Difference between revisions of "Part:BBa K1159013"
m |
|||
| (One intermediate revision by one other user not shown) | |||
| Line 1: | Line 1: | ||
| − | |||
__NOTOC__ | __NOTOC__ | ||
<partinfo>BBa_K1159013 short</partinfo> | <partinfo>BBa_K1159013 short</partinfo> | ||
| − | + | This part encodes for the Human protein phosphatase 1, which binds the toxic oligopeptide produces by gree-blue algae, with a N-terminal signal peptdie for secretion (signal peptide from SERK Receptor of ''Physcomitrella patens''). This construct is flanked by RFC[25] N-part prefix and suffix. Note: This means only protein fusions to the C-terminus of this part is possible, adding promoters (typically RFC[10]) into the prefix or terminators/IRES (typically RFC[10]) into the suffix of this part is nevertheless possible. | |
<!-- Add more about the biology of this part here | <!-- Add more about the biology of this part here | ||
| Line 11: | Line 10: | ||
<span class='h3bb'>Sequence and Features</span> | <span class='h3bb'>Sequence and Features</span> | ||
<partinfo>BBa_K1159013 SequenceAndFeatures</partinfo> | <partinfo>BBa_K1159013 SequenceAndFeatures</partinfo> | ||
| − | + | <html><!--- Please copy this table containing parameters for BBa_ at the end of the parametrs section ahead of the references. ---><style type="text/css">table#AutoAnnotator {border:1px solid black; width:100%; border-collapse:collapse;} th#AutoAnnotatorHeader { border:1px solid black; width:100%; background-color: rgb(221, 221, 221);} td.AutoAnnotator1col { width:100%; border:1px solid black; } span.AutoAnnotatorSequence { font-family:'Courier New', Arial; } td.AutoAnnotatorSeqNum { text-align:right; width:2%; } td.AutoAnnotatorSeqSeq { width:98% } td.AutoAnnotatorSeqFeat1 { width:3% } td.AutoAnnotatorSeqFeat2a { width:27% } td.AutoAnnotatorSeqFeat2b { width:97% } td.AutoAnnotatorSeqFeat3 { width:70% } table.AutoAnnotatorNoBorder { border:0px; width:100%; border-collapse:collapse; } table.AutoAnnotatorWithBorder { border:1px solid black; width:100%; border-collapse:collapse; } td.AutoAnnotatorOuterAmino { border:0px solid black; width:20% } td.AutoAnnotatorInnerAmino { border:1px solid black; width:50% } td.AutoAnnotatorAminoCountingOuter { border:1px solid black; width:40%; } td.AutoAnnotatorBiochemParOuter { border:1px solid black; width:60%; } td.AutoAnnotatorAminoCountingInner1 { width: 7.5% } td.AutoAnnotatorAminoCountingInner2 { width:62.5% } td.AutoAnnotatorAminoCountingInner3 { width:30% } td.AutoAnnotatorBiochemParInner1 { width: 5% } td.AutoAnnotatorBiochemParInner2 { width:55% } td.AutoAnnotatorBiochemParInner3 { width:40% } td.AutoAnnotatorCodonUsage1 { width: 3% } td.AutoAnnotatorCodonUsage2 { width:14.2% } td.AutoAnnotatorCodonUsage3 { width:13.8% } td.AutoAnnotatorAlignment1 { width: 3% } td.AutoAnnotatorAlignment2 { width: 10% } td.AutoAnnotatorAlignment3 { width: 87% } td.AutoAnnotatorLocalizationOuter {border:1px solid black; width:40%} td.AutoAnnotatorGOOuter {border:1px solid black; width:60%} td.AutoAnnotatorLocalization1 { width: 7.5% } td.AutoAnnotatorLocalization2 { width: 22.5% } td.AutoAnnotatorLocalization3 { width: 70% } td.AutoAnnotatorGO1 { width: 5% } td.AutoAnnotatorGO2 { width: 35% } td.AutoAnnotatorGO3 { width: 60% } td.AutoAnnotatorPredFeat1 { width:3% } td.AutoAnnotatorPredFeat2a { width:27% } td.AutoAnnotatorPredFeat3 { width:70% } div.AutoAnnotator_trans { position:absolute; background:rgb(11,140,143); background-color:rgba(11,140,143, 0.8); height:5px; top:100px; } div.AutoAnnotator_sec_helix { position:absolute; background:rgb(102,0,102); background-color:rgba(102,0,102, 0.8); height:5px; top:110px; } div.AutoAnnotator_sec_strand { position:absolute; background:rgb(245,170,26); background-color:rgba(245,170,26, 1); height:5px; top:110px; } div.AutoAnnotator_acc_buried { position:absolute; background:rgb(89,168,15); background-color:rgba(89,168,15, 0.8); height:5px; top:120px; } div.AutoAnnotator_acc_exposed { position:absolute; background:rgb(0, 0, 255); background-color:rgba(0, 0, 255, 0.8); height:5px; top:120px; } div.AutoAnnotator_dis { position:absolute; text-align:center; font-family:Arial,Helvetica,sans-serif; background:rgb(255, 200, 0); background-color:rgba(255, 200, 0, 1); height:16px; width:16px; top:80px; border-radius:50%; } </style><div id='AutoAnnotator_container_1381243989252'><table id="AutoAnnotator"><tr><!-- Time stamp in ms since 1/1/1970 1381243989252 --><th id="AutoAnnotatorHeader" colspan="2">Protein data table for BioBrick <a href="https://parts.igem.org/wiki/index.php?title=Part:BBa_<!------------------------Enter BioBrick number here------------------------>">BBa_<!------------------------Enter BioBrick number here------------------------></a> automatically created by the <a href="http://2013.igem.org/Team:TU-Munich/Results/AutoAnnotator">BioBrick-AutoAnnotator</a> version 1.0</th></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Nucleotide sequence</strong> in <strong>RFC 25 N-Part</strong> using the stop codon in the suffix, so ACCGGT was added (in italics) to the 3' end: (underlined part encodes the protein)<br><span class="AutoAnnotatorSequence"> AACA<u>ATGCCTGGT ... GCAAAGAAA<i>ACCGGT</i></u></span><br> <strong>ORF</strong> from nucleotide position 5 to 1084 (excluding stop-codon)</td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Amino acid sequence:</strong> (RFC 25 scars in shown in bold, other sequence features underlined; both given below)<br><span class="AutoAnnotatorSequence"><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorSeqNum">1 <br>101 <br>201 <br>301 </td><td class="AutoAnnotatorSeqSeq">MPGEVAWWRPLFLIALMPIGVLSNAEGDALNT<b>TG</b>GSADLDKLNIDSIIQRLLEVRGSKPGKNVQLQENEIRGLCLKSREIFLSQPILLELEAPLKICGDI<br>HGQYYDLLRLFEYGGFPPESNYLFLGDYVDRGKQSLETICLLLAYKIKYPENFFLLRGNHECASINRIYGFYDECKRRYNIKLWKTFTDCFNCLPIAAIV<br>DEKIFCCHGGLSPDLQSMEQIRRIMRPTDVPDQGLLCDLLWSDPDKDVLGWGENDRGVSFTFGAEVVAKFLHKHDLDLICRAHQVVEDGYEFFAKRQLVT<br>LFSAPNYCGEFDNAGAMMSVDETLMCSFQILKPAEKKKPNATRPVTPPRGMITKQAKKTG*</td></tr></table></span></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Sequence features:</strong> (with their position in the amino acid sequence, see the <a href="http://2013.igem.org/Team:TU-Munich/Results/Software/FeatureList">list of supported features</a>)<table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorSeqFeat1"></td><td class="AutoAnnotatorSeqFeat2a">RFC25 scar (shown in bold): </td><td class="AutoAnnotatorSeqFeat3">33 to 34</td></tr></table></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Amino acid composition:</strong><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Ala (A)</td><td class="AutoAnnotatorInnerAmino">20 (5.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Arg (R)</td><td class="AutoAnnotatorInnerAmino">19 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asn (N)</td><td class="AutoAnnotatorInnerAmino">15 (4.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asp (D)</td><td class="AutoAnnotatorInnerAmino">24 (6.7%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Cys (C)</td><td class="AutoAnnotatorInnerAmino">13 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gln (Q)</td><td class="AutoAnnotatorInnerAmino">13 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Glu (E)</td><td class="AutoAnnotatorInnerAmino">23 (6.4%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gly (G)</td><td class="AutoAnnotatorInnerAmino">28 (7.8%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">His (H)</td><td class="AutoAnnotatorInnerAmino">6 (1.7%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ile (I)</td><td class="AutoAnnotatorInnerAmino">23 (6.4%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Leu (L)</td><td class="AutoAnnotatorInnerAmino">44 (12.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Lys (K)</td><td class="AutoAnnotatorInnerAmino">23 (6.4%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Met (M)</td><td class="AutoAnnotatorInnerAmino">8 (2.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Phe (F)</td><td class="AutoAnnotatorInnerAmino">19 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Pro (P)</td><td class="AutoAnnotatorInnerAmino">20 (5.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ser (S)</td><td class="AutoAnnotatorInnerAmino">16 (4.4%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Thr (T)</td><td class="AutoAnnotatorInnerAmino">13 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Trp (W)</td><td class="AutoAnnotatorInnerAmino">5 (1.4%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Tyr (Y)</td><td class="AutoAnnotatorInnerAmino">12 (3.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Val (V)</td><td class="AutoAnnotatorInnerAmino">16 (4.4%)</td></tr></table></td></tr></table></td></tr><tr><td class="AutoAnnotatorAminoCountingOuter"><strong>Amino acid counting</strong><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Total number:</td><td class="AutoAnnotatorAminoCountingInner3">360</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Positively charged (Arg+Lys):</td><td class="AutoAnnotatorAminoCountingInner3">42 (11.7%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Negatively charged (Asp+Glu):</td><td class="AutoAnnotatorAminoCountingInner3">47 (13.1%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Aromatic (Phe+His+Try+Tyr):</td><td class="AutoAnnotatorAminoCountingInner3">42 (11.7%)</td></tr></table></td><td class="AutoAnnotatorBiochemParOuter"><strong>Biochemical parameters</strong><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Atomic composition:</td><td class="AutoAnnotatorBiochemParInner3">C<sub>1835</sub>H<sub>2865</sub>N<sub>485</sub>O<sub>524</sub>S<sub>21</sub></td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Molecular mass [Da]:</td><td class="AutoAnnotatorBiochemParInner3">40778.1</td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Theoretical pI:</td><td class="AutoAnnotatorBiochemParInner3">5.79</td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Extinction coefficient at 280 nm [M<sup>-1</sup> cm<sup>-1</sup>]:</td><td class="AutoAnnotatorBiochemParInner3">45380 / 46193 (all Cys red/ox)</td></tr></table></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Plot for hydrophobicity, charge, predicted secondary structure, solvent accessability, transmembrane helices and disulfid bridges</strong> <input type='button' id='hydrophobicity_charge_button' onclick='show_or_hide_plot_1381243989252()' value='Show'><span id="hydrophobicity_charge_explanation"></span><div id="hydrophobicity_charge_container" style='display:none'><div id="hydrophobicity_charge_placeholder0" style="width:100%;height:150px"></div><div id="hydrophobicity_charge_placeholder1" style="width:100%;height:150px"></div></div></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Codon usage</strong><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorCodonUsage1"></td><td class="AutoAnnotatorCodonUsage2">Organism:</td><td class="AutoAnnotatorCodonUsage3"><i>E. coli</i></td><td class="AutoAnnotatorCodonUsage3"><i>B. subtilis</i></td><td class="AutoAnnotatorCodonUsage3"><i>S. cerevisiae</i></td><td class="AutoAnnotatorCodonUsage3"><i>A. thaliana</i></td><td class="AutoAnnotatorCodonUsage3"><i>P. patens</i></td><td class="AutoAnnotatorCodonUsage3">Mammals</td></tr><tr><td class="AutoAnnotatorCodonUsage1"></td><td class="AutoAnnotatorCodonUsage2">Codon quality (<a href="http://en.wikipedia.org/wiki/Codon_Adaptation_Index">CAI</a>):</td><td class="AutoAnnotatorCodonUsage3">good (0.69)</td><td class="AutoAnnotatorCodonUsage3">good (0.74)</td><td class="AutoAnnotatorCodonUsage3">good (0.68)</td><td class="AutoAnnotatorCodonUsage3">good (0.79)</td><td class="AutoAnnotatorCodonUsage3">good (0.80)</td><td class="AutoAnnotatorCodonUsage3">good (0.71)</td></tr></table></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Alignments</strong> (obtained from <a href='http://predictprotein.org'>PredictProtein.org</a>)<table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">SwissProt:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.uniprot.org/uniprot/P36873'>P36873</a> (100% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/P36874'>P36874</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/P61287'>P61287</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/P63087'>P63087</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/P63088'>P63088</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/Q6NVU2'>Q6NVU2</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/Q7SZ10'>Q7SZ10</a> (99% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/Q8MJ46'>Q8MJ46</a> (98% identity on 322 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">TrEML:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.uniprot.org/uniprot/F6YKN7'>F6YKN7</a> (100% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/F7AYW3'>F7AYW3</a> (100% identity on 305 AAs), <a href='http://www.uniprot.org/uniprot/F7GFT6'>F7GFT6</a> (100% identity on 313 AAs), <a href='http://www.uniprot.org/uniprot/F7GFU1'>F7GFU1</a> (100% identity on 322 AAs), <a href='http://www.uniprot.org/uniprot/G3R7N4'>G3R7N4</a> (100% identity on 313 AAs), <a href='http://www.uniprot.org/uniprot/G5AWL7'>G5AWL7</a> (100% identity on 296 AAs), <a href='http://www.uniprot.org/uniprot/G7N5H3'>G7N5H3</a> (100% identity on 296 AAs), <a href='http://www.uniprot.org/uniprot/G7PI87'>G7PI87</a> (100% identity on 296 AAs), <a href='http://www.uniprot.org/uniprot/H2NIN2'>H2NIN2</a> (100% identity on 313 AAs), <a href='http://www.uniprot.org/uniprot/H2Q6V8'>H2Q6V8</a> (100% identity on 313 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">PDB:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=1it6'>1it6</a> (100% identity on 293 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=1jk7'>1jk7</a> (100% identity on 294 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=2bcd'>2bcd</a> (100% identity on 293 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=2bdx'>2bdx</a> (100% identity on 293 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=2o8a'>2o8a</a> (100% identity on 295 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=2o8g'>2o8g</a> (100% identity on 295 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=1u32'>1u32</a> (98% identity on 293 AAs)</td></tr></table></td></tr><tr><th id='AutoAnnotatorHeader' colspan="2"><strong>Predictions</strong> (obtained from <a href='http://predictprotein.org'>PredictProtein.org</a>)</th></tr><tr><td class="AutoAnnotatorLocalizationOuter"><strong>Subcellular Localization</strong> (reliability in brackets)<table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Archaea:</td><td class="AutoAnnotatorLocalization3">cytosol (100%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Bacteria:</td><td class="AutoAnnotatorLocalization3">cytosol (90%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Eukarya:</td><td