Difference between revisions of "Part:BBa K1159316"
m |
|||
| Line 1: | Line 1: | ||
| − | |||
__NOTOC__ | __NOTOC__ | ||
<partinfo>BBa_K1159316 short</partinfo> | <partinfo>BBa_K1159316 short</partinfo> | ||
| Line 13: | Line 12: | ||
<span class='h3bb'>Sequence and Features</span> | <span class='h3bb'>Sequence and Features</span> | ||
<partinfo>BBa_K1159316 SequenceAndFeatures</partinfo> | <partinfo>BBa_K1159316 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_1381266209685'><table id="AutoAnnotator"><tr><!-- Time stamp in ms since 1/1/1970 1381266209685 --><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</strong>, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein)<br><span class="AutoAnnotatorSequence"> <u><i>ATGGCCGGC</i>AGCGCTTGG ... CTCTACAAA<i>ACCGGT</i></u></span><br> <strong>ORF</strong> from nucleotide position -8 to 1002 (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">MAGSA<u>WSHPQFEK</u>G<u>ENLYFQS</u>G<b>TG</b>PGQPPFPPPPPFTPPPPQTPNGASGENSTGAIAGGVAAGAALLFAAPAIGFAWWRRRRPIEA<b>TG</b>GGSGGGSG<b>TG</b>SK<br>GEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDD<br>GNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLSPDNHYLST<br>QSALSKDPNEKRDHMVLLEFVTAAGITHGMDELYKTG*</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"><i>Strep</i>-tag II: </td><td class="AutoAnnotatorSeqFeat3">6 to 13</td></tr><tr><td class="AutoAnnotatorSeqFeat1"></td><td class="AutoAnnotatorSeqFeat2a">TEV cleavage site: </td><td class="AutoAnnotatorSeqFeat3">15 to 21</td></tr><tr><td class="AutoAnnotatorSeqFeat1"></td><td class="AutoAnnotatorSeqFeat2a">RFC25 scar (shown in bold): </td><td class="AutoAnnotatorSeqFeat3">23 to 24, 87 to 88, 97 to 98</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">22 (6.5%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Arg (R)</td><td class="AutoAnnotatorInnerAmino">10 (3.0%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asn (N)</td><td class="AutoAnnotatorInnerAmino">16 (4.7%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asp (D)</td><td class="AutoAnnotatorInnerAmino">18 (5.3%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Cys (C)</td><td class="AutoAnnotatorInnerAmino">2 (0.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gln (Q)</td><td class="AutoAnnotatorInnerAmino">12 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Glu (E)</td><td class="AutoAnnotatorInnerAmino">20 (5.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gly (G)</td><td class="AutoAnnotatorInnerAmino">43 (12.8%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">His (H)</td><td class="AutoAnnotatorInnerAmino">11 (3.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ile (I)</td><td class="AutoAnnotatorInnerAmino">15 (4.5%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Leu (L)</td><td class="AutoAnnotatorInnerAmino">22 (6.5%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Lys (K)</td><td class="AutoAnnotatorInnerAmino">21 (6.2%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Met (M)</td><td class="AutoAnnotatorInnerAmino">6 (1.8%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Phe (F)</td><td class="AutoAnnotatorInnerAmino">18 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Pro (P)</td><td class="AutoAnnotatorInnerAmino">26 (7.7%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ser (S)</td><td class="AutoAnnotatorInnerAmino">18 (5.3%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Thr (T)</td><td class="AutoAnnotatorInnerAmino">23 (6.8%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Trp (W)</td><td class="AutoAnnotatorInnerAmino">4 (1.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Tyr (Y)</td><td class="AutoAnnotatorInnerAmino">12 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Val (V)</td><td class="AutoAnnotatorInnerAmino">18 (5.3%)</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">337</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Positively charged (Arg+Lys):</td><td class="AutoAnnotatorAminoCountingInner3">31 (9.2%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Negatively charged (Asp+Glu):</td><td class="AutoAnnotatorAminoCountingInner3">38 (11.3%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Aromatic (Phe+His+Try+Tyr):</td><td class="AutoAnnotatorAminoCountingInner3">45 (13.4%)</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>1638</sub>H<sub>2488</sub>N<sub>442</sub>O<sub>495</sub>S<sub>8</sub></td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Molecular mass [Da]:</td><td class="AutoAnnotatorBiochemParInner3">36548.9</td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Theoretical pI:</td><td class="AutoAnnotatorBiochemParInner3">5.88</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">39880 / 40005 (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_1381266209685()' 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 (0.73)</td><td class="AutoAnnotatorCodonUsage3">good (0.75)</td><td class="AutoAnnotatorCodonUsage3">good (0.76)</td><td class="AutoAnnotatorCodonUsage3">excellent (0.84)</td><td class="AutoAnnotatorCodonUsage3">excellent (0.81)</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/P42212'>P42212</a> (98% identity on 237 AAs), <a href='http://www.uniprot.org/uniprot/Q9U6Y3'>Q9U6Y3</a> (25% identity on 217 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">TrEML:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.uniprot.org/uniprot/B6UPG7'>B6UPG7</a> (98% identity on 237 AAs), <a href='http://www.uniprot.org/uniprot/Q71RY9'>Q71RY9</a> (98% identity on 237 AAs), <a href='http://www.uniprot.org/uniprot/Q8GHE2'>Q8GHE2</a> (98% identity on 237 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=1emm'>1emm</a> (97% identity on 221 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=1gfl'>1gfl</a> (97% identity on 230 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">secreted (100%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Bacteria:</td><td class="AutoAnnotatorLocalization3">secreted (77%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Eukarya:</td><td class="AutoAnnotatorLocalization3">cytosol (47%)</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'> - </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:0018298'>GO:0018298</a> (44%), <a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0008218'>GO:0008218</a> (31%)</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">57 to 74 going inwards</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_1381266209685(){hydrophobicity_datapoints = [[2.5,0.86],[3.5,0.30],[4.5,-0.22],[5.5,-0.78],[6.5,-0.94],[7.5,-2.00],[8.5,-1.26],[9.5,-1.80],[10.5,-1.94],[11.5,-1.70],[12.5,-1.70],[13.5,-2.96],[14.5,-1.50],[15.5,-0.98],[16.5,-0.34],[17.5,-0.34],[18.5,0.20],[19.5,-0.64],[20.5,-0.52],[21.5,-1.16],[22.5,-0.78],[23.5,-0.70],[24.5,-1.32],[25.5,-1.50],[26.5,-1.74],[27.5,-0.86],[28.5,-1.10],[29.5,-0.72],[30.5,-0.72],[31.5,-0.72],[32.5,-1.60],[33.5,-0.72],[34.5,-0.54],[35.5,-0.54],[36.5,-0.54],[37.5,-0.54],[38.5,-1.42],[39.5,-1.98],[40.5,-1.80],[41.5,-1.80],[42.5,-2.18],[43.5,-1.94],[44.5,-0.88],[45.5,-0.90],[46.5,-0.66],[47.5,-0.66],[48.5,-1.28],[49.5,-1.80],[50.5,-1.78],[51.5,-1.78],[52.5,-0.72],[53.5,0.88],[54.5,1.40],[55.5,1.46],[56.5,1.46],[57.5,1.94],[58.5,1.40],[59.5,1.40],[60.5,1.40],[61.5,1.84],[62.5,1.36],[63.5,1.76],[64.5,2.16],[65.5,2.80],[66.5,2.80],[67.5,2.80],[68.5,1.72],[69.5,1.32],[70.5,1.66],[71.5,1.22],[72.5,1.42],[73.5,2.10],[74.5,1.56],[75.5,0.48],[76.5,-0.34],[77.5,-1.80],[78.5,-3.06],[79.5,-3.78],[80.5,-3.92],[81.5,-2.12],[82.5,-1.92],[83.5,-0.66],[84.5,0.10],[85.5,0.34],[86.5,-0.64],[87.5,-0.02],[88.5,-0.54],[89.5,-0.48],[90.5,-0.48],[91.5,-0.48],[92.5,-0.56],[93.5,-0.48],[94.5,-0.54],[95.5,-0.54],[96.5,-0.62],[97.5,-1.24],[98.5,-1.24],[99.5,-1.80],[100.5,-2.42],[101.5,-1.50],[102.5,-0.16],[103.5,-0.22],[104.5,0.40],[105.5,1.94],[106.5,2.02],[107.5,1.14],[108.5,2.18],[109.5,3.02],[110.5,3.02],[111.5,1.48],[112.5,2.56],[113.5,0.96],[114.5,0.12],[115.5,-1.42],[116.5,0.12],[117.5,-1.34],[118.5,-0.72],[119.5,-1.28],[120.5,-1.36],[121.5,-1.64],[122.5,-1.10],[123.5,-0.18],[124.5,0.30],[125.5,1.00],[126.5,-0.26],[127.5,-0.18],[128.5,-1.72],[129.5,-1.64],[130.5,-2.26],[131.5,-1.20],[132.5,-1.26],[133.5,-0.82],[134.5,-0.82],[135.5,-0.90],[136.5,-0.50],[137.5,-0.50],[138.5,0.52],[139.5,-0.18],[140.5,1.16],[141.5,1.30],[142.5,1.94],[143.5,1.04],[144.5,1.68],[145.5,1.04],[146.5,-0.64],[147.5,-0.38],[148.5,-0.56],[149.5,0.42],[150.5,0.18],[151.5,0.78],[152.5,-0.30],[153.5,-0.12],[154.5,-0.20],[155.5,0.96],[156.5,1.00],[157.5,1.18],[158.5,2.08],[159.5,1.18],[160.5,0.08],[161.5,0.14],[162.5,1.12],[163.5,-0.34],[164.5,0.30],[165.5,1.12],[166.5,1.04],[167.5,-0.70],[168.5,-0.26],[169.5,-1.08],[170.5,-2.34],[171.5,-2.82],[172.5,-1.54],[173.5,-2.06],[174.5,-2.44],[175.5,-2.38],[176.5,-2.44],[177.5,-2.26],[178.5,-0.92],[179.5,-1.00],[180.5,-0.52],[181.5,0.54],[182.5,0.36],[183.5,-0.52],[184.5,-0.44],[185.5,-0.36],[186.5,-0.98],[187.5,-0.52],[188.5,-0.90],[189.5,-0.90],[190.5,-1.72],[191.5,-1.60],[192.5,-1.54],[193.5,-0.28],[194.5,0.98],[195.5,1.10],[196.5,0.54],[197.5,-1.06],[198.5,-1.70],[199.5,-2.96],[200.5,-2.44],[201.5,-2.52],[202.5,-1.96],[203.5,-2.78],[204.5,-1.72],[205.5,-2.16],[206.5,-0.54],[207.5,-1.18],[208.5,0.28],[209.5,-0.78],[