Difference between revisions of "Part:BBa E1010"
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===Parts table=== | ===Parts table=== | ||
| − | + | <html><!--- Please copy this table containing parameters for BBa_E1010 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_1397080705152'><table id="AutoAnnotator"><tr><!-- Time stamp in ms since 1/1/1970 1397080705152 --><th id="AutoAnnotatorHeader" colspan="2">Protein data table for BioBrick <a href="https://parts.igem.org/wiki/index.php?title=Part:BBa_E1010">BBa_E1010</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 10</strong>: (underlined part encodes the protein)<br><span class="AutoAnnotatorSequence"> <u>ATGGCTTCC ... ACCGGTGCT</u>TAATAACGCTGATAGTGCTAGTGTAGATCGC</span><br> <strong>ORF</strong> from nucleotide position 1 to 675 (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 </td><td class="AutoAnnotatorSeqSeq">MASSEDVIKEFMRFKVRMEGSVNGHEFEIEGEGEGRPYEGTQTAKLKVTKGGPLPFAWDILSPQFQYGSKAYVKHPADIPDYLKLSFPEGFKWERVMNFE<br>DGGVVTVTQDSSLQDGEFIYKVKLRGTNFPSDGPVMQKKTMGWEASTERMYPEDGALKGEIKMRLKLKDGGHYDAEVKTTYMAKKPVQLPGAYKTDIKLD<br>ITSHNEDYTIVEQYERAEGRHSTGA*</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="AutoAnnotatorSeqFeat2b">None of the supported features appeared in the sequence</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 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Arg (R)</td><td class="AutoAnnotatorInnerAmino">9 (4.0%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asn (N)</td><td class="AutoAnnotatorInnerAmino">4 (1.8%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Asp (D)</td><td class="AutoAnnotatorInnerAmino">14 (6.2%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Cys (C)</td><td class="AutoAnnotatorInnerAmino">0 (0.0%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gln (Q)</td><td class="AutoAnnotatorInnerAmino">8 (3.6%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Glu (E)</td><td class="AutoAnnotatorInnerAmino">22 (9.8%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Gly (G)</td><td class="AutoAnnotatorInnerAmino">23 (10.2%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">His (H)</td><td class="AutoAnnotatorInnerAmino">5 (2.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ile (I)</td><td class="AutoAnnotatorInnerAmino">9 (4.0%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Leu (L)</td><td class="AutoAnnotatorInnerAmino">12 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Lys (K)</td><td class="AutoAnnotatorInnerAmino">22 (9.8%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Met (M)</td><td class="AutoAnnotatorInnerAmino">9 (4.0%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Phe (F)</td><td class="AutoAnnotatorInnerAmino">10 (4.4%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Pro (P)</td><td class="AutoAnnotatorInnerAmino">12 (5.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Ser (S)</td><td class="AutoAnnotatorInnerAmino">12 (5.3%)</td></tr></table></td><td class="AutoAnnotatorOuterAmino"><table class="AutoAnnotatorWithBorder"><tr><td class="AutoAnnotatorInnerAmino">Thr (T)</td><td class="AutoAnnotatorInnerAmino">14 (6.2%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Trp (W)</td><td class="AutoAnnotatorInnerAmino">3 (1.3%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Tyr (Y)</td><td class="AutoAnnotatorInnerAmino">11 (4.9%)</td></tr><tr><td class="AutoAnnotatorInnerAmino">Val (V)</td><td class="AutoAnnotatorInnerAmino">14 (6.2%)</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">225</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Positively charged (Arg+Lys):</td><td class="AutoAnnotatorAminoCountingInner3">31 (13.8%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Negatively charged (Asp+Glu):</td><td class="AutoAnnotatorAminoCountingInner3">36 (16.0%)</td></tr><tr><td class="AutoAnnotatorAminoCountingInner1"></td><td class="AutoAnnotatorAminoCountingInner2">Aromatic (Phe+His+Try+Tyr):</td><td class="AutoAnnotatorAminoCountingInner3">29 (12.9%)</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>1135</sub>H<sub>1749</sub>N<sub>299</sub>O<sub>347</sub>S<sub>9</sub></td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Molecular mass [Da]:</td><td class="AutoAnnotatorBiochemParInner3">25423.7</td></tr><tr><td class="AutoAnnotatorBiochemParInner1"></td><td class="AutoAnnotatorBiochemParInner2">Theoretical pI:</td><td class="AutoAnnotatorBiochemParInner3">5.65</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">32890 / 32890 (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_1397080705152()' 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">excellent (0.84)</td><td class="AutoAnnotatorCodonUsage3">good (0.72)</td><td class="AutoAnnotatorCodonUsage3">good (0.68)</td><td class="AutoAnnotatorCodonUsage3">good (0.74)</td><td class="AutoAnnotatorCodonUsage3">good (0.78)</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/Q9U6Y8'>Q9U6Y8</a> (86% identity on 221 AAs), <a href='http://www.uniprot.org/uniprot/P83690'>P83690</a> (63% identity on 215 AAs)</td></tr><tr><td class="AutoAnnotatorAlignment1"></td><td class="AutoAnnotatorAlignment2">TrEML:</td><td class="AutoAnnotatorAlignment3"><a href='http://www.uniprot.org/uniprot/Q5S3G8'>Q5S3G8</a> (95% identity on 225 AAs), <a href='http://www.uniprot.org/uniprot/D0VWW2'>D0VWW2</a> (94% identity on 220 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=2h5q'>2h5q</a> (94% identity on 216 AAs), <a href='http://www.rcsb.org/pdb/explore/explore.do?structureId=2qlg'>2qlg</a> (94% identity on 215 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">cytosol (52%)</td></tr><tr><td class="AutoAnnotatorLocalization1"></td><td class="AutoAnnotatorLocalization2">Eukarya:</td><td class="AutoAnnotatorLocalization3">cytosol (20%)</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> (40%), <a href='http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO:0008218'>GO:0008218</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"> - </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="http://2013.igem.org/Team:TU-Munich/excanvas.