{"id":28456,"date":"2015-10-05T13:46:08","date_gmt":"2015-10-05T11:46:08","guid":{"rendered":"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-2-multiple-sequence-alignment-of-protein-sequences\/"},"modified":"2021-06-18T15:06:59","modified_gmt":"2021-06-18T15:06:59","slug":"part-2-multiple-sequence-alignment-of-protein-sequences","status":"publish","type":"teachingbase","link":"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-2-multiple-sequence-alignment-of-protein-sequences\/?lang=fr","title":{"rendered":"Partie 2 : Alignements multiples des s\u00e9quences de prot\u00e9ines"},"content":{"rendered":"\n<div class=\"wp-block-group\"><div class=\"wp-block-group__inner-container is-layout-flow wp-block-group-is-layout-flow\">\n<div class=\"vf-tabs\"><ul class=\"vf-tabs__list\" data-vf-js-tabs=\"true\"><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-53c12c03-fd69-4c60-a98c-517e493c9be7\">Aper\u00e7u<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-3ca77dbd-92bb-40c5-90ff-80bab24f0706\">Votre t\u00e2che<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-fb7f8c0d-e668-4b4b-a403-3125a01d76f8\">S\u00e9quences<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-49802ed2-ad8e-4020-8ef1-38a6e6070f30\">MUSCLE<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-f3293f44-6770-44b4-aa21-2e837496da09\">Questions<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-52f5c833-db34-493c-919c-efbbcbcdb5cc\">Navigation d\u2018activit\u00e9<\/a><\/li><\/ul><div class=\"vf-tabs-content\" data-vf-js-tabs-content=\"true\">\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-53c12c03-fd69-4c60-a98c-517e493c9be7\"><h2>Aper\u00e7u<\/h2>\n<p>Bravo ! Dans la premi\u00e8re t\u00e2che vous avez probablement trouv\u00e9 que la prot\u00e9ine bovine recherch\u00e9e \u00e9tait une rhodopsine bovine &#8211; la mol\u00e9cule photosensible de la r\u00e9tine. Maintenant, nous voulons en savoir plus au sujet des prot\u00e9ines de la famille de cette macromol\u00e9cule afin de voir si la bio-informatique pourra nous aider \u00e0 trouver des informations sur leur biochimie et leur \u00e9volution.<\/p>\n\n\n\n<p>Pour ce faire, nous allons cr\u00e9er un alignement multiple de s\u00e9quences. Cela signifie que nous allons utiliser des s\u00e9quences d&#8217;acides amin\u00e9s (que vous pourrez obtenir en utilisant les informations obtenues dans BLAST) et les aligner de mani\u00e8re \u00e0 ce que les r\u00e9sidus soient toujours superpos\u00e9s les uns aux autres.<\/p>\n\n\n\n<p>Vous trouverez un ensemble de s\u00e9quences d\u00e9j\u00e0 pr\u00e9par\u00e9es sous l&#8217;onglet &#8220;S\u00e9quences&#8221;. La premi\u00e8re est une rhodopsine bovine sur laquelle vous avez d\u00e9j\u00e0 travaill\u00e9 dans la Partie 1. Nous utiliserons maintenant l&#8217;outil d&#8217;alignements multiples de s\u00e9quences dEMBL-EBI MUSCLE pour cr\u00e9er l&#8217;alignement.<\/p>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-3ca77dbd-92bb-40c5-90ff-80bab24f0706\"><h2>Votre t\u00e2che<\/h2>\n<p><strong>Suivez la proc\u00e9dure suivante :<\/strong><\/p>\n\n\n\n<p><strong>1. <\/strong>En utilisant les s\u00e9quences comprises sous l&#8217;onglet &#8220;S\u00e9quences&#8221;, alignez les 24 diff\u00e9rentes opsines pour les comparer en utilisant l&#8217;outil d&#8217;alignements multiples de s\u00e9quences dEMBL-EBI MUSCLE.<br><strong>2.<\/strong> Suivez les instructions sous l&#8217;onglet &#8220;MUSCLE&#8221; et essayez de r\u00e9pondre aux questions comprises sous l&#8217;onglet &#8220;Questions&#8221;.<\/p>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-fb7f8c0d-e668-4b4b-a403-3125a01d76f8\"><h2>S\u00e9quences<\/h2>\n<p>Vos s\u00e9quences :<\/p>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Bos_rho\nMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Homo_rho\nMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Homo_melan\nMNPPSGPRVPPSPTQEPSCMATPAPPSWWDSSQSSISSLGRLPSISPTAPGTWAAAWVPLPTVDVPDHAHYTLGTVILLVGLTGMLGNLTVIYTFCRSRSLRTPANMFIINLAVSDFLMSFTQAPVFFTSSLYKQWLFGETGCEFYAFCGALFGISSMITLTAIALDRYLVITRPLATFGVASKRRAAFVLLGVWLYALAWSLPPFFGWSAYVPEGLLTSCSWDYMSFTPAVRAYTMLLCCFVFFLPLLIIIYCYIFIFRAIRETGRALQTFGACKGNGESLWQRQRLQSECKMAKIMLLVILLFVLSWAPYSAVALVAFAGYAHVLTPYMSSVPAVIAKASAIHNPIIYAITHPKYRVAIAQHLPCLGVLLGVSRRHSRPYPSYRSTHRSTLTSHTSNLSWISIRRRQESLGSESEVGWTHMEAAAVWGAAQQANGRSLYGQGLEDLEAKAPPRPQGHEAETPGKTKGLIPSQDPRM<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Octopus_rho\nMVESTTLVNQTWWYNPTVDIHPHWAKFDPIPDAVYYSVGIFIGVVGIIGILGNGVVIYLFSKTKSLQTPANMFIINLAMSDLSFSAINGFPLKTISAFMKKWIFGKVACQLYGLLGGIFGFMSINTMAMISIDRYNVIGRPMAASKKMSHRRAFLMIIFVWMWSIVWSVGPVFNWGAYVPEGILTSCSFDYLSTDPSTRSFILCMYFCGFMLPIIIIAFCYFNIVMSVSNHEKEMAAMAKRLNAKELRKAQAGASAEMKLAKISMVIITQFMLSWSPYAIIALLAQFGPAEWVTPYAAELPVLFAKASAIHNPIVYSVSHPKFREAIQTTFPWLLTCCQFDEKECEDANDAEEEVVASERGGESRDAAQMKEMMAMMQKMQAQQAAYQPPPPPQGYPPQGYPPQGAYPPPQGYPPQGYPPQGYPPQGYPPQGAPPQVEAPQGAPPQGVDNQAYQA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Mizuhopecten_Gqops\nMADNKSTLPGLPDINGTLNRSMTPNTGWEGPYDMSVHLHWTQFPPVTEEWHYIIGVYITIVGLLGIMGNTTVVYIFSNTKSLRSPSNLFVVNLAVSDLIFSAVNGFPLLTVSSFHQKWIFGSLFCQLYGFVGGVFGLMSINTLTAISIDRYVVITKPLQASQTMTRRKVHLMIVIVWVLSILLSIPPFFGWGAYIPEGFQTSCTFDYLTKTARTRTYIVVLYLFGFLIPLIIIGVCYVLIIRGVRRHDQKMLTITRSMