assay derived from that described by Takahashi // et al. //// ([], [] //// ) //
 * Assay mixtures (200 µL): contained 100 mM Tris pH 7.8, 25 mM MgCl2, 0.15 mM NADPH, 7 µM MEP synthase, and a variable concentration of DXP (Echelon Biosciences, Salt Lake City, UT)
 * Reagents: To determine cation specificity, assays were performed with 25 mM MgCl2, CaCl2, CoCl2, CuCl2, MnCl2, ZnCl2, or NiCl2
 * -- link to Sigma (or other company) page for assay or assay reagents (substrates)**
 * 1-Deoxy-D-xylulose-5-phosphate sodium salt(13368 SIGMA): 1MG - $66.30 / 5MG-$264.50

> ([])
 * beta-Nicotinamide adenine dinucleotide 2'-phosphate reduced tetrasodium salt hydrate (N6505 SIGMA): 25MG - $83.40

from article: []
 * -- link to paper that contains assay information**
 * Structure Available (PDB or Homology model)**

3IIE_A http://www.pdb.org/pdb/explore/explore.do?structureId=3IIE
 * -- PDB # or closest PDB entry if homology model:**


 * -- Query Coverage (if not direct match):** 98%


 * -- Max Ident (if not direct match):** 50%


 * Druggable Target (see Databases for this):**

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788227/?tool=pubmed
 * Current Inhibitors:** fosmidomycin

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788227/?tool=pubmed
 * Expression Information (has it been expressed in bacterial cells):**

http://pubs.acs.org/doi/full/10.1021/bi047312p for E.coli http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788227/?tool=pubmed
 * Purification Method:**

http://pubs.acs.org/doi/full/10.1021/bi047312p for E.coli


 * Image of protein (PyMol or etc):**

>fid|1288049|locus|FTT1574c| 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Francisella tularensis subsp. tularensis SCHU S4] MFKKTKITILGATGSIGDSTLAVIRETNDFEVFALTAFSNVEKLAELCQEFKPKFAVVPD LSKKQKLQSLVTDVEVLVGESGLEKVSSLAEIDIVMSAIVGIAGLKPTFAAAKAGKKILL ANKESLVTAGHLLIDEVVKNNAQLIPVDSEHNAIFQCIDNHDKKCLPEIDKIILTASGGP FRDKQLHELTDVTPEQACNHPNWQMGRKISVDSSTMVNKALEVIEAYWLFSVSADKIGVL IHPQSVTHSMVRYVDGSYIAQLGVPDMKTPIANAMYYPKRGSVNVESLDFTKYQLTFREA CFERFEALKIVFNNLQNKNYAANIVFNAANEELVAAFLNKKIKYLEIIEVNKKVTKELNF ENPKNIEEVFEIDRKTREYVDSVLG
 * Amino Acid Sequence:**
 * length of your protein in Amino Acids** 385


 * Molecular Weight of your protein in kiloDaltons using the [|Expasy ProtParam]website:** 42847.4kDa

Ext. coefficient 24660  Ext. coefficient 24410 
 * Molar Extinction coefficient of your protein at 280 nm wavelength:**

