Difference between revisions of "Part:BBa K1159211"
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<span class='h3bb'>Sequence and Features</span> | <span class='h3bb'>Sequence and Features</span> | ||
<partinfo>BBa_K1159211 SequenceAndFeatures</partinfo> | <partinfo>BBa_K1159211 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_1381265310320'><table id="AutoAnnotator"><tr><!-- Time stamp in ms since 1/1/1970 1381265310320 --><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>ATGGAAACC ... ATCCTTGCT<i>ACCGGT</i></u></span><br> <strong>ORF</strong> from nucleotide position 5 to 934 (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">METDTLLLWVLLLWVPGS<b>TG</b>D<b>TG</b>VDTLSGLSSEQGQSGDMTIEEDSATHIKFSKRDEDGKELAGATMELRDSSGKTISTWISDGQVKDFYLYPGKYTFVE<br>TAAPDGYEVATAITFTVNEQGQVTVNGKATKGDAHI<b>TG</b>VFTLEDFVGDWRQTAGYNLDQVLEQGGVSSLFQNLGVSVTPIQRIVLSGENGLKIDIHVIIP<br>YEGLSGDQMGQIEKIFKVVYPVDDHHFKVILHYGTLVIDGVTPNMIDYFGRPYEGIAVFDGKKITVTGTLWNGNKIIDERLINPDGSLLFRVTINGVTGW<br>RLCERILATG*</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">19 to 20, 22 to 23, 137 to 138</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">12 (3.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Arg (R)</td><td class="AutoAnnotatorInnerAmino">9 (2.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asn (N)</td><td class="AutoAnnotatorInnerAmino">10 (3.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asp (D)</td><td class="AutoAnnotatorInnerAmino">24 (7.7%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Cys (C)</td><td class="AutoAnnotatorInnerAmino">1 (0.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gln (Q)</td><td class="AutoAnnotatorInnerAmino">12 (3.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Glu (E)</td><td class="AutoAnnotatorInnerAmino">18 (5.8%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gly (G)</td><td class="AutoAnnotatorInnerAmino">37 (11.9%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">His (H)</td><td class="AutoAnnotatorInnerAmino">6 (1.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ile (I)</td><td class="AutoAnnotatorInnerAmino">24 (7.7%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Leu (L)</td><td class="AutoAnnotatorInnerAmino">27 (8.7%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Lys (K)</td><td class="AutoAnnotatorInnerAmino">15 (4.8%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Met (M)</td><td class="AutoAnnotatorInnerAmino">5 (1.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Phe (F)</td><td class="AutoAnnotatorInnerAmino">12 (3.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Pro (P)</td><td class="AutoAnnotatorInnerAmino">9 (2.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ser (S)</td><td class="AutoAnnotatorInnerAmino">17 (5.5%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Thr (T)</td><td class="AutoAnnotatorInnerAmino">29 (9.4%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Trp (W)</td><td class="AutoAnnotatorInnerAmino">6 (1.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Tyr (Y)</td><td class="AutoAnnotatorInnerAmino">10 (3.