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From Biolecture.org
Created page with "<p>>Perl Code of myosin IE</p> <p> </p> <p>[DNA sequence]</p> <p><span style="font-family:arial,helvetica,sans-serif">ATGCCTGGTGTCATACCTAGTGAAAGTAATGGACTTTCAAGAGGT..."
<p>>[[Perl Code of myosin IE]]</p>
<p> </p>
<p>[DNA sequence]</p>
<p><span style="font-family:arial,helvetica,sans-serif">ATGCCTGGTGTCATACCTAGTGAAAGTAATGGACTTTCAAGAGGTAGCCCTTCAAAGAAAAACAGACTTTCCTTAAAGTTTTTTCAGAAAAAGGAAACTAAGAGAGCTTTGGATTTCACAGATTC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TCAAGAAAATGAAGAAAAAGCTTCTGAATATAGAGCATCTGAAATTGATCAAGTTGTTCCTGCAGCACAGTCTTCACCTATAAACTGTGAGAAGAGAGAAAACTTGTTACCATTTGTGGGACTGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">ATAATCTCGGCAATACTTGCTATCTTAATAGTATACTTCAGGTATTATATTTTTGTCCCGGTTTTAAATCTGGAGTAAAGCACTTATTTAATATTATTTCAAGGAAGAAAGAAGCTCTAAAGGATGAAG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">CCAATCAAAAAGACAAGGGAAATTGCAAAGAAGATTCTTTGGCAAGTTATGAATTGATATGCAGTTTACAGTCCTTAATCATTTCGGTTGAACAGCTCCAGGCTAGTTTTCTCTTAAATCCAGAGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AATATACTGATGAACTTGCCACTCAGCCAAGGCGACTGCTTAACACACTGAGGGAACTCAACCCTATGTATGAAGGATATCTACAGCATGATGCACAGGAAGTATTACAATGTATTTTGGGAAACA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTCAAGAAACATGCCAACTCCTAAAAAAAGAAGAAGTAAAAAATGTGGCAGAATTACCTACTAAGGTAGAAGAAATACCTCATCCGAAAGAGGAAATGAATGGTATTAACAGCATAGAGATGGAC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGTATGAGGCATTCTGAAGACTTTAAAGAGAAACTCCCAAAAGGAAATGGGAAAAGAAAAAGTGACACTGAATTTGGTAACATGAAGAAAAAAGTTAAATTATCCAAGGAACACCAGTCATTGG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AAGAGAACCAGAGACAAACTAGATCAAAAAGAAAAGCTACAAGTGATACATTAGAGAGTCCTCCTAAAATAATTCCCAAGTATATTTCTGAAAATGAGAGTCCAAGACCCTCACAAAAGAAATCA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGAGTTAAAATAAATTGGTTAAAGTCTGCAACTAAGCAACCCAGCATTCTTTCTAAATTTTGTAGTCTGGGAAAAATAACAACAAACCAAGGAGTCAAAGGACAATCTAAAGAAAATGAATGTGAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">CCTGAAGAGGACTTGGGGAAGTGTGAAAGTGATAACACAACTAATGGTTGTGGACTTGAATCTCCAGGAAATACTGTTACACCTGTAAATGTTAATGAAGTTAAACCCATAAACAAAGGTGAAG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AACAAATTGGTTTTGAGCTAGTGGAGAAATTATTTCAAGGTCAGCTGGTATTAAGGACGCGTTGCTTGGAATGTGAAAGTTTAACAGAAAGAAGAGAAGATTTTCAAGACATCAGTGTGCCAGT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">ACAAGAAGATGAGCTTTCCAAAGTAGAGGAGAGTTCTGAAATTTCTCCAGAGCCAAAAACAGAAATGAAGACCCTGAGATGGGCAATTTCACAATTTGCTTCAGTAGAAAGGATTGTAGGAGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGATAAATATTTCTGTGAAAACTGCCATCATTATACTGAAGCTGAACGAAGTCTTTTGTTTGACAAAATGCCTGAAGTTATAACTATTCATTTGAAGTGCTTTGCTGCTAGTGGTTTGGAGTTTGAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TGTTATGGTGGTGGACTTTCCAAGATCAACACTCCTTTATTGACACCTCTTAAATTGTCACTAGAAGAATGGAGCACAAAGCCAACTAACGACAGCTATGGATTATTTGCGGTTGTGATGCATAGT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">GGCATTACAATTAGTAGTGGGCATTACACTGCTTCTGTTAAAGTCACTGACCTTAACAGTTTAGAACTAGATAAAGGAAATTTTGTGGTTGACCAAATGTGTGAAATAGGTAAGCCAGAACCATTG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AATGAGGAGGAAGCAAGGGGTGTGGTTGAGAATTATAATGATGAAGAAGTGTCAATTAGAGTTGGTGGAAATACACAGCCAAGTAAAGTTTTGAACAAAAAAAATGTAGAAGCTATTGGACTTC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTGGAGGACAAAAGAGCAAAGCAGATTATGAGCTATACAACAAAGCCTCTAATCCTGATAAGGTTGCTAGTACAGCGTTTGCTGAAAATAGAAATTCTGAGACTAGTGATACTACTGGGACCCAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">GAATCTGATAGAAACAAGGAATCCAGTGACCAAACAGGCATTAATATTAGTGGATTTGAGAACAAAATTTCATACGTAGTGCAAAGCTTAAAGGAGTATGAGGGGAAGTGGTTGCTTTTTGATGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTCTGAAGTCAAAGTTACTGAAGAGAAGGACTTTCTGAATTCTCTTTCCCCTTCTACATCTCCTACTTCTACTCCTTACTTGCTATTTTATAAGAAATTATAG</span></p>
<p> </p>
<p>[Amino acid sequence]</p>
<p><span style="font-family:arial,helvetica,sans-serif">MPGVIPSESNGLSRGSPSKKNRLSLKFFQKKETKRALDFTDSQENEEKASEYRASEIDQVVPAAQSSPINCEKRENLLPFVGLNNLGNTCYLNSILQVLYFCPGFKSGVKHLFNIISRKKEALKDEANQ</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">KDKGNCKEDSLASYELICSLQSLIISVEQLQASFLLNPEKYTDELATQPRRLLNTLRELNPMYEGYLQHDAQEVLQCILGNIQETCQLLKKEEVKNVAELPTKVEEIPHPKEEMNGINSIEMDSMRHSED</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">FKEKLPKGNGKRKSDTEFGNMKKKVKLSKEHQSLEENQRQTRSKRKATSDTLESPPKIIPKYISENESPRPSQKKSRVKINWLKSATKQPSILSKFCSLGKITTNQGVKGQSKENECDPEEDLGKCE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">SDNTTNGCGLESPGNTVTPVNVNEVKPINKGEEQIGFELVEKLFQGQLVLRTRCLECESLTERREDFQDISVPVQEDELSKVEESSEISPEPKTEMKTLRWAISQFASVERIVGEDKYFCENCHHYTE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AERSLLFDKMPEVITIHLKCFAASGLEFDCYGGGLSKINTPLLTPLKLSLEEWSTKPTNDSYGLFAVVMHSGITISSGHYTASVKVTDLNSLELDKGNFVVDQMCEIGKPEPLNEEEARGVVENYNDEE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">VSIRVGGNTQPSKVLNKKNVEAIGLLGGQKSKADYELYNKASNPDKVASTAFAENRNSETSDTTGTHESDRNKESSDQTGINISGFENKISYVVQSLKEYEGKWLLFDDSEVKVTEEKDFLNSLSPST</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">SPTSTPYLLFYKKL</span></p>
<p> </p>
<p>[Second structure]</p>
<p>It is too long, so I separate sequences and analyse.</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_fQEFVex/jp_fQEFVex.results.html</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_M7yc4W5/jp_M7yc4W5.results.html</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_hybwc_M/jp_hybwc_M.results.html</p>
<p> </p>
<p>Simple result : (H=alpha helix E=beta sheet)</p>
<p><code>------EEEE---------------------HHHHHHHHHHHHH----------EEEEE-----------HHHHHHH---------HHHHHHHHHHHHHHH-----EEEEE------HHHHHHHHHHHHHH----------HHHHHHHH-HHHHHHH---------------EEEEEE-----EEEEE----------EEE-------HHHHHHHHH---HHHHHHHH----------------------HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH----EEEE---------HHHHHHHHHH----HHHHHHHHH---EEEEEE---EEEEE---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------EE-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHH---------E----------------HHHHHHHHHHH--------------EEEEEE---EEEEE--EE--------HHHHHHHHH----HHH-----------------HHHHHHHHHHHHHHHHH----EEEEEE------------HHHHHHHHHH--HHHHHHHHH--------HHHHHHHHHHH-----------HHHHHHHHHHH-------EEEEEEEEEE---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEHH---------HHEE-----EEEHHHHHHH-------HEEEH---EEE--------------EEEE--------------HHHHHHHHHH-HHHH----------HHHHH--------------HHHHH-----HHHHHH------------------------------------------------------------------------------------------------------------------------------------------------EEEEEE---------EEE----EEEEEEE----EEEEEE--EEEEE----EE--</code></p>