code >gi|255961454:c1637259-1636102 Francisella tularensis subsp. tularensis SCHU S4 chromosome, complete genome ATGTTTAAAAAAACTAAGATTACTATATTAGGAGCTACAGGATCTATAGGTGATAGCACTTTAGCTGTTA TTAGAGAGACTAATGATTTTGAAGTTTTTGCATTAACTGCATTTAGTAATGTTGAAAAGCTGGCAGAGCT ATGTCAAGAGTTTAAGCCTAAATTTGCTGTAGTTCCAGACTTGTCAAAAAAACAAAAGTTACAATCATTA GTTACTGATGTTGAGGTTTTGGTTGGTGAAAGTGGGCTTGAAAAAGTATCTAGCTTAGCTGAAATTGATA TTGTCATGTCTGCTATAGTTGGTATAGCAGGGTTAAAACCAACCTTTGCAGCAGCTAAAGCTGGTAAGAA AATTTTGCTTGCTAATAAAGAATCTTTGGTAACAGCAGGACACTTGCTGATAGATGAGGTTGTAAAGAAT AATGCTCAACTTATTCCTGTGGATAGTGAACATAATGCTATATTTCAGTGTATTGATAATCATGATAAGA AGTGTTTGCCAGAGATTGATAAGATAATTTTAACAGCATCTGGAGGTCCTTTTAGAGACAAACAACTACA TGAGTTAACGGATGTAACACCCGAGCAAGCATGCAATCATCCTAATTGGCAAATGGGCAGAAAAATATCG GTTGATTCATCAACTATGGTAAATAAAGCGTTAGAAGTTATCGAAGCGTATTGGCTTTTTTCTGTTTCAG CTGATAAAATAGGCGTTCTGATTCATCCGCAGAGTGTAACTCATTCTATGGTCAGATATGTTGATGGTAG CTATATAGCGCAGTTAGGTGTGCCTGATATGAAAACACCTATAGCCAACGCAATGTACTATCCAAAGAGA GGATCAGTTAACGTTGAGAGCTTAGATTTTACAAAATATCAGCTAACCTTCAGAGAAGCTTGTTTTGAAA GATTTGAAGCTTTGAAAATAGTTTTTAATAATTTACAAAATAAAAATTATGCTGCTAACATAGTTTTTAA TGCTGCTAATGAGGAGCTTGTGGCTGCATTTTTAAACAAAAAAATTAAATATTTAGAGATAATAGAAGTA AACAAAAAAGTAACAAAAGAGTTAAATTTTGAGAATCCAAAAAATATAGAAGAAGTTTTTGAAATAGATA GAAAAACTCGTGAATATGTGGATTCTGTTTTGGGGTAA code
 * CDS Gene Sequence:**
 * GC% Content for gene:** 8.94%

code 1 ATGTTCAAAAAAACCAAAATCACCATCCTGGGTGCGACCGGTTCTATCGGTGACTCTACC 61 CTGGCGGTTATCCGTGAAACCAATGATTTCGAAGTTTTCGCGCTGACCGCGTTCTCTAAC 121 GTTGAGAAACTGGCGGAACTGTGCCAGGAATTCAAACCGAAATTTGCGGTTGTTCCTGAT 181 CTGTCTAAAAAACAGAAACTCCAGTCTCTCGTTACCGACGTTGAAGTGCTGGTTGGTGAA 241 TCTGGTCTGGAAAAAGTTTCTTCTCTGGCTGAGATCGACATTGTTATGTCTGCGATCGTT 301 GGTATCGCGGGTCTGAAACCGACCTTTGCGGCAGCGAAAGCGGGTAAGAAAATCCTGCTG 361 GCGAACAAAGAGTCTCTGGTTACCGCCGGTCATCTGCTGATCGACGAAGTTGTTAAGAAC 421 AACGCCCAACTGATCCCGGTGGATTCTGAACACAACGCGATCTTCCAGTGCATTGACAAC 481 CACGACAAAAAATGCCTGCCGGAAATCGATAAAATCATCCTGACTGCGTCTGGTGGTCCG 541 TTCCGTGACAAACAGCTGCACGAACTGACGGACGTTACCCCAGAGCAGGCGTGTAATCAC 601 CCGAACTGGCAGATGGGTCGTAAAATCTCTGTCGACTCTTCTACGATGGTAAACAAAGCC 661 CTGGAAGTTATCGAAGCTTACTGGCTGTTCTCTGTTTCTGCGGACAAAATCGGTGTTCTG 721 ATCCACCCGCAGTCTGTTACCCACTCTATGGTTCGTTACGTAGACGGCTCTTATATTGCT 781 CAACTCGGTGTCCCTGACATGAAAACCCCGATTGCGAACGCCATGTACTATCCTAAACGT 841 GGTTCTGTTAATGTTGAATCCCTGGACTTCACGAAGTACCAGCTGACCTTCCGCGAAGCG 901 TGCTTCGAACGTTTTGAAGCTCTGAAAATTGTTTTCAACAACCTGCAGAACAAAAACTAC 961 GCGGCCAACATCGTATTCAACGCCGCGAACGAAGAACTGGTTGCGGCCTTCCTGAACAAG 1021 AAGATCAAATACCTGGAGATCATTGAAGTAAATAAGAAGGTTACCAAAGAGCTGAATTTC 1081 GAGAACCCTAAAAACATTGAGGAAGTCTTCGAGATTGACCGTAAAACGCGTGAGTATGTG 1141 GACTCTGTTCTGGGCTAA code
 * CDS Gene Sequence (codon optimized) - after having done Primer Design:**
 * GC% Content for gene (codon optimized):** 48.22%