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>var jqAutoAnnotator = jQuery.noConflict(true);function show_or_hide_plot_1397080705152(){hydrophobicity_datapoints = [[2.5,-0.28],[3.5,-1.36],[4.5,-0.88],[5.5,0.18],[6.5,-0.44],[7.5,-0.44],[8.5,0.82],[9.5,0.36],[10.5,-1.44],[11.5,-0.10],[12.5,-0.18],[13.5,0.10],[14.5,-1.18],[15.5,0.10],[16.5,-1.16],[17.5,-0.46],[18.5,-1.46],[19.5,0.28],[20.5,-0.80],[21.5,-0.18],[22.5,-0.74],[23.5,-1.28],[24.5,-1.56],[25.5,-1.56],[26.5,-0.58],[27.5,-0.64],[28.5,-0.02],[29.5,-1.28],[30.5,-0.66],[31.5,-2.26],[32.5,-1.64],[33.5,-2.46],[34.5,-2.08],[35.5,-2.26],[36.5,-2.26],[37.5,-2.26],[38.5,-1.50],[39.5,-1.88],[40.5,-1.76],[41.5,-0.70],[42.5,-1.40],[43.5,-0.50],[44.5,-0.58],[45.5,0.40],[46.5,-0.10],[47.5,-0.10],[48.5,-0.94],[49.5,-0.24],[50.5,-1.40],[51.5,-0.50],[52.5,-0.04],[53.5,0.60],[54.5,1.04],[55.5,1.18],[56.5,-0.28],[57.5,0.94],[58.5,1.14],[59.5,0.62],[60.5,0.48],[61.5,0.48],[62.5,0.14],[63.5,-1.32],[64.5,-1.42],[65.5,-1.18],[66.5,-0.64],[67.5,-1.98],[68.5,-0.92],[69.5,-0.92],[70.5,-0.00],[71.5,-0.62],[72.5,-0.48],[73.5,-1.16],[74.5,-0.54],[75.5,-2.08],[76.5,-0.40],[77.5,-0.08],[78.5,-0.46],[79.5,-1.08],[80.5,0.38],[81.5,-1.30],[82.5,-0.22],[83.5,0.32],[84.5,1.14],[85.5,0.06],[86.5,0.14],[87.5,-0.70],[88.5,0.02],[89.5,-1.32],[90.5,-1.18],[91.5,-1.18],[92.5,-2.00],[93.5,-1.72],[94.5,-0.56],[95.5,-1.08],[96.5,0.18],[97.5,0.38],[98.5,-1.16],[99.5,-1.62],[100.5,-1.00],[101.5,-0.72],[102.5,0.82],[103.5,1.38],[104.5,2.30],[105.5,2.24],[106.5,0.70],[107.5,-0.84],[108.5,-0.86],[109.5,-1.86],[110.5,-0.96],[111.5,-0.96],[112.5,-0.96],[113.5,-0.88],[114.5,-1.42],[115.5,-1.62],[116.5,-0.02],[117.5,0.42],[118.5,-0.28],[119.5,1.26],[120.5,-0.08],[121.5,-0.22],[122.5,-0.86],[123.5,-0.16],[124.5,-1.14],[125.5,-1.06],[126.5,-1.26],[127.5,-0.68],[128.5,-0.76],[129.5,-1.32],[130.5,-0.70],[131.5,-1.58],[132.5,-0.42],[133.5,0.12],[134.5,0.12],[135.5,-0.58],[136.5,-1.04],[137.5,-2.02],[138.5,-2.02],[139.5,-1.40],[140.5,-0.80],[141.5,-0.72],[142.5,-0.22],[143.5,-0.76],[144.5,-0.82],[145.5,-1.34],[146.5,-1.54],[147.5,-1.52],[148.5,-1.62],[149.5,-1.80],[150.5,-1.80],[151.5,-1.60],[152.5,-2.06],[153.5,-1.44],[154.5,-0.36],[155.5,-0.44],[156.5,0.18],[157.5,-0.44],[158.5,0.10],[159.5,-1.44],[160.5,-0.28],[161.5,-1.10],[162.5,0.36],[163.5,-1.32],[164.5,0.22],[165.5,-0.94],[166.5,-0.74],[167.5,-1.58],[168.5,-0.88],[169.5,-2.28],[170.5,-1.76],[171.5,-1.76],[172.5,-1.32],[173.5,-1.94],[174.5,-0.46],[175.5,-0.98],[176.5,-0.42],[177.5,-0.92],[178.5,-0.48],[179.5,-0.94],[180.5,0.20],[181.5,-0.44],[182.5,-1.08],[183.5,-1.14],[184.5,-0.68],[185.5,-1.74],[186.5,-0.20],[187.5,0.26],[188.5,0.50],[189.5,0.02],[190.5,0.46],[191.5,-1.08],[192.5,-0.90],[193.5,-1.52],[194.5,-0.98],[195.5,-1.50],[196.5,0.04],[197.5,-0.52],[198.5,1.08],[199.5,0.04],[200.5,0.66],[201.5,-0.74],[202.5,-0.74],[203.5,-2.34],[204.5,-2.90],[205.5,-3.00],[206.5,-2.50],[207.5,-0.90],[208.5,0.64],[209.5,0.64],[210.5,0.20],[211.5,0.08],[212.5,-1.52],[213.5,-3.26],[214.5,-2.20],[215.5,-2.20],[216.5,-2.02],[217.5,-2.22],[218.5,-1.96],[219.5,-2.48],[220.5,-1.92],[221.5,-1.92],[222.5,-0.66]];charge_datapoints = [[2.5,-0.20],[3.5,-0.40],[4.5,-0.40],[5.5,-0.40],[6.5,-0.20],[7.5,-0.20],[8.5,0.00],[9.5,0.00],[10.5,0.20],[11.5,0.00],[12.5,0.40],[13.5,0.40],[14.5,0.60],[15.5,0.40],[16.5,0.20],[17.5,0.00],[18.5,0.00],[19.5,-0.20],[20.5,-0.20],[21.5,0.00],[22.5,0.10],[23.5,-0.10],[24.5,-0.10],[25.5,-0.30],[26.5,-0.30],[27.5,-0.60],[28.5,-0.40],[29.5,-0.60],[30.5,-0.40],[31.5,-0.60],[32.5,-0.40],[33.5,-0.20],[34.5,0.00],[35.5,0.00],[36.5,0.00],[37.5,0.00],[38.5,-0.20],[39.5,-0.20],[40.5,-0.20],[41.5,0.00],[42.5,0.20],[43.5,0.20],[44.5,0.40],[45.5,0.40],[46.5,0.40],[47.5,0.40],[48.5,0.40],[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,-0.20],[57.5,-0.20],[58.5,-0.20],[59.5,-0.20],[60.5,-0.20],[61.5,0.00],[62.5,0.00],[63.5,0.00],[64.5,0.00],[65.5,0.00],[66.5,0.00],[67.5,0.20],[68.5,0.20],[69.5,0.20],[70.5,0.20],[71.5,0.40],[72.5,0.30],[73.5,0.30],[74.5,0.30],[75.5,0.10],[76.5,-0.10],[77.5,-0.20],[78.5,-0.40],[79.5,-0.40],[80.5,-0.20],[81.5,0.00],[82.5,0.00],[83.5,0.20],[84.5,0.20],[85.5,0.20],[86.5,-0.20],[87.5,-0.20],[88.5,-0.20],[89.5,0.00],[90.5,0.00],[91.5,0.00],[92.5,0.20],[93.5,0.20],[94.5,0.00],[95.5,0.00],[96.5,0.20],[97.5,-0.20],[98.5,-0.40],[99.5,-0.40],[100.5,-0.40],[101.5,-0.40],[102.5,-0.20],[103.5,0.00],[104.5,0.00],[105.5,0.00],[106.5,0.00],[107.5,-0.20],[108.5,-0.20],[109.5,-0.20],[110.5,-0.20],[111.5,-0.20],[112.5,-0.20],[113.5,-0.20],[114.5,-0.40],[115.5,-0.40],[116.5,-0.40],[117.5,-0.20],[118.5,0.00],[119.5,0.20],[120.5,0.40],[121.5,0.40],[122.5,0.60],[123.5,0.40],[124.5,0.40],[125.5,0.20],[126.5,0.20],[127.5,0.00],[128.5,0.00],[129.5,-0.20],[130.5,-0.20],[131.5,-0.20],[132.5,-0.20],[133.5,-0.20],[134.5,0.00],[135.5,0.20],[136.5,0.40],[137.5,0.40],[138.5,0.40],[139.5,0.40],[140.5,0.20],[141.5,-0.20],[142.5,-0.20],[143.5,-0.20],[144.5,-0.20],[145.5,-0.40],[146.5,0.00],[147.5,0.00],[148.5,0.00],[149.5,0.00],[150.5,0.00],[151.5,-0.40],[152.5,-0.40],[153.5,-0.40],[154.5,-0.40],[155.5,0.00],[156.5,0.20],[157.5,0.00],[158.5,0.00],[159.5,0.20],[160.5,0.00],[161.5,0.20],[162.5,0.40],[163.5,0.60],[164.5,0.40],[165.5,0.60],[166.5,0.20],[167.5,0.20],[168.5,0.00],[169.5,0.10],[170.5,-0.10],[171.5,-0.10],[172.5,-0.10],[173.5,-0.30],[174.5,-0.40],[175.5,-0.20],[176.5,0.00],[177.5,0.00],[178.5,0.20],[179.5,0.20],[180.5,0.00],[181.5,0.20],[182.5,0.40],[183.5,0.40],[184.5,0.40],[185.5,0.40],[186.5,0.20],[187.5,0.00],[188.5,0.00],[189.5,0.00],[190.5,0.00],[191.5,0.20],[192.5,0.20],[193.5,0.00],[194.5,0.00],[195.5,0.20],[196.5,0.00],[197.5,-0.20],[198.5,0.00],[199.5,0.00],[200.5,-0.20],[201.5,-0.10],[202.5,0.10],[203.5,-0.10],[204.5,-0.30],[205.5,-0.30],[206.5,-0.40],[207.5,-0.40],[208.5,-0.20],[209.5,-0.20],[210.5,-0.20],[211.5,-0.20],[212.5,-0.40],[213.5,-0.20],[214.5,0.00],[215.5,-0.20],[216.5,-0.20],[217.5,0.20],[218.5,0.10],[219.5,0.10],[220.5,0.30],[221.5,0.30],[222.5,0.10]];dis_datapoints = [];trans_datapoints = [];sec_helix_datapoints = [[8,10],[57,66],[79,85]];sec_strand_datapoints = [[13,22],[25,31],[41,49],[93,100],[104,113],[117,126],[148,152],[156,168],[172,183],[195,200],[201,203],[210,221]];acc_exposed_datapoints = [[1,6],[9,10],[13,13],[15,15],[19,19],[23,23],[26,26],[32,32],[34,35],[37,37],[39,39],[41,41],[50,51],[53,53],[70,70],[74,74],[77,78],[81,81],[84,84],[88,90],[92,92],[110,110],[114,117],[128,128],[131,132],[134,134],[137,140],[142,142],[144,145],[148,148],[154,155],[158,158],[168,169],[171,171],[178,178],[182,182],[184,186],[188,188],[191,191],[200,200],[203,203],[205,207],[209,209],[212,212],[215,216],[218,218],[223,225]];acc_buried_datapoints = 