210.5,-0.16],[211.5,-1.70],[212.5,-1.06],[213.5,-0.86],[214.5,0.68],[215.5,0.06],[216.5,-0.14],[217.5,0.90],[218.5,-0.56],[219.5,-0.64],[220.5,-0.72],[221.5,0.10],[222.5,0.10],[223.5,0.10],[224.5,-0.10],[225.5,-0.10],[226.5,-0.72],[227.5,-2.32],[228.5,-1.70],[229.5,-2.96],[230.5,-1.28],[231.5,0.18],[232.5,0.80],[233.5,0.24],[234.5,0.16],[235.5,0.02],[236.5,-1.44],[237.5,-1.62],[238.5,-1.68],[239.5,-1.16],[240.5,-2.62],[241.5,-2.08],[242.5,-2.46],[243.5,-2.46],[244.5,-1.36],[245.5,-0.92],[246.5,0.14],[247.5,1.16],[248.5,2.22],[249.5,0.68],[250.5,0.16],[251.5,-1.44],[252.5,-2.60],[253.5,-3.66],[254.5,-3.04],[255.5,-1.36],[256.5,-1.44],[257.5,0.18],[258.5,0.18],[259.5,0.82],[260.5,-0.86],[261.5,0.82],[262.5,-0.92],[263.5,-0.86],[264.5,-2.12],[265.5,-0.44],[266.5,-2.04],[267.5,-1.84],[268.5,-1.28],[269.5,-0.74],[270.5,-0.80],[271.5,-0.80],[272.5,0.66],[273.5,1.10],[274.5,0.56],[275.5,-0.92],[276.5,-0.48],[277.5,-1.94],[278.5,-3.00],[279.5,-3.00],[280.5,-2.50],[281.5,-2.56],[282.5,-0.96],[283.5,-0.34],[284.5,-0.34],[285.5,-0.28],[286.5,-0.28],[287.5,-0.34],[288.5,0.50],[289.5,1.04],[290.5,0.80],[291.5,0.42],[292.5,-1.12],[293.5,-2.52],[294.5,-2.62],[295.5,-1.54],[296.5,-1.00],[297.5,-0.44],[298.5,-0.50],[299.5,-0.40],[300.5,-0.80],[301.5,0.12],[302.5,0.10],[303.5,0.02],[304.5,-0.52],[305.5,-1.20],[306.5,-2.66],[307.5,-3.20],[308.5,-3.20],[309.5,-3.40],[310.5,-3.78],[311.5,-3.72],[312.5,-2.64],[313.5,-1.02],[314.5,0.64],[315.5,2.10],[316.5,2.04],[317.5,2.22],[318.5,2.22],[319.5,1.32],[320.5,0.92],[321.5,1.98],[322.5,1.34],[323.5,1.40],[324.5,1.40],[325.5,0.40],[326.5,-0.04],[327.5,0.42],[328.5,-1.18],[329.5,-1.74],[330.5,-0.34],[331.5,-0.52],[332.5,-1.68],[333.5,-1.12],[334.5,-0.50]];charge_datapoints = [[2.5,0.00],[3.5,0.00],[4.5,0.00],[5.5,0.10],[6.5,0.10],[7.5,0.10],[8.5,0.10],[9.5,-0.10],[10.5,0.00],[11.5,0.00],[12.5,-0.20],[13.5,-0.20],[14.5,0.00],[15.5,-0.20],[16.5,-0.20],[17.5,0.00],[18.5,0.00],[19.5,0.00],[20.5,0.00],[21.5,0.00],[22.5,0.00],[23.5,0.00],[24.5,0.00],[25.5,0.00],[26.5,0.00],[27.5,0.00],[28.5,0.00],[29.5,0.00],[30.5,0.00],[31.5,0.00],[32.5,0.00],[33.5,0.00],[34.5,0.00],[35.5,0.00],[36.5,0.00],[37.5,0.00],[38.5,0.00],[39.5,0.00],[40.5,0.00],[41.5,0.00],[42.5,0.00],[43.5,0.00],[44.5,0.00],[45.5,0.00],[46.5,0.00],[47.5,-0.20],[48.5,-0.20],[49.5,-0.20],[50.5,-0.20],[51.5,-0.20],[52.5,0.00],[53.5,0.00],[54.5,0.00],[55.5,0.00],[56.5,0.00],[57.5,0.00],[58.5,0.00],[59.5,0.00],[60.5,0.00],[61.5,0.00],[62.5,0.00],[63.5,0.00],[64.5,0.00],[65.5,0.00],[66.5,0.00],[67.5,0.00],[68.5,0.00],[69.5,0.00],[70.5,0.00],[71.5,0.00],[72.5,0.00],[73.5,0.00],[74.5,0.00],[75.5,0.00],[76.5,0.20],[77.5,0.40],[78.5,0.60],[79.5,0.80],[80.5,0.80],[81.5,0.60],[82.5,0.20],[83.5,0.00],[84.5,-0.20],[85.5,-0.20],[86.5,-0.20],[87.5,0.00],[88.5,0.00],[89.5,0.00],[90.5,0.00],[91.5,0.00],[92.5,0.00],[93.5,0.00],[94.5,0.00],[95.5,0.00],[96.5,0.00],[97.5,0.20],[98.5,0.20],[99.5,0.00],[100.5,-0.20],[101.5,-0.20],[102.5,-0.40],[103.5,-0.40],[104.5,-0.20],[105.5,0.00],[106.5,0.00],[107.5,0.00],[108.5,0.00],[109.5,0.00],[110.5,0.00],[111.5,-0.20],[112.5,-0.20],