class="AutoAnnotatorLocalization3">cytosol (38%)</td></tr></table></td><td class="AutoAnnotatorGOOuter"><strong>Gene Ontology</strong> (reliability in brackets)<br><table class="AutoAnnotatorNoBorder"><tr><td class='AutoAnnotatorGO1'></td><td class='AutoAnnotatorGO2'>Molecular Function Ontology:</td><td class='AutoAnnotatorGO3'><a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0005515'>GO:0005515</a> (70%), <a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0004722'>GO:0004722</a> (70%)</td></tr><tr><td class='AutoAnnotatorGO1'></td><td class='AutoAnnotatorGO2'>Biological Process Ontology:</td><td class='AutoAnnotatorGO3'><a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0051301'>GO:0051301</a> (28%), <a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0005977'>GO:0005977</a> (27%)</td></tr><tr><td class='AutoAnnotatorGO1'> </td><td class='AutoAnnotatorGO2'> </td><td class='AutoAnnotatorGO3'> </td></tr></table></td></tr><tr><td class="AutoAnnotator1col" colspan="2"><strong>Predicted features:</strong><table class="AutoAnnotatorNoBorder"><tr><td class="AutoAnnotatorPredFeat1"></td><td class="AutoAnnotatorPredFeat2a">Disulfid bridges:</td><td class="AutoAnnotatorPredFeat3"> - </td></tr><tr><td class="AutoAnnotatorPredFeat1"></td><td class="AutoAnnotatorPredFeat2a">Transmembrane helices:</td><td class="AutoAnnotatorPredFeat3">190 to 207 going outwards</td></tr></table></td></tr><tr><td class="AutoAnnotator1col" colspan="2"> The BioBrick-AutoAnnotator was created by <a href="http://2013.igem.org/Team:TU-Munich">TU-Munich 2013</a> iGEM team. For more information please see the <a href="http://2013.igem.org/Team:TU-Munich/Results/Software">documentation</a>.<br>If you have any questions, comments or suggestions, please leave us a <a href="http://2013.igem.org/Team:TU-Munich/Results/AutoAnnotator">comment</a>.</td></tr></table></div><br><!-- IMPORTANT: DON'T REMOVE THIS LINE, OTHERWISE NOT SUPPORTED FOR IE BEFORE 9 --><!--[if lte IE 8]><script language="javascript" type="text/javascript" src="excanvas.min.js"></script><![endif]--><script type='text/javascript' src='http://code.jquery.com/jquery-1.10.0.min.js'></script><script type='text/javascript' src='http://2013.igem.org/Team:TU-Munich/Flot.js?action=raw&ctype=text/js'></script><script>function show_or_hide_plot_1381243989252(){hydrophobicity_datapoints = [[2.5,0.12],[3.5,0.10],[4.5,0.24],[5.5,0.14],[6.5,-0.06],[7.5,-1.22],[8.5,-0.82],[9.5,-0.08],[10.5,0.86],[11.5,2.66],[12.5,3.34],[13.5,3.34],[14.5,3.16],[15.5,2.08],[16.5,2.08],[17.5,1.64],[18.5,1.72],[19.5,2.10],[20.5,2.26],[21.5,0.66],[22.5,1.10],[23.5,-0.44],[24.5,-1.28],[25.5,-1.82],[26.5,-0.76],[27.5,-0.36],[28.5,-0.36],[29.5,-0.42],[30.5,0.14],[31.5,-0.30],[32.5,-1.14],[33.5,-0.60],[34.5,-0.10],[35.5,-0.66],[36.5,0.18],[37.5,-0.44],[38.5,-1.06],[39.5,-0.66],[40.5,-0.66],[41.5,-0.52],[42.5,-0.52],[43.5,0.10],[44.5,0.24],[45.5,1.84],[46.5,0.24],[47.5,0.04],[48.5,0.96],[49.5,0.82],[50.5,-0.78],[51.5,0.76],[52.5,0.76],[53.5,-0.08],[54.5,-1.00],[55.5,-1.08],[56.5,-2.24],[57.5,-1.42],[58.5,-2.12],[59.5,-2.66],[60.5,-1.04],[61.5,-1.42],[62.5,-0.58],[63.5,-0.50],[64.5,-0.50],[65.5,-2.04],[66.5,-2.04],[67.5,-1.90],[68.5,-2.10],[69.5,-1.48],[70.5,-0.02],[71.5,1.18],[72.5,1.04],[73.5,1.16],[74.5,1.08],[75.5,-0.58],[76.5,-1.78],[77.5,-1.64],[78.5,-0.30],[79.5,0.62],[80.5,1.36],[81.5,1.36],[82.5,0.14],[83.5,0.48],[84.5,0.48],[85.5,1.40],[86.5,1.40],[87.5,2.48],[88.5,0.88],[89.5,0.48],[90.5,-0.60],[91.5,0.86],[92.5,-0.68],[93.5,0.92],[94.5,1.06],[95.5,1.30],[96.5,-0.16],[97.5,1.52],[98.5,-0.02],[99.5,-0.60],[100.5,-1.22],[101.5,-0.78],[102.5,-1.94],[103.5,-2.00],[104.5,-1.16],[105.5,0.30],[106.5,-0.34],[107.5,0.68],[108.5,1.94],[109.5,0.48],[110.5,-0.54],[111.5,0.28],[112.5,-0.56],[113.5,-0.56],[114.5,-0.18],[115.5,-0.24],[116.5,-0.86],[117.5,-0.94],[118.5,-2.20],[119.5,-2.14],[120.5,-1.06],[121.5,0.20],[122.5,1.12],[123.5,1.74],[124.5,1.30],[125.5,0.28],[126.5,0.56],[127.5,-0.90],[128.5,-1.72],[129.5,-1.10],[130.5,-1.62],[131.5,-3.16],[132.5,-2.62],[133.5,-0.96],[134.5,-1.58],[135.5,-0.94],[136.5,0.66],[137.5,1.32],[138.5,1.32],[139.5,2.78],[140.5,3.68],[141.5,3.14],[142.5,2.38],[143.5,0.84],[144.5,0.98],[145.5,-0.56],[146.5,-1.18],[147.5,-1.24],[148.5,-1.16],[149.5,-2.76],[150.5,-1.42],[151.5,-0.60],[152.5,0.48],[153.5,1.94],[154.5,1.74],[155.5,1.10],[156.5,-0.16],[157.5,-1.56],[158.5,-3.02],[159.5,-1.62],[160.5,-1.18],[161.5,-0.64],[162.5,0.90],[163.5,0.90],[164.5,-0.50],[165.5,0.04],[166.5,-0.06],[167.5,-1.04],[168.5,0.22],[169.5,0.86],[170.5,-0.74],[171.5,-1.18],[172.5,-0.60],[173.5,-1.94],[174.5,-2.58],[175.5,-2.78],[176.5,-2.34],[177.5,-3.54],[178.5,-1.86],[179.5,-1.74],[180.5,-0.08],[181.5,-0.00],[182.5,-0.08],[183.5,-1.12],[184.5,0.22],[185.5,-0.68],[186.5,-1.20],[187.5,0.08],[188.5,0.78],[189.5,-0.48],[190.5,0.16],[191.5,1.62],[192.5,0.80],[193.5,1.14],[194.5,2.20],[195.5,2.06],[196.5,2.20],[197.5,3.36],[198.5,1.76],[199.5,0.70],[200.5,-0.44],[201.5,-0.44],[202.5,-0.72],[203.5,0.48],[204.5,1.68