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Val (V)</td><td class="AutoAnnotatorInnerAmino">27 (8.7%)</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">310</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Positively charged (Arg+Lys):</td><td class="AutoAnnotatorAminoCountingInner3">24 (7.7%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Negatively charged (Asp+Glu):</td><td class="AutoAnnotatorAminoCountingInner3">42 (13.5%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Aromatic (Phe+His+Try+Tyr):</td><td class="AutoAnnotatorAminoCountingInner3">34 (11.0%)</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>1521</sub>H<sub>2368</sub>N<sub>392</sub>O<sub>473</sub>S<sub>6</sub></td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Molecular mass [Da]:</td><td class="AutoAnnotatorBiochemParInner3">33906.2</td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Theoretical pI:</td><td class="AutoAnnotatorBiochemParInner3">4.63</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">47900 / 47963 (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_1381265310320()' 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 (0.71)</td><td class="AutoAnnotatorCodonUsage3">good (0.71)</td><td class="AutoAnnotatorCodonUsage3">good (0.67)</td><td class="AutoAnnotatorCodonUsage3">excellent (0.83)</td><td class="AutoAnnotatorCodonUsage3">excellent (0.85)</td><td class="AutoAnnotatorCodonUsage3">good (0.75)</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/Q9GV45'>Q9GV45</a> (82% identity on 186 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">TrEML:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.uniprot.org/uniprot/Q6IZ43'>Q6IZ43</a> (86% identity on 130 AAs), <a href='http://www.uniprot.org/uniprot/A2RC81'>A2RC81</a> (66% identity on 173 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">PDB:</td><td class="AutoAnnotatorAlignment3"> - </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">cytosol (38%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Eukarya:</td><td class="AutoAnnotatorLocalization3">cytosol (45%)</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'> - </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"> - </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_1381265310320(){hydrophobicity_datapoints = [[2.5,-1.30],[3.5,-0.92],[4.5,0.54],[5.5,1.44],[6.5,1.96],[7.5,2.94],[8.5,2.94],[9.5,2.94],[10.5,2.94],[11.5,2.94],[12.5,2.94],[13.5,1.86],[14.5,1.02],[15.5,0.10],[16.5,0.14],[17.5,-0.78],[18.5,-1.16],[19.5,-1.22],[20.5,-1.14],[21.5,-0.16],[22.5,-0.78],[23.5,-0.22],[24.5,0.68],[25.5,0.60],[26.5,-0.32],[27.5,1.14],[28.5,1.12],[29.5,0.20],[30.5,-0.34],[31.5,-0.96],[32.5,-1.80],[33.5,-2.34],[34.5,-2.34],[35.5,-1.72],[36.5,-1.72],[37.5,-1.26],[38.5,-0.70],[39.5,0.36],[40.5,-0.26],[41.5,-0.26],[42.5,-1.34],[43.5,-1.36],[44.5,-1.90],[45.5,-1.34],[46.5,-1.28],[47.5,0.32],[48.5,-0.30],[49.5,-0.10],[50.5,-0.12],[51.5,-0.26],[52.5,-2.06],[53.5,-1.98],[54.5,-3.24],[55.5,-3.78],[56.5,-3.08],[57.5,-2.96],[58.5,-2.96],[59.5,-1.50],[60.5,-0.44],[61.5,-0.44],[62.5,0.70