<p>__________________________________________________________________________________________________________________________________________________________________________________________</p>
<p>[[H.W.1]]</p>
<p> </p>
<p>[DNA sequence]</p>
<p><span style="font-family:arial,helvetica,sans-serif">ATGCCTGGTGTCATACCTAGTGAAAGTAATGGACTTTCAAGAGGTAGCCCTTCAAAGAAAAACAGACTTTCCTTAAAGTTTTTTCAGAAAAAGGAAACTAAGAGAGCTTTGGATTTCACAGATTC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TCAAGAAAATGAAGAAAAAGCTTCTGAATATAGAGCATCTGAAATTGATCAAGTTGTTCCTGCAGCACAGTCTTCACCTATAAACTGTGAGAAGAGAGAAAACTTGTTACCATTTGTGGGACTGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">ATAATCTCGGCAATACTTGCTATCTTAATAGTATACTTCAGGTATTATATTTTTGTCCCGGTTTTAAATCTGGAGTAAAGCACTTATTTAATATTATTTCAAGGAAGAAAGAAGCTCTAAAGGATGAAG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">CCAATCAAAAAGACAAGGGAAATTGCAAAGAAGATTCTTTGGCAAGTTATGAATTGATATGCAGTTTACAGTCCTTAATCATTTCGGTTGAACAGCTCCAGGCTAGTTTTCTCTTAAATCCAGAGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AATATACTGATGAACTTGCCACTCAGCCAAGGCGACTGCTTAACACACTGAGGGAACTCAACCCTATGTATGAAGGATATCTACAGCATGATGCACAGGAAGTATTACAATGTATTTTGGGAAACA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTCAAGAAACATGCCAACTCCTAAAAAAAGAAGAAGTAAAAAATGTGGCAGAATTACCTACTAAGGTAGAAGAAATACCTCATCCGAAAGAGGAAATGAATGGTATTAACAGCATAGAGATGGAC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGTATGAGGCATTCTGAAGACTTTAAAGAGAAACTCCCAAAAGGAAATGGGAAAAGAAAAAGTGACACTGAATTTGGTAACATGAAGAAAAAAGTTAAATTATCCAAGGAACACCAGTCATTGG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AAGAGAACCAGAGACAAACTAGATCAAAAAGAAAAGCTACAAGTGATACATTAGAGAGTCCTCCTAAAATAATTCCCAAGTATATTTCTGAAAATGAGAGTCCAAGACCCTCACAAAAGAAATCA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGAGTTAAAATAAATTGGTTAAAGTCTGCAACTAAGCAACCCAGCATTCTTTCTAAATTTTGTAGTCTGGGAAAAATAACAACAAACCAAGGAGTCAAAGGACAATCTAAAGAAAATGAATGTGAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">CCTGAAGAGGACTTGGGGAAGTGTGAAAGTGATAACACAACTAATGGTTGTGGACTTGAATCTCCAGGAAATACTGTTACACCTGTAAATGTTAATGAAGTTAAACCCATAAACAAAGGTGAAG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AACAAATTGGTTTTGAGCTAGTGGAGAAATTATTTCAAGGTCAGCTGGTATTAAGGACGCGTTGCTTGGAATGTGAAAGTTTAACAGAAAGAAGAGAAGATTTTCAAGACATCAGTGTGCCAGT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">ACAAGAAGATGAGCTTTCCAAAGTAGAGGAGAGTTCTGAAATTTCTCCAGAGCCAAAAACAGAAATGAAGACCCTGAGATGGGCAATTTCACAATTTGCTTCAGTAGAAAGGATTGTAGGAGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AGATAAATATTTCTGTGAAAACTGCCATCATTATACTGAAGCTGAACGAAGTCTTTTGTTTGACAAAATGCCTGAAGTTATAACTATTCATTTGAAGTGCTTTGCTGCTAGTGGTTTGGAGTTTGAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TGTTATGGTGGTGGACTTTCCAAGATCAACACTCCTTTATTGACACCTCTTAAATTGTCACTAGAAGAATGGAGCACAAAGCCAACTAACGACAGCTATGGATTATTTGCGGTTGTGATGCATAGT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">GGCATTACAATTAGTAGTGGGCATTACACTGCTTCTGTTAAAGTCACTGACCTTAACAGTTTAGAACTAGATAAAGGAAATTTTGTGGTTGACCAAATGTGTGAAATAGGTAAGCCAGAACCATTG</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AATGAGGAGGAAGCAAGGGGTGTGGTTGAGAATTATAATGATGAAGAAGTGTCAATTAGAGTTGGTGGAAATACACAGCCAAGTAAAGTTTTGAACAAAAAAAATGTAGAAGCTATTGGACTTC</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTGGAGGACAAAAGAGCAAAGCAGATTATGAGCTATACAACAAAGCCTCTAATCCTGATAAGGTTGCTAGTACAGCGTTTGCTGAAAATAGAAATTCTGAGACTAGTGATACTACTGGGACCCAT</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">GAATCTGATAGAAACAAGGAATCCAGTGACCAAACAGGCATTAATATTAGTGGATTTGAGAACAAAATTTCATACGTAGTGCAAAGCTTAAAGGAGTATGAGGGGAAGTGGTTGCTTTTTGATGA</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">TTCTGAAGTCAAAGTTACTGAAGAGAAGGACTTTCTGAATTCTCTTTCCCCTTCTACATCTCCTACTTCTACTCCTTACTTGCTATTTTATAAGAAATTATAG</span></p>