],[205.5,1.82],[206.5,0.84],[207.5,0.20],[208.5,0.46],[209.5,-0.20],[210.5,0.12],[211.5,-0.50],[212.5,0.34],[213.5,-1.12],[214.5,-1.12],[215.5,-0.42],[216.5,-0.42],[217.5,-1.88],[218.5,-0.28],[219.5,-1.02],[220.5,-2.30],[221.5,-0.70],[222.5,0.38],[223.5,-1.42],[224.5,-0.84],[225.5,-0.08],[226.5,-1.68],[227.5,-1.22],[228.5,-0.64],[229.5,-1.02],[230.5,-1.58],[231.5,-0.96],[232.5,-1.04],[233.5,0.04],[234.5,1.24],[235.5,1.24],[236.5,2.08],[237.5,2.08],[238.5,1.14],[239.5,0.48],[240.5,0.48],[241.5,-0.60],[242.5,-2.06],[243.5,-2.66],[244.5,-3.20],[245.5,-1.66],[246.5,-0.58],[247.5,0.04],[248.5,0.64],[249.5,1.26],[250.5,-0.28],[251.5,-1.74],[252.5,-2.36],[253.5,-3.08],[254.5,-3.08],[255.5,-1.54],[256.5,-1.00],[257.5,0.26],[258.5,1.02],[259.5,1.66],[260.5,0.74],[261.5,1.26],[262.5,-0.00],[263.5,0.98],[264.5,1.26],[265.5,1.70],[266.5,0.56],[267.5,1.82],[268.5,1.74],[269.5,0.26],[270.5,-0.88],[271.5,-0.74],[272.5,-2.00],[273.5,-2.00],[274.5,-2.06],[275.5,-0.52],[276.5,1.02],[277.5,2.22],[278.5,0.56],[279.5,1.62],[280.5,0.22],[281.5,-1.38],[282.5,-1.04],[283.5,0.70],[284.5,-0.36],[285.5,-0.42],[286.5,0.20],[287.5,-0.90],[288.5,-2.44],[289.5,-1.18],[290.5,0.08],[291.5,0.52],[292.5,-0.00],[293.5,-0.20],[294.5,-1.46],[295.5,-1.26],[296.5,-0.78],[297.5,-0.14],[298.5,1.52],[299.5,2.78],[300.5,1.86],[301.5,1.38],[302.5,1.20],[303.5,-0.26],[304.5,-1.08],[305.5,-0.42],[306.5,-0.86],[307.5,-1.24],[308.5,0.02],[309.5,-0.42],[310.5,-1.62],[311.5,-1.18],[312.5,-0.56],[313.5,-0.76],[314.5,0.32],[315.5,1.40],[316.5,0.88],[317.5,1.80],[318.5,0.74],[319.5,-0.34],[320.5,-0.86],[321.5,0.06],[322.5,-0.40],[323.5,0.80],[324.5,1.34],[325.5,2.04],[326.5,0.58],[327.5,1.10],[328.5,1.36],[329.5,0.74],[330.5,-0.14],[331.5,0.92],[332.5,-0.68],[333.5,-2.22],[334.5,-2.22],[335.5,-2.68],[336.5,-3.36],[337.5,-3.36],[338.5,-2.22],[339.5,-1.58],[340.5,-1.70],[341.5,-1.70],[342.5,-0.16],[343.5,-0.66],[344.5,-0.84],[345.5,-0.26],[346.5,-0.84],[347.5,-1.76],[348.5,-1.24],[349.5,-0.02],[350.5,0.16],[351.5,0.28],[352.5,-0.34],[353.5,-0.36],[354.5,-2.04],[355.5,-2.68],[356.5,-2.04],[357.5,-1.42]];charge_datapoints = [[2.5,-0.20],[3.5,-0.20],[4.5,-0.20],[5.5,-0.20],[6.5,0.20],[7.5,0.20],[8.5,0.20],[9.5,0.20],[10.5,0.20],[11.5,0.00],[12.5,0.00],[13.5,0.00],[14.5,0.00],[15.5,0.00],[16.5,0.00],[17.5,0.00],[18.5,0.00],[19.5,0.00],[20.5,0.00],[21.5,0.00],[22.5,0.00],[23.5,-0.20],[24.5,-0.20],[25.5,-0.40],[26.5,-0.40],[27.5,-0.40],[28.5,-0.20],[29.5,-0.20],[30.5,0.00],[31.5,0.00],[32.5,0.00],[33.5,0.00],[34.5,0.00],[35.5,-0.20],[36.5,-0.20],[37.5,-0.40],[38.5,-0.20],[39.5,-0.20],[40.5,0.00],[41.5,0.00],[42.5,0.00],[43.5,-0.20],[44.5,-0.20],[45.5,-0.20],[46.5,-0.20],[47.5,0.20],[48.5,0.20],[49.5,0.20],[50.5,0.00],[51.5,0.00],[52.5,0.00],[53.5,0.00],[54.5,0.00],[55.5,0.40],[56.5,0.40],[57.5,0.20],[58.5,0.40],[59.5,0.40],[60.5,0.20],[61.5,0.20],[62.5,0.20],[63.5,0.00],[64.5,-0.20],[65.5,-0.20],[66.5,-0.40],[67.5,-0.40],[68.5,-0.20],[69.5,0.00],[70.5,0.00],[71.5,0.20],[72.5,0.20],[73.5,0.20],[74.5,0.20],[75.5,0.40],[76.5,0.20],[77.5,0.20],[78.5,0.00],[79.5,0.00],[80.5,-0.20],[81.5,0.00],[82.5,0.00],[83.5,0.00],[84.5,0.00],[85.5,0.00],[86.5,-0.20],[87.5,-0.20],[88.5,-0.40],[89.5,-0.40],[90.5,-0.40],[91.5,-0.20],[92.5,0.00],[93.5,0.20],[94.5,0.20],[95.5,0.20],[96.5,0.00],[97.5,-0.20],[98.5,-0.10],[99.5,-0.10],[100.5,-0.10],[101.5,0.10],[102.5,0.10],[103.5,-0.20],[104.5,-0.20],[105.5,-0.20],[106.5,0.00],[107.5,0.00],[108.5,0.20],[109.5,0.00],[110.5,0.00],[111.5,-0.20],[112.5,-0.20],[113.5,-0.20],[114.5,0.00],[115.5,0.00],[116.5,-0.20],[117.5,-0.20],[118.5,-0.20],[119.5,-0.20],[120.5,-0.20],[121.5,0.00],[122.5,0.00],[123.5,0.00],[124.5,-0.20],[125.5,-0.20],[126.5,-0.20],[127.5,-0.40],[128.5,-0.20],[129.5,0.00],[130.5,0.20],[131.5,0.20],[132.5,0.40],[133.5,0.20],[134.5,0.00],[135.5,-0.20],[136.5,-0.20],[137.5,-0.20],[138.5,-0.20],[139.5,0.00],[140.5,0.00],[141.5,0.00],[142.5,0.00],[143.5,0.20],[144.5,0.20],[145.5,0.40],[146.5,0.40],[147.5,0.40],[148.5,0.00],[149.5,0.00],[150.5,-0.20],[151.5,-0.20],[152.5,-0.20],[153.5,0.00],[154.5,0.20],[155.5,0.20],[156.5,0.20],[157.5,0.30],[158.5,0.10],[159.5,-0.10],[160.5,-0.10],[161.5,-0.10],[162.5,-0.20],[163.5,0.00],[164.5,0.20],[165.5,0.20],[166.5,0.20],[167.5,0.20],[168.5,0.20],[169.5,0.00],[170.5,-0.20],[171.5,-0.40],[172.5,-0.40],[173.5,-0.20],[174.5,0.00],[175.5,0.40],[176.5,0.60],[177.5,0.60],[178.5,0.40],[179.5,0.40],[180.5,0.20],[181.5,0.20],[182.5,0.40],[183.5,0.40],[184.5,0.20],[185.5,0.20],[186.5,0.00],[187.5,-0.20],[188.5,-0.20],[189.5,-0.20],[190.5,-0.20],[191.5,0.00],[192.5,0.00],[193.5,0.00],[194.5,0.00],[195.5,0.00],[196.5,0.00],[197.5,0.00],[198.5,-0.20],[199.5,-0.40],[200.5,-0.20],[201.5,-0.20],[202.5,-0.20],[203.5,0.00],[204.5,0.20],[205.5,0.10],[206.5,0.10],[207.5,0.10],[208.5,0.10],[209.5,0.10],[210.5,0.00],[211.5,-0.20],[212.5,-0.20],[213.5,-0.20],[214.5,-0.20],[215.5,-0.20],[216.5,-0.20],[217.5,-0.20],[218.5,-0.20],[219.5,0.00],[220.5,0.20],[221.5,0.40],[222.5,0.40],[223.5,0.60],[224.5,0.40],