],[63.5,1.26],[64.5,0.88],[65.5,-0.18],[66.5,0.66],[67.5,-0.60],[68.5,-1.16],[69.5,-1.70],[70.5,-1.16],[71.5,-2.00],[72.5,-1.88],[73.5,-1.32],[74.5,-0.26],[75.5,-0.26],[76.5,-0.32],[77.5,0.28],[78.5,1.32],[79.5,0.26],[80.5,-0.28],[81.5,-0.22],[82.5,-0.74],[83.5,-0.80],[84.5,-1.42],[85.5,-1.42],[86.5,-0.78],[87.5,-0.34],[88.5,-0.42],[89.5,0.10],[90.5,0.48],[91.5,-0.16],[92.5,-0.68],[93.5,-1.70],[94.5,-1.58],[95.5,-0.70],[96.5,0.22],[97.5,0.30],[98.5,0.42],[99.5,0.92],[100.5,0.72],[101.5,-0.44],[102.5,-0.44],[103.5,-0.38],[104.5,-1.00],[105.5,-2.06],[106.5,-0.90],[107.5,0.16],[108.5,0.10],[109.5,0.72],[110.5,2.32],[111.5,1.34],[112.5,1.54],[113.5,1.54],[114.5,2.02],[115.5,0.42],[116.5,-0.14],[117.5,-1.40],[118.5,-1.34],[119.5,-2.88],[120.5,-1.34],[121.5,-0.78],[122.5,0.76],[123.5,0.14],[124.5,0.76],[125.5,-0.86],[126.5,-0.36],[127.5,-1.34],[128.5,-1.42],[129.5,-1.42],[130.5,-1.34],[131.5,-1.34],[132.5,-1.84],[133.5,-0.16],[134.5,-0.22],[135.5,0.40],[136.5,0.88],[137.5,2.08],[138.5,1.04],[139.5,1.94],[140.5,1.32],[141.5,-0.22],[142.5,-0.22],[143.5,0.76],[144.5,-0.08],[145.5,-0.08],[146.5,0.44],[147.5,-1.02],[148.5,-2.56],[149.5,-2.62],[150.5,-1.56],[151.5,-1.46],[152.5,-0.82],[153.5,-0.82],[154.5,0.08],[155.5,-0.98],[156.5,-1.60],[157.5,-0.50],[158.5,0.96],[159.5,-0.50],[160.5,-0.50],[161.5,0.12],[162.5,-0.80],[163.5,-0.72],[164.5,-0.18],[165.5,0.36],[166.5,1.20],[167.5,1.84],[168.5,0.30],[169.5,-0.24],[170.5,0.68],[171.5,-0.16],[172.5,0.12],[173.5,0.66],[174.5,2.20],[175.5,1.30],[176.5,1.06],[177.5,1.12],[178.5,0.58],[179.5,-1.16],[180.5,-0.12],[181.5,1.04],[182.5,0.90],[183.5,1.44],[184.5,2.26],[185.5,0.66],[186.5,-0.88],[187.5,-1.72],[188.5,-0.80],[189.5,-1.50],[190.5,0.10],[191.5,0.10],[192.5,1.08],[193.5,-0.32],[194.5,1.30],[195.5,1.30],[196.5,2.90],[197.5,1.68],[198.5,2.06],[199.5,0.52],[200.5,-0.46],[201.5,-0.60],[202.5,-0.44],[203.5,-0.26],[204.5,-0.26],[205.5,-0.88],[206.5,-1.26],[207.5,-1.18],[208.5,-1.80],[209.5,-0.20],[210.5,-0.20],[211.5,-1.36],[212.5,-0.38],[213.5,0.88],[214.5,-0.80],[215.5,0.74],[216.5,2.36],[217.5,1.20],[218.5,0.32],[219.5,1.94],[220.5,0.40],[221.5,-1.14],[222.5,-1.52],[223.5,-1.84],[224.5,-2.12],[225.5,-2.20],[226.5,-0.66],[227.5,0.88],[228.5,2.28],[229.5,1.08],[230.5,1.60],[231.5,0.68],[232.5,-0.36],[233.5,-0.36],[234.5,1.12],[235.5,2.28],[236.5,1.66],[237.5,1.72],[238.5,1.80],[239.5,0.82],[240.5,-0.40],[241.5,-0.40],[242.5,0.06],[243.5,0.12],[244.5,-0.44],[245.5,-0.38],[246.5,0.88],[247.5,0.42],[248.5,-1.38],[249.5,-1.00],[250.5,-1.00],[251.5,-2.26],[252.5,-2.26],[253.5,-0.46],[254.5,0.22],[255.5,1.32],[256.5,2.58],[257.5,1.96],[258.5,0.98],[259.5,-0.16],[260.5,-1.78],[261.5,-1.44],[262.5,-0.88],[263.5,0.04],[264.5,0.68],[265.5,1.38],[266.5,0.34],[267.5,1.24],[268.5,0.22],[269.5,-0.34],[270.5,-0.34],[271.5,-0.90],[272.5,-2.44],[273.5,-1.36],[274.5,0.24],[275.5,-0.38],[276.5,-0.38],[277.5,-0.50],[278.5,-0.64],[279.5,-0.64],[280.5,-0.64],[281.5,-0.26],[282.5,-0.06],[283.5,-0.90],[284.5,-1.96],[285.5,-0.50],[286.5,0.58],[287.5,1.84],[288.5,1.02],[289.5,2.02],[290.5,1.12],[291.5,1.26],[292.5,-0.00],[293.5,0.82],[294.5,0.82],[295.5,0.82],[296.5,-0.16],[297.5,0.36],[298.5,-0.46],[299.5,-0.54],[300.5,0.10],[301.5,-0.52],[302.5,-1.24],[303.5,0.56],[304.5,0.56],[305.5,0.42],[306.5,0.98],[307.5,1.80]];charge_datapoints = [[2.5,-0.40],[3.5,-0.40],[4.5,-0.20],[5.5,-0.20],[6.5,0.00],[7.5,0.00],[8.5,0.00],[9.5,0.00],[10.5,0.00],[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,-0.20],[19.5,-0.20],[20.5,-0.20],[21.5,-0.20],[22.5,-0.40],[23.5,-0.20],[24.5,-0.20],[25.5,-0.20],[26.5,-0.20],[27.5,0.00],[28.5,0.00],[29.5,0.00],[30.5,-0.20],[31.5,-0.20],[32.5,-0.20],[33.5,-0.20],[34.5,-0.20],[35.5,0.00],[36.5,-0.20],[37.5,-0.20],[38.5,-0.20],[39.5,-0.20],[40.5,-0.40],[41.5,-0.40],[42.5,-0.60],[43.5,-0.60],[44.5,-0.60],[45.5,-0.40],[46.5,-0.10],[47.5,0.10],[48.5,0.30],[49.5,0.30],[50.5,0.30],[51.5,0.40],[52.5,0.60],[53.5,0.20],[54.5,-0.00],[55.5,-0.20],[56.5,-0.40],[57.5,-0.40],[58.5,-0.40],[59.5,-0.20],[60.5,-0.00],[61.5,-0.00],[62.5,-0.20],[63.5,-0.00],[64.5,-0.00],[65.5,-0.20],[66.5,-0.20],[67.5,-0.00],[68.5,-0.20],[69.5,-0.20],[70.5,-0.00],[71.5,-0.00],[72.5,-0.00],[73.5,0.20],[74.5,0.20],[75.5,0.20],[76.5,0.20],[77.5,-0.00],[78.5,-0.00],[79.5,-0.00],[80.5,-0.20],[81.5,-0.20],[82.5,-0.20],[83.5,-0.20],[84.5,-0.00],[85.5,-0.00],[86.5,-0.00],[87.5,-0.00],[88.5,-0.00],[89.5,-0.20],[90.5,-0.00],[91.5,-0.00],[92.5,0.20],[93.5,0.20],[94.5,0.20],[95.5,0.20],[96.5,0.20],[97.5,-0.20],[98.5,-0.20],[99.5,-0.20],[100.5,-0.20],[101.5,-0.20],[102.5,-0.20],[103.5,-0.20],[104.5,-0.20],[105.5,-0.40],[106.5,-0.40],[107.5,-0.20],[108.5,-0.20],[109.5,-0.20],[110.5,-0.00],[111.5,-0.00],[112.5,-0.00],[113.5,-0.00],[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,-0.00],[125.5,0.20],[126.5,0.20],[127.5,0.20],[128.5,0.40],[129.5,0.40],[130.5,-0.00],[131.5,-0.00],[132.5,0.10],[133.5,-0.10],[134.5,-0.10],[135.5,0.10],[136.5,0.10],[137.5,-0.00],[138.5,-0.00],[139.5,-0.00],[140.5,-0.20],[141.5,-0.40],[142.5,-0.40],[143.5,-0.40],[144.5,-0.40],[145.5,-0.40],[146.5,-0.20],[147.5,-0.00],[148.5,-0.00],[149.5,-0.00],[150.5,0.20],[151.5,0.20],[152.5,-0.00],[153.5,-0.00],[154.5,-0.00],[155.5,-0.20],[156.5,-0.20],[157.5,-0.20],[158.5,-0.20],[159.5,-0.40],[160.5,-0.20],[161.5,-0.20],[162.5,-0.20],[163.5,-0.20],[164.5,-0.00],[165.5,-0.00],[166.5,-0.00],[167.5,-0.00],[168.5,-0.00],[169.5,-0.00],[170.5,-0.00],[171.5,-0.00],[172.5,-0.00],[173.5,-0.00],[174.5,-0.00],[175.5,-0.00],[176.5,-0.00],[177.5,-0.00],[178.5,-0.00],[179.5,0.20],[180.5,0.20],[181.5,0.20],[182.5,0.20],[183.5,0.20],[184.5,-0.00],[185.5,-0.20],[186.5,-0.20],[187.5,-0.20],[188.5,-0.20],[189.5,-0.00],[190.5,0.20],[191.5,-0.00],[192.5,-0.00],[193.5,0.10],[194.5,-0.10],[195.5,-0.10],[196.5,0.10],[197.5,0.10],[198.5,-0.00],[199.5,-0.20],[200.5,-0.20],[201.5,-0.20],[202.5,-0.20],[203.5,-0.20],[204.5,-0.20],[205.5,-0.20],[206.5,-0.20],[207.5,-0.20],[208.5,-0.20],[209.5,-0.00],[210.5,-0.20],[211.5,-0.00],[212.5,-0.00],[213.5,-0.00],[214.5,0.20],[215.5,0.40],[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,-0.30],[223.5,-0.20],[224.5,-0.20],[225.5,0.20],[226.5,0.40],[227.5,0.30],[228.5,0.20],[229.5,0.30],