<p> </p>
<p>[Amino acid sequence]</p>
<p><span style="font-family:arial,helvetica,sans-serif">MPGVIPSESNGLSRGSPSKKNRLSLKFFQKKETKRALDFTDSQENEEKASEYRASEIDQVVPAAQSSPINCEKRENLLPFVGLNNLGNTCYLNSILQVLYFCPGFKSGVKHLFNIISRKKEALKDEANQ</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">KDKGNCKEDSLASYELICSLQSLIISVEQLQASFLLNPEKYTDELATQPRRLLNTLRELNPMYEGYLQHDAQEVLQCILGNIQETCQLLKKEEVKNVAELPTKVEEIPHPKEEMNGINSIEMDSMRHSED</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">FKEKLPKGNGKRKSDTEFGNMKKKVKLSKEHQSLEENQRQTRSKRKATSDTLESPPKIIPKYISENESPRPSQKKSRVKINWLKSATKQPSILSKFCSLGKITTNQGVKGQSKENECDPEEDLGKCE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">SDNTTNGCGLESPGNTVTPVNVNEVKPINKGEEQIGFELVEKLFQGQLVLRTRCLECESLTERREDFQDISVPVQEDELSKVEESSEISPEPKTEMKTLRWAISQFASVERIVGEDKYFCENCHHYTE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">AERSLLFDKMPEVITIHLKCFAASGLEFDCYGGGLSKINTPLLTPLKLSLEEWSTKPTNDSYGLFAVVMHSGITISSGHYTASVKVTDLNSLELDKGNFVVDQMCEIGKPEPLNEEEARGVVENYNDEE</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">VSIRVGGNTQPSKVLNKKNVEAIGLLGGQKSKADYELYNKASNPDKVASTAFAENRNSETSDTTGTHESDRNKESSDQTGINISGFENKISYVVQSLKEYEGKWLLFDDSEVKVTEEKDFLNSLSPST</span></p>
<p><span style="font-family:arial,helvetica,sans-serif">SPTSTPYLLFYKKL</span></p>
<p> </p>
<p>[Second structure]</p>
<p>It is too long, so I separate sequences and analyse.</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_fQEFVex/jp_fQEFVex.results.html</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_M7yc4W5/jp_M7yc4W5.results.html</p>
<p>http://www.compbio.dundee.ac.uk/jpred4/results/jp_hybwc_M/jp_hybwc_M.results.html</p>
<p> </p>
<p>Simple result : (H=alpha helix E=beta sheet)</p>
<p><code>------EEEE---------------------HHHHHHHHHHHHH----------EEEEE-----------HHHHHHH---------HHHHHHHHHHHHHHH-----EEEEE------HHHHHHHHHHHHHH----------HHHHHHHH-HHHHHHH---------------EEEEEE-----EEEEE----------EEE-------HHHHHHHHH---HHHHHHHH----------------------HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH----EEEE---------HHHHHHHHHH----HHHHHHHHH---EEEEEE---EEEEE---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------EE-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHH---------E----------------HHHHHHHHHHH--------------EEEEEE---EEEEE--EE--------HHHHHHHHH----HHH-----------------HHHHHHHHHHHHHHHHH----EEEEEE------------HHHHHHHHHH--HHHHHHHHH--------HHHHHHHHHHH-----------HHHHHHHHHHH-------EEEEEEEEEE---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEHH---------HHEE-----EEEHHHHHHH-------HEEEH---EEE--------------EEEE--------------HHHHHHHHHH-HHHH----------HHHHH--------------HHHHH-----HHHHHH------------------------------------------------------------------------------------------------------------------------------------------------EEEEEE---------EEE----EEEEEEE----EEEEEE--EEEEE----EE--</code></p>
<p>__________________________________________________________________________________________________________________________________________________________________________________________</p>
<p>[[H.W.1]]</p>