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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( jqAutoAnnotator('#AutoAnnotator_container_1397080705152 #hydrophobicity_charge_button').val() =='Show' ){jqAutoAnnotator('#AutoAnnotator_container_1397080705152 #hydrophobicity_charge_container').css('display','block');jqAutoAnnotator('#AutoAnnotator_container_1397080705152 #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 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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>';jqAutoAnnotator('#AutoAnnotator_container_1397080705152 #hydrophobicity_charge_explanation').html(description_html);plot_according_to_selectors_1397080705152();jqAutoAnnotator('#AutoAnnotator_container_1397080705152 #AutoAnnotator_plot_selectors').find('input').click(plot_according_to_selectors_1397080705152);}else{jqAutoAnnotator('#AutoAnnotator_container_1397080705152 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Revision as of 05:37, 30 October 2017
**highly** engineered mutant of red fluorescent protein from Discosoma striata (coral)
monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm
Usage and Biology
Robert E. Campbell started with Discosoma RFP (DsRed) and evolved a faster folding, monomeric variant. See paper listed in source. Codon optimized for expression in bacteria (?? DE)
iGEM11_Uppsala-Sweden: Expression of chromoproteins. The images above show E coli constitutively expressing amilCP BBa_K592009 (blue), amilGFP BBa_K592010 (yellow) and RFP BBa_E1010 (red).
Peking iGEM 2016 has fused this part with triple spytag. The fused protein is participate in Peking’s polymer network. By adding this protein, the whole polymer network become visible in most conditions. If you want to learn more about Peking’s polymer network and the role of mRFP in this network, please click here https://parts.igem.org/Part:BBa_K1989004".
Contribution
Group: Hong Kong-CUHK iGEM 2017
Author: Yuet Ching Lin
Summary: We measured the fluorescent signal of mRFP in buffers with different pH.
Documentation:
Charaterization of mRFP pH stabillity:
We grew C41 bacteria with parts BBa_J61002 in 2XYT for 24 hours. After purifying the mRFP by Ion Exchange Chromatography and Hydrophobic Interaction Chromatography, we measured the fluoresece (ex ,em ) of purified mRFP, which is diluted to 10µg/100µl (total 200µl) in triplicates, into different buffers (ranges from pH2 to pH12; Volume of mRFP:buffer = 1:1.8). To facilitate reproducibility of the experiment, we correlated the relative fluorescent intensity to an absolute fluorophore concentration by referring it to a standard curve of the fluorophores(Rhodamine) using the interlab study protocol. The result shows that the stability drops dramatically in pH condition below 6 and relatively stable in pH 6-10.
| Measurement Type | Fluorescence |
| Microplate name | COSTAR 96 |
| Scan mode | orbital averaging |
| Scan diameter [nm] | 3 |
| Excitation | 550-20 |
| Emission | 605-40 |
| Dichronic filter | auto 572.5 |
| Gain | 500 |
| Focal height [nm] | 9 |
|};
Parts table
Contribution2Group: iGEM17_CSMU_NCHU_Taiwan 2017
Sequence and Features
Assembly Compatibility:
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