[230.5,0.10],[231.5,0.10],[232.5,0.10],[233.5,0.10],[234.5,-0.00],[235.5,-0.00],[236.5,-0.20],[237.5,-0.20],[238.5,-0.20],[239.5,-0.20],[240.5,-0.20],[241.5,-0.00],[242.5,-0.00],[243.5,-0.00],[244.5,-0.20],[245.5,-0.20],[246.5,-0.20],[247.5,-0.20],[248.5,-0.00],[249.5,0.20],[250.5,0.20],[251.5,-0.00],[252.5,-0.00],[253.5,-0.20],[254.5,-0.20],[255.5,-0.20],[256.5,-0.00],[257.5,-0.20],[258.5,-0.20],[259.5,-0.00],[260.5,0.20],[261.5,0.20],[262.5,0.40],[263.5,0.40],[264.5,0.20],[265.5,-0.00],[266.5,-0.00],[267.5,-0.00],[268.5,-0.00],[269.5,-0.00],[270.5,-0.00],[271.5,-0.00],[272.5,0.20],[273.5,0.20],[274.5,0.20],[275.5,-0.00],[276.5,-0.20],[277.5,-0.20],[278.5,-0.20],[279.5,-0.20],[280.5,-0.00],[281.5,0.20],[282.5,-0.20],[283.5,-0.20],[284.5,-0.20],[285.5,-0.20],[286.5,-0.20],[287.5,-0.00],[288.5,0.20],[289.5,0.20],[290.5,0.20],[291.5,0.20],[292.5,0.20],[293.5,-0.00],[294.5,-0.00],[295.5,-0.00],[296.5,-0.00],[297.5,-0.00],[298.5,0.20],[299.5,0.20],[300.5,0.20],[301.5,-0.00],[302.5,0.20],[303.5,-0.00],[304.5,-0.00],[305.5,-0.00],[306.5,0.20],[307.5,-0.00]];dis_datapoints = [];trans_datapoints = [];sec_helix_datapoints = [];sec_strand_datapoints = [[6,13],[26,31],[38,43],[48,55],[64,71],[76,81],[85,90],[96,101],[108,109],[113,118],[122,129],[135,143],[156,161],[167,171],[175,178],[183,186],[191,193],[198,200],[201,202],[209,215],[220,222],[226,232],[236,248],[256,259],[263,270],[275,282],[287,293],[300,307]];acc_exposed_datapoints = [[1,4],[16,16],[18,19],[21,26],[29,29],[31,31],[33,37],[39,39],[44,47],[54,54],[57,61],[72,75],[83,83],[85,85],[93,93],[95,95],[102,102],[105,105],[114,114],[118,120],[122,122],[126,126],[128,128],[130,133],[135,135],[141,141],[143,144],[147,148],[150,151],[153,154],[156,156],[158,158],[162,165],[171,172],[174,174],[176,176],[179,179],[181,181],[188,190],[192,192],[195,196],[203,203],[205,206],[208,208],[217,217],[221,221],[223,224],[226,226],[234,235],[237,237],[239,239],[242,242],[247,247],[250,252],[254,255],[260,263],[272,275],[278,279],[284,285],[295,295],[298,298],[301,301],[304,304],[308,310]];acc_buried_datapoints = [[7,7],[9,12],[14,14],[40,40],[42,42],[50,50],[52,52],[62,65],[67,67],[69,69],[77,77],[80,81],[84,84],[86,86],[88,88],[90,91],[94,94],[96,96],[98,98],[100,101],[103,103],[106,107],[109,110],[113,113],[115,115],[117,117],[123,123],[125,125],[136,136],[169,169],[177,177],[183,183],[185,185],[193,193],[197,197],[199,199],[201,201],[204,204],[207,207],[209,209],[211,211],[213,213],[216,216],[219,219],[222,222],[227,227],[229,231],[238,238],[259,259],[264,264],[266,266],[270,270],[277,277],[288,290],[292,292],[300,300],[302,302],[306,306]];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( $('#AutoAnnotator_container_1381265310320 #hydrophobicity_charge_button').val() =='Show' ){$('#AutoAnnotator_container_1381265310320 #hydrophobicity_charge_container').css('display','block');$('#AutoAnnotator_container_1381265310320 #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_1381265310320 #hydrophobicity_charge_explanation').html(description_html);plot_according_to_selectors_1381265310320();$('#AutoAnnotator_container_1381265310320 #AutoAnnotator_plot_selectors').find('input').click(plot_according_to_selectors_1381265310320);}else{$('#AutoAnnotator_container_1381265310320 #hydrophobicity_charge_container').css('display','none');$('#AutoAnnotator_container_1381265310320 #hydrophobicity_charge_button').val('Show');$('#AutoAnnotator_container_1381265310320 #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_1381265310320(){try{var plot_datasets = [[],[]];if($('#AutoAnnotator_container_1381265310320 #hydrophobicity_checkbox').prop('checked') == true){plot_datasets[0] = { color: 'rgba(100,149,237,1)',data: hydrophobicity_datapoints,label: 'Hydrophobicity',lines: { show: true, fill: true, fillColor: 'rgba(100,149,237,0.1)' },yaxis: 1};}if($('#AutoAnnotator_container_1381265310320 #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: 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<!-- Uncomment this to enable Functional Parameter display | <!-- Uncomment this to enable Functional Parameter display | ||
Latest revision as of 20:49, 8 October 2013
Secretory SpyCatcher_nLuc fusion (IgKappa-SigP_SpyCatcher_nLuc) in RFC[25] N-Part
Secretory Fusionprotein consisting N-terminal SpyCatcher and C-terminal nLuc (IgKappa-SigP_SpyCatcher_nLuc) in RFC[25] N-Part. 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 XhoI site found at 428
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
| Protein data table for BioBrick BBa_ automatically created by the BioBrick-AutoAnnotator version 1.0 | ||||||||||||||||||||||||||||||||||||||||||||||
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| 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) AACAATGGAAACC ... ATCCTTGCTACCGGT ORF from nucleotide position 5 to 934 (excluding stop-codon) | ||||||||||||||||||||||||||||||||||||||||||||||
Amino acid sequence: (RFC 25 scars in shown in bold, other sequence features underlined; both given below)
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Sequence features: (with their position in the amino acid sequence, see the list of supported features)
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Amino acid composition:
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Amino acid counting
| Biochemical parameters
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| Plot for hydrophobicity, charge, predicted secondary structure, solvent accessability, transmembrane helices and disulfid bridges | ||||||||||||||||||||||||||||||||||||||||||||||
Codon usage
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Alignments (obtained from PredictProtein.org)
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| Predictions (obtained from PredictProtein.org) | ||||||||||||||||||||||||||||||||||||||||||||||
Subcellular Localization (reliability in brackets)
| Gene Ontology (reliability in brackets)
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Predicted features:
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| 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. | ||||||||||||||||||||||||||||||||||||||||||||||