[225.5,0.20],[226.5,0.00],[227.5,0.00],[228.5,-0.20],[229.5,-0.40],[230.5,-0.40],[231.5,-0.20],[232.5,-0.20],[233.5,-0.20],[234.5,0.00],[235.5,-0.20],[236.5,-0.20],[237.5,-0.20],[238.5,-0.20],[239.5,-0.20],[240.5,-0.20],[241.5,-0.20],[242.5,-0.40],[243.5,-0.20],[244.5,-0.40],[245.5,-0.20],[246.5,-0.20],[247.5,0.00],[248.5,-0.20],[249.5,0.00],[250.5,-0.20],[251.5,-0.20],[252.5,-0.40],[253.5,-0.20],[254.5,-0.20],[255.5,0.00],[256.5,0.00],[257.5,0.20],[258.5,0.00],[259.5,0.00],[260.5,0.00],[261.5,0.00],[262.5,-0.20],[263.5,-0.20],[264.5,-0.20],[265.5,-0.20],[266.5,0.00],[267.5,0.20],[268.5,0.20],[269.5,0.30],[270.5,0.50],[271.5,0.40],[272.5,0.20],[273.5,0.20],[274.5,-0.10],[275.5,-0.30],[276.5,-0.40],[277.5,-0.20],[278.5,0.00],[279.5,0.20],[280.5,0.30],[281.5,0.30],[282.5,0.30],[283.5,0.10],[284.5,-0.10],[285.5,-0.40],[286.5,-0.40],[287.5,-0.40],[288.5,-0.60],[289.5,-0.40],[290.5,-0.20],[291.5,-0.20],[292.5,-0.00],[293.5,0.40],[294.5,0.40],[295.5,0.40],[296.5,0.40],[297.5,0.20],[298.5,-0.00],[299.5,-0.00],[300.5,-0.00],[301.5,-0.00],[302.5,-0.00],[303.5,-0.00],[304.5,-0.00],[305.5,-0.00],[306.5,-0.00],[307.5,-0.20],[308.5,-0.20],[309.5,-0.40],[310.5,-0.40],[311.5,-0.40],[312.5,-0.20],[313.5,-0.20],[314.5,-0.00],[315.5,-0.00],[316.5,-0.00],[317.5,-0.00],[318.5,-0.20],[319.5,-0.40],[320.5,-0.40],[321.5,-0.40],[322.5,-0.40],[323.5,-0.20],[324.5,-0.00],[325.5,-0.00],[326.5,-0.00],[327.5,-0.00],[328.5,-0.00],[329.5,0.20],[330.5,0.20],[331.5,0.20],[332.5,-0.00],[333.5,0.20],[334.5,0.20],[335.5,0.40],[336.5,0.40],[337.5,0.60],[338.5,0.40],[339.5,0.20],[340.5,0.20],[341.5,0.20],[342.5,0.20],[343.5,0.20],[344.5,0.20],[345.5,-0.00],[346.5,0.20],[347.5,0.20],[348.5,0.20],[349.5,0.20],[350.5,0.20],[351.5,0.20],[352.5,0.20],[353.5,0.20],[354.5,0.40],[355.5,0.60],[356.5,0.40],[357.5,0.40]];dis_datapoints = [];trans_datapoints = [[190,200,'outwards'],[201,207,'outwards']];sec_helix_datapoints = [[9,14],[44,56],[67,82],[103,113],[135,147],[162,169],[172,179],[181,192],[218,224],[264,273],[281,287]];sec_strand_datapoints = [[87,90],[94,98],[121,125],[153,157],[197,200],[203,208],[236,240],[259,261],[279,280],[290,293],[298,303],[315,320],[326,331]];acc_exposed_datapoints = [[1,6],[8,11],[14,14],[17,21],[23,29],[31,32],[34,34],[36,38],[40,41],[45,46],[49,49],[53,53],[56,62],[64,64],[66,68],[72,72],[75,75],[79,79],[82,83],[85,85],[91,91],[93,93],[112,112],[114,115],[117,119],[133,133],[148,148],[150,151],[173,173],[177,178],[180,180],[182,182],[185,185],[189,189],[192,192],[201,201],[214,214],[216,216],[219,219],[222,223],[226,229],[232,233],[245,247],[249,250],[253,253],[255,255],[265,265],[269,269],[272,273],[275,275],[277,277],[287,288],[291,291],[295,296],[322,323],[325,325],[335,340],[342,342],[344,344],[348,350],[353,360]];acc_buried_datapoints = [[15,15],[44,44],[47,48],[51,52],[65,65],[70,70],[73,74],[77,77],[81,81],[87,88],[90,90],[92,92],[94,94],[96,105],[107,108],[110,111],[122,130],[132,132],[135,145],[147,147],[153,162],[165,166],[168,171],[175,175],[179,179],[183,184],[187,188],[190,191],[194,200],[204,212],[215,215],[218,218],[221,221],[224,224],[235,242],[257,263],[266,267],[270,271],[276,276],[278,283],[285,286],[289,290],[293,293],[298,308],[311,311],[313,318],[320,320],[324,324],[326,326],[328,328],[330,331]];flot_plot_options = []; flot_plot_options[0] = {grid: {borderWidth: {top: 0,right: 0,bottom: 0,left: 0}},legend: {show: false},xaxes: [{show: true,min: 0,max: 200,ticks: [[0.5, '1'], [24.5, '25'], [49.5, '50'], [74.5, '75'], [99.5, '100'], [124.5, '125'], [149.5, '150'], [174.5, '175'], [199.5, '200']],tickLength: -5}],yaxes: [{show: true,ticks: [[0, '0'], [4.5,'hydro-<br>phobic '], [-4.5,'hydro-<br>philic ']],min: -4.5,max: +4.5,font: {size: 12,lineHeight: 14,style: 'italic',weight: 'bold',family: 'sans-serif',variant: 'small-caps',color: 'rgba(100,149,237,1)'}},{show: true,ticks: [[0, ''], [1,'positive<br> charge'], [-1,'negative<br> charge']],position: 'right',min: -1,max: 1,font: {size: 12,lineHeight: 14,style: 'italic',weight: 'bold',family: 'sans-serif',variant: 'small-caps',color: 'rgba(255,99,71,1)'}}]};number_of_plots = 2;for ( plot_num = 1 ; plot_num < number_of_plots ; plot_num ++){flot_plot_options[plot_num] = $.extend(true, {} ,flot_plot_options[0]);flot_plot_options[plot_num].xaxes = [{min: plot_num*200,max: (plot_num + 1)*200,ticks: [ [plot_num*200 + 0.5, (plot_num*200 + 1).toString()], [plot_num*200 + 24.5, (plot_num*200 + 25).toString()], [plot_num*200 + 49.5, (plot_num*200 + 50).toString()], [plot_num*200 + 74.5, (plot_num*200 + 75).toString()], [plot_num*200 + 99.5, (plot_num*200 + 100).toString()], [plot_num*200 + 124.5, (plot_num*200 + 125).toString()], [plot_num*200 + 149.5, (plot_num*200 + 150).toString()], [plot_num*200 + 174.5, (plot_num*200 + 175).toString()], [plot_num*200 + 199.5, (plot_num*200 + 200).toString()] ],tickLength: -5}];};try {if( $('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_button').val() =='Show' ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_container').css('display','block');$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_button').val('Hide');var description_html = '<div id=\'AutoAnnotator_plot_selectors\'>';description_html = description_html + '<br> <input type=\'checkbox\' id=\'hydrophobicity_checkbox\' checked=\'checked\'> Moving average over 5 amino acids for hydrophobicity (<img src=\'https://static.igem.org/mediawiki/2013/e/e9/TUM13_hydrophobicity_icon.png\' alt=\'blue graph\' height=\'10\'></img>)';description_html = description_html + '<br> <input type=\'checkbox\' id=\'charge_checkbox\' checked=\'checked\'> Moving average over 5 amino acids for charge (<img src=\'https://static.igem.org/mediawiki/2013/3/3e/TUM13_charge_icon.png\' alt=\'red graph\' height=\'10\'></img>)';description_html = description_html + '<br> <input type=\'checkbox\' id=\'dis_checkbox\' checked=\'checked\'> Predicted disulfid bridges (<img src=\'https://static.igem.org/mediawiki/2013/2/28/TUM13_dis_icon.png\' alt=\'yellow circle\' height=\'10\'></img>) with the number of the bridge in the center';description_html = description_html + '<br> <input type=\'checkbox\' id=\'trans_checkbox\' checked=\'checked\'> Predicted transmembrane helices (<img src=\'https://static.igem.org/mediawiki/2013/7/78/TUM13_trans_icon.png\' alt=\'turquois bars\' height=\'10\'></img>)';description_html = description_html + '<br> <input type=\'checkbox\' id=\'sec_checkbox\' checked=\'checked\'> Predicted secondary structure: Helices (<img src=\'https://static.igem.org/mediawiki/2013/b/bf/TUM13_helix_icon.png\' alt=\'violet bars\' height=\'10\'></img>) and beta-strands (<img src=\'https://static.igem.org/mediawiki/2013/b/bf/TUM13_strand_icon.png\' alt=\'yellow bars\' height=\'10\'></img>)';description_html = description_html + '<br> <input type=\'checkbox\' id=\'acc_checkbox\' checked=\'checked\'> Predicted solvent accessability: Exposed (<img src=\'https://static.igem.org/mediawiki/2013/1/16/TUM13_exposed_icon.png\' alt=\'blue bars\' height=\'10\'></img>) and buried (<img src=\'https://static.igem.org/mediawiki/2013/0/0b/TUM13_buried_icon.png\' alt=\'green bars\' height=\'10\'></img>) residues';description_html = description_html + '<br></div>';$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_explanation').html(description_html);plot_according_to_selectors_1381243989252();$('#AutoAnnotator_container_1381243989252 #AutoAnnotator_plot_selectors').find('input').click(plot_according_to_selectors_1381243989252);}else{$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_container').css('display','none');$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_button').val('Show');$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_explanation').html('');}}catch(err){txt='There was an error with the button controlling the visibility of the plot.\n';txt=txt+'The originating error is:\n' + err + '\n\n';alert(txt);}};function plot_according_to_selectors_1381243989252(){try{var plot_datasets = [[],[]];if($('#AutoAnnotator_container_1381243989252 #hydrophobicity_checkbox').prop('checked') == true){plot_datasets[0] = { color: 'rgba(100,149,237,1)',data: hydrophobicity_datapoints,label: 'Hydrophobicity',lines: { show: true, fill: true, fillColor: 'rgba(100,149,237,0.1)' },yaxis: 1};}if($('#AutoAnnotator_container_1381243989252 #charge_checkbox').prop('checked') == true){plot_datasets[1] = {color: 'rgba(255,99,71,1)',data: charge_datapoints,label: 'Charge',lines: { show: true, fill: true, fillColor: 'rgba(255,99,71,0.1)' },yaxis: 2};}for (plot_num = 0 ; plot_num < number_of_plots ; plot_num ++){$.plot('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder'+ plot_num.toString(), plot_datasets, flot_plot_options[plot_num] );}var screen_width = $('canvas.flot-base').width(); var pos_of_first_tick = 46;var pos_of_last_tick = screen_width - 51;var tick_diff = (screen_width - 97)/199;if($('#AutoAnnotator_container_1381243989252 #dis_checkbox').prop('checked') == true){for ( j = 0 ; j < dis_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((dis_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_dis\' style=\'left:' + ((pos_of_first_tick - 8 + (dis_datapoints[j][0] - 1)*tick_diff - Math.floor((dis_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px;\'><b>' + (j+1) + '</b></div>');$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((dis_datapoints[j][1] - 1)/200) ).append('<div class=\'AutoAnnotator_dis\' style=\'left:' + ((pos_of_first_tick - 8 + (dis_datapoints[j][1] - 1)*tick_diff - Math.floor((dis_datapoints[j][1] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px;\'><b>' + (j+1) + '</b></div>');}}if($('#AutoAnnotator_container_1381243989252 #trans_checkbox').prop('checked') == true){for ( j = 0 ; j < trans_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((trans_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_trans\' style=\'width:' + (((trans_datapoints[j][1] - trans_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px ;left:' + ((pos_of_first_tick + (trans_datapoints[j][0] - 1.5)*tick_diff - Math.floor((trans_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}}if($('#AutoAnnotator_container_1381243989252 #sec_checkbox').prop('checked') == true){for ( j = 0 ; j < sec_helix_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((sec_helix_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_sec_helix\' style=\'width:' + (((sec_helix_datapoints[j][1] - sec_helix_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (sec_helix_datapoints[j][0] - 1.5)*tick_diff - Math.floor((sec_helix_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}for ( j = 0 ; j < sec_strand_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((sec_strand_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_sec_strand\' style=\'width:' + (((sec_strand_datapoints[j][1] - sec_strand_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (sec_strand_datapoints[j][0] - 1.5)*tick_diff - Math.floor((sec_strand_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}}if($('#AutoAnnotator_container_1381243989252 #acc_checkbox').prop('checked') == true){for ( j = 0 ; j < acc_buried_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((acc_buried_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_acc_buried\' style=\'width:' + (((acc_buried_datapoints[j][1] - acc_buried_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (acc_buried_datapoints[j][0] - 1.5)*tick_diff - Math.floor((acc_buried_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}for ( j = 0 ; j < acc_exposed_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381243989252 #hydrophobicity_charge_placeholder' + Math.floor((acc_exposed_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_acc_exposed\' style=\'width:' + (((acc_exposed_datapoints[j][1] - acc_exposed_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (acc_exposed_datapoints[j][0] - 1.5)*tick_diff - Math.floor((acc_exposed_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}}}catch(err){txt='There was an error while drawing the selected elements for the plot.\n';txt=txt+'The originating error is:\n' + err + '\n\n';throw(txt);}}</script></html> | |
<!-- Uncomment this to enable Functional Parameter display | <!-- Uncomment this to enable Functional Parameter display | ||
Latest revision as of 14:54, 8 October 2013
Secretory Human Protein Phosphatase 1 (SERK-SigP_PP1) in RFC[25] N-Part
This part encodes for the Human protein phosphatase 1, which binds the toxic oligopeptide produces by gree-blue algae, with a N-terminal signal peptdie for secretion (signal peptide from SERK Receptor of Physcomitrella patens). This construct is flanked by RFC[25] N-part prefix and suffix. Note: This means only protein fusions to the C-terminus of this part is possible, adding promoters (typically RFC[10]) into the prefix or terminators/IRES (typically RFC[10]) into the suffix of this part is nevertheless possible.
Sequence and Features
Assembly Compatibility:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal BglII site found at 643
Illegal BamHI site found at 107 - 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 1030
| Protein data table for BioBrick BBa_ automatically created by the BioBrick-AutoAnnotator version 1.0 | ||||||||||||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Nucleotide sequence in RFC 25 N-Part using the stop codon in the suffix, so ACCGGT was added (in italics) to the 3' end: (underlined part encodes the protein) AACAATGCCTGGT ... GCAAAGAAAACCGGT ORF from nucleotide position 5 to 1084 (excluding stop-codon) | ||||||||||||||||||||||||||||||||||||||||||||||
Amino acid sequence: (RFC 25 scars in shown in bold, other sequence features underlined; both given below)
| ||||||||||||||||||||||||||||||||||||||||||||||
Sequence features: (with their position in the amino acid sequence, see the list of supported features)
| ||||||||||||||||||||||||||||||||||||||||||||||
Amino acid composition:
| ||||||||||||||||||||||||||||||||||||||||||||||
Amino acid counting
| Biochemical parameters
| |||||||||||||||||||||||||||||||||||||||||||||
| Plot for hydrophobicity, charge, predicted secondary structure, solvent accessability, transmembrane helices and disulfid bridges | ||||||||||||||||||||||||||||||||||||||||||||||
Codon usage
| ||||||||||||||||||||||||||||||||||||||||||||||
Alignments (obtained from PredictProtein.org)
| ||||||||||||||||||||||||||||||||||||||||||||||
| Predictions (obtained from PredictProtein.org) | ||||||||||||||||||||||||||||||||||||||||||||||
Subcellular Localization (reliability in brackets)
| Gene Ontology (reliability in brackets)
| |||||||||||||||||||||||||||||||||||||||||||||
Predicted features:
| ||||||||||||||||||||||||||||||||||||||||||||||
| The BioBrick-AutoAnnotator was created by TU-Munich 2013 iGEM team. For more information please see the documentation. If you have any questions, comments or suggestions, please leave us a comment. | ||||||||||||||||||||||||||||||||||||||||||||||