ATGTTCAAAAAAACCAAAATCACCATCC
 * Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):**

CCAGGGTAGAGTCACCGATAGAACCGGTCGCACCCAGGATGGTGATTTTGGTTTTTTTGA

TATCGGTGACTCTACCCTGGCGGTTATCCGTGAAACCAATGATTTCGAAGTTTTCGCGCT

GCACAGTTCCGCCAGTTTCTCAACGTTAGAGAACGCGGTCAGCGCGAAAACTTCGAAATC

AACTGGCGGAACTGTGCCAGGAATTCAAACCGAAATTTGCGGTTGTTCCTGATCTGTCTA

CTTCAACGTCGGTAACGAGAGACTGGAGTTTCTGTTTTTTAGACAGATCAGGAACAACCG

CTCTCGTTACCGACGTTGAAGTGCTGGTTGGTGAATCTGGTCTGGAAAAAGTTTCTTCTC

CCAACGATCGCAGACATAACAATGTCGATCTCAGCCAGAGAAGAAACTTTTTCCAGACCA

GTTATGTCTGCGATCGTTGGTATCGCGGGTCTGAAACCGACCTTTGCGGCAGCGAAAGCG

GGCGGTAACCAGAGACTCTTTGTTCGCCAGCAGGATTTTCTTACCCGCTTTCGCTGCCGC

AGAGTCTCTGGTTACCGCCGGTCATCTGCTGATCGACGAAGTTGTTAAGAACAACGCCCA

TGGAAGATCGCGTTGTGTTCAGAATCCACCGGGATCAGTTGGGCGTTGTTCTTAACAACT

AACACAACGCGATCTTCCAGTGCATTGACAACCACGACAAAAAATGCCTGCCGGAAATCG

TTGTCACGGAACGGACCACCAGACGCAGTCAGGATGATTTTATCGATTTCCGGCAGGCAT

TGGTCCGTTCCGTGACAAACAGCTGCACGAACTGACGGACGTTACCCCAGAGCAGGCGTG

AGTCGACAGAGATTTTACGACCCATCTGCCAGTTCGGGTGATTACACGCCTGCTCTGGGG

GGTCGTAAAATCTCTGTCGACTCTTCTACGATGGTAAACAAAGCCCTGGAAGTTATCGAA

ACCGATTTTGTCCGCAGAAACAGAGAACAGCCAGTAAGCTTCGATAACTTCCAGGGCTTT

TTCTGCGGACAAAATCGGTGTTCTGATCCACCCGCAGTCTGTTACCCACTCTATGGTTCG

GGGACACCGAGTTGAGCAATATAAGAGCCGTCTACGTAACGAACCATAGAGTGGGTAACA

TGCTCAACTCGGTGTCCCTGACATGAAAACCCCGATTGCGAACGCCATGTACTATCCTAA

TCGTGAAGTCCAGGGATTCAACATTAACAGAACCACGTTTAGGATAGTACATGGCGTTCG

TGAATCCCTGGACTTCACGAAGTACCAGCTGACCTTCCGCGAAGCGTGCTTCGAACGTTT

TTTTTGTTCTGCAGGTTGTTGAAAACAATTTTCAGAGCTTCAAAACGTTCGAAGCACGCT

TCAACAACCTGCAGAACAAAAACTACGCGGCCAACATCGTATTCAACGCCGCGAACGAAG

TCCAGGTATTTGATCTTCTTGTTCAGGAAGGCCGCAACCAGTTCTTCGTTCGCGGCGTTG

GAACAAGAAGATCAAATACCTGGAGATCATTGAAGTAAATAAGAAGGTTACCAAAGAGCT

AGACTTCCTCAATGTTTTTAGGGTTCTCGAAATTCAGCTCTTTGGTAACCTTCTTATTTA

CCCTAAAAACATTGAGGAAGTCTTCGAGATTGACCGTAAAACGCGTGAGTATGTGGACTC

TTAGCCCAGAACAGAGTCCACATACTCACGCG


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

[]
 * Link to Final Results Logfile**

Upstream TACTTCCAATCC ATG __TTCAAAAAAACCAAAATC __ Downstream TATCCACCTTTACTG TTA __GCCCAGAACAGAGTC __

>filtered DNA sequence consisting of 1158 bases

<span style="background-color: #ffffff; font-family: courier,sans-serif; font-size: medium;">>filtered DNA sequence consisting of 1158 bases. ATG <span style="background-color: #ffffff; font-family: courier,sans-serif; font-size: medium;">__TTCAAAAAAACCAAAATC__ACCATCCTGGGTGCGACCGGTTCTATCGGTGACTCTACC CTGGCGGTTATCCGTGAAACCAATGATTTCGAAGTTTTCGCGCTGACCGCGTTCTCTAAC GTTGAGAAACTGGCGGAACTGTGCCAGGAATTCAAACCGAAATTTGCGGTTGTTCCTGAT CTGTCTAAAAAACAGAAACTCCAGTCTCTCGTTACCGACGTTGAAGTGCTGGTTGGTGAA TCTGGTCTGGAAAAAGTTTCTTCTCTGGCTGAGATCGACATTGTTATGTCTGCGATCGTT GGTATCGCGGGTCTGAAACCGACCTTTGCGGCAGCGAAAGCGGGTAAGAAAATCCTGCTG GCGAACAAAGAGTCTCTGGTTACCGCCGGTCATCTGCTGATCGACGAAGTTGTTAAGAAC AACGCCCAACTGATCCCGGTGGATTCTGAACACAACGCGATCTTCCAGTGCATTGACAAC