[113.5,-0.40],[114.5,-0.40],[115.5,-0.60],[116.5,-0.40],[117.5,-0.40],[118.5,-0.20],[119.5,-0.10],[120.5,0.30],[121.5,0.30],[122.5,0.30],[123.5,0.30],[124.5,0.20],[125.5,0.00],[126.5,-0.20],[127.5,-0.20],[128.5,-0.40],[129.5,-0.40],[130.5,-0.60],[131.5,-0.40],[132.5,-0.40],[133.5,-0.20],[134.5,-0.20],[135.5,0.20],[136.5,0.20],[137.5,0.20],[138.5,0.20],[139.5,0.40],[140.5,0.20],[141.5,0.20],[142.5,0.20],[143.5,0.20],[144.5,-0.00],[145.5,-0.00],[146.5,0.20],[147.5,0.20],[148.5,0.20],[149.5,0.20],[150.5,0.20],[151.5,-0.00],[152.5,-0.00],[153.5,-0.00],[154.5,-0.00],[155.5,-0.00],[156.5,-0.00],[157.5,-0.00],[158.5,-0.00],[159.5,-0.00],[160.5,-0.00],[161.5,-0.00],[162.5,-0.00],[163.5,-0.00],[164.5,-0.00],[165.5,-0.00],[166.5,-0.00],[167.5,0.20],[168.5,0.20],[169.5,0.20],[170.5,-0.00],[171.5,0.10],[172.5,-0.10],[173.5,0.10],[174.5,0.10],[175.5,0.40],[176.5,0.10],[177.5,0.10],[178.5,-0.10],[179.5,0.10],[180.5,-0.00],[181.5,0.20],[182.5,0.20],[183.5,0.20],[184.5,-0.20],[185.5,-0.20],[186.5,-0.20],[187.5,-0.20],[188.5,-0.20],[189.5,-0.20],[190.5,-0.00],[191.5,-0.00],[192.5,-0.00],[193.5,-0.00],[194.5,0.20],[195.5,0.20],[196.5,-0.00],[197.5,-0.20],[198.5,-0.20],[199.5,-0.20],[200.5,-0.40],[201.5,-0.00],[202.5,0.20],[203.5,0.40],[204.5,0.40],[205.5,0.20],[206.5,-0.00],[207.5,0.20],[208.5,-0.00],[209.5,-0.20],[210.5,-0.00],[211.5,-0.20],[212.5,-0.40],[213.5,-0.40],[214.5,-0.20],[215.5,-0.20],[216.5,0.20],[217.5,0.20],[218.5,-0.00],[219.5,-0.00],[220.5,0.20],[221.5,-0.00],[222.5,-0.00],[223.5,-0.00],[224.5,-0.00],[225.5,-0.00],[226.5,-0.20],[227.5,-0.40],[228.5,-0.20],[229.5,-0.20],[230.5,-0.40],[231.5,-0.20],[232.5,-0.00],[233.5,0.10],[234.5,0.30],[235.5,0.30],[236.5,0.10],[237.5,0.10],[238.5,-0.00],[239.5,-0.20],[240.5,-0.20],[241.5,-0.00],[242.5,0.10],[243.5,0.10],[244.5,0.10],[245.5,0.10],[246.5,0.10],[247.5,-0.00],[248.5,-0.00],[249.5,-0.20],[250.5,-0.00],[251.5,-0.00],[252.5,0.20],[253.5,0.20],[254.5,0.40],[255.5,0.20],[256.5,0.40],[257.5,0.20],[258.5,0.20],[259.5,0.20],[260.5,0.40],[261.5,0.20],[262.5,0.40],[263.5,0.50],[264.5,0.50],[265.5,0.30],[266.5,0.10],[267.5,-0.30],[268.5,-0.40],[269.5,-0.40],[270.5,-0.40],[271.5,-0.20],[272.5,-0.00],[273.5,-0.00],[274.5,-0.20],[275.5,-0.10],[276.5,-0.10],[277.5,-0.10],[278.5,-0.10],[279.5,0.10],[280.5,-0.00],[281.5,-0.00],[282.5,-0.00],[283.5,-0.00],[284.5,-0.20],[285.5,-0.20],[286.5,-0.20],[287.5,-0.20],[288.5,-0.20],[289.5,-0.00],[290.5,-0.00],[291.5,-0.20],[292.5,-0.20],[293.5,-0.10],[294.5,-0.10],[295.5,-0.10],[296.5,0.10],[297.5,0.10],[298.5,-0.00],[299.5,-0.00],[300.5,-0.00],[301.5,-0.00],[302.5,-0.00],[303.5,0.20],[304.5,-0.00],[305.5,-0.00],[306.5,-0.00],[307.5,-0.20],[308.5,-0.20],[309.5,0.20],[310.5,-0.00],[311.5,0.10],[312.5,0.30],[313.5,0.10],[314.5,-0.10],[315.5,0.10],[316.5,-0.20],[317.5,-0.20],[318.5,-0.20],[319.5,-0.20],[320.5,-0.20],[321.5,-0.00],[322.5,-0.00],[323.5,-0.00],[324.5,-0.00],[325.5,0.10],[326.5,0.10],[327.5,0.10],[328.5,-0.10],[329.5,-0.30],[330.5,-0.40],[331.5,-0.40],[332.5,-0.20],[333.5,-0.00],[334.5,0.20]];dis_datapoints = [];trans_datapoints = [[57,74,'inwards']];sec_helix_datapoints = [[60,72],[154,162],[181,183],[331,334]];sec_strand_datapoints = [[18,19],[54,59],[73,80],[87,88],[103,119],[123,128],[137,145],[166,168],[191,198],[202,212],[215,224],[236,237],[245,251],[257,268],[273,280],[296,305],[314,322]];acc_exposed_datapoints = [[1,2],[13,13],[15,16],[21,21],[23,23],[25,26],[29,29],[31,31],[34,35],[37,39],[41,42],[44,51],[83,83],[91,94],[96,97],[100,100],[102,103],[116,116],[118,118],[120,120],[123,123],[129,129],[131,131],[133,133],[136,136],[138,138],[147,147],[149,149],[170,170],[173,173],[176,176],[179,179],[182,182],[187,187],[212,213],[226,226],[229,230],[237,237],[239,239],[241,241],[253,256],[269,270],[272,272],[282,283],[286,289],[291,291],[294,294],[306,313],[327,327],[329,329],[331,332],[335,337]];acc_buried_datapoints = [[3,3],[5,5],[9,9],[11,11],[14,14],[17,17],[19,19],[53,78],[87,88],[98,99],[101,101],[105,105],[109,109],[111,111],[113,113],[115,115],[117,117],[119,119],[124,124],[126,126],[128,128],[130,130],[132,132],[134,134],[137,137],[139,139],[141,141],[143,143],[145,145],[150,162],[164,165],[167,169],[171,172],[175,175],[180,181],[184,185],[188,190],[194,195],[197,197],[201,203],[205,205],[207,207],[209,209],[211,211],[215,216],[218,218],[220,220],[222,222],[224,225],[227,227],[231,231],[233,234],[245,245],[247,247],[249,249],[258,258],[260,260],[262,262],[264,266],[268,268],[273,276],[278,278],[290,290],[292,293],[295,298],[300,300],[302,302],[304,304],[315,315],[317,317],[319,321],[323,323],[330,330],[333,333]];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( $('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_button').val() =='Show' ){$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_container').css('display','block');$('#AutoAnnotator_container_1381266209685 #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_1381266209685 #hydrophobicity_charge_explanation').html(description_html);plot_according_to_selectors_1381266209685();$('#AutoAnnotator_container_1381266209685 #AutoAnnotator_plot_selectors').find('input').click(plot_according_to_selectors_1381266209685);}else{$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_container').css('display','none');$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_button').val('Show');$('#AutoAnnotator_container_1381266209685 #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_1381266209685(){try{var plot_datasets = [[],[]];if($('#AutoAnnotator_container_1381266209685 #hydrophobicity_checkbox').prop('checked') == true){plot_datasets[0] = { color: 'rgba(100,149,237,1)',data: hydrophobicity_datapoints,label: 'Hydrophobicity',lines: { show: true, fill: true, fillColor: 'rgba(100,149,237,0.1)' },yaxis: 1};}if($('#AutoAnnotator_container_1381266209685 #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_1381266209685 #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_1381266209685 #dis_checkbox').prop('checked') == true){for ( j = 0 ; j < dis_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_placeholder' + Math.floor((dis_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_dis\' style=\'left:' + ((pos_of_first_tick - 8 + (dis_datapoints[j][0] - 1)*tick_diff - Math.floor((dis_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px;\'><b>' + (j+1) + '</b></div>');$('#AutoAnnotator_container_1381266209685 #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($('#AutoAnnotator_container_1381266209685 #trans_checkbox').prop('checked') == true){for ( j = 0 ; j < trans_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381266209685 #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($('#AutoAnnotator_container_1381266209685 #sec_checkbox').prop('checked') == true){for ( j = 0 ; j < sec_helix_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381266209685 #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++ ){$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_placeholder' + Math.floor((sec_strand_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_sec_strand\' style=\'width:' + (((sec_strand_datapoints[j][1] - sec_strand_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (sec_strand_datapoints[j][0] - 1.5)*tick_diff - Math.floor((sec_strand_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}}if($('#AutoAnnotator_container_1381266209685 #acc_checkbox').prop('checked') == true){for ( j = 0 ; j < acc_buried_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381266209685 #hydrophobicity_charge_placeholder' + Math.floor((acc_buried_datapoints[j][0] - 1)/200) ).append('<div class=\'AutoAnnotator_acc_buried\' style=\'width:' + (((acc_buried_datapoints[j][1] - acc_buried_datapoints[j][0] + 1)*tick_diff).toFixed(0)).toString() + 'px; left:' + ((pos_of_first_tick + (acc_buried_datapoints[j][0] - 1.5)*tick_diff - Math.floor((acc_buried_datapoints[j][0] - 1)/200)*200*tick_diff).toFixed(0)).toString() + 'px\'></div>');}for ( j = 0 ; j < acc_exposed_datapoints.length ; j++ ){$('#AutoAnnotator_container_1381266209685 #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> | ||
Latest revision as of 21:04, 8 October 2013
SERK-Receptor TMD with C-terminal GFP and N-terminal Strep-tag II TEV-site linker in RFC[25]
This part codes for the Transmembrane Domain of SERK Receptor from Physcomitrella patens with a C-terminal (intracellular) GFPmut1 fusion and a N-terminal fusion to a linker containing Strep-tag II and a TEV cleavage site; SERK TMD and GFPmut1 are seperated by a middle long linker. This part is flanked by RFC[25] pre- and suffix for further protein fusions.
Note: A signal peptide is needed for membrane integration.
Sequence and Features
Assembly Compatibility:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI site found at 8
Illegal BsaI.rc site found at 926
| Protein data table for BioBrick BBa_ automatically created by the BioBrick-AutoAnnotator version 1.0 | ||||||||||||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Nucleotide sequence in RFC 25, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein) ATGGCCGGCAGCGCTTGG ... CTCTACAAAACCGGT ORF from nucleotide position -8 to 1002 (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. | ||||||||||||||||||||||||||||||||||||||||||||||