CACGACAAAAAATGCCTGCCGGAAATCGATAAAATCATCCTGACTGCGTCTGGTGGTCCG TTCCGTGACAAACAGCTGCACGAACTGACGGACGTTACCCCAGAGCAGGCGTGTAATCAC CCGAACTGGCAGATGGGTCGTAAAATCTCTGTCGACTCTTCTACGATGGTAAACAAAGCC CTGGAAGTTATCGAAGCTTACTGGCTGTTCTCTGTTTCTGCGGACAAAATCGGTGTTCTG ATCCACCCGCAGTCTGTTACCCACTCTATGGTTCGTTACGTAGACGGCTCTTATATTGCT CAACTCGGTGTCCCTGACATGAAAACCCCGATTGCGAACGCCATGTACTATCCTAAACGT GGTTCTGTTAATGTTGAATCCCTGGACTTCACGAAGTACCAGCTGACCTTCCGCGAAGCG TGCTTCGAACGTTTTGAAGCTCTGAAAATTGTTTTCAACAACCTGCAGAACAAAAACTAC GCGGCCAACATCGTATTCAACGCCGCGAACGAAGAACTGGTTGCGGCCTTCCTGAACAAG AAGATCAAATACCTGGAGATCATTGAAGTAAATAAGAAGGTTACCAAAGAGCTGAATTTC GAGAACCCTAAAAACATTGAGGAAGTCTTCGAGATTGACCGTAAAACGCGTGAGTATGTG __<span style="background-color: #ffffff; font-family: courier,sans-serif; font-size: medium;">GACTCTGTTCTGGGC __ TAA

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Upstream

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">33bp

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">GC Content: 30.3%


 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Mg++ Concentration (mM) || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Melting Temperature (°C) ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">0 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">57.6 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">1.5 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">65.8 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">2 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">66.4 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">4 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">67.3 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">6 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">68.2 ||

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Downstream

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">33bp

<span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">GC Content: 45.5%

Primers named as "FrTu_DXR_FOR & FrTu_DXR_REV"
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Mg++ Concentration (mM) || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">Melting Temperature (°C) ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">0 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">62.1 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">1.5 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">69.3 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">2 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">69.8 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">4 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">70.7 ||
 * <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">6 || <span style="background-color: white; font-family: 'Times New Roman',serif; font-size: 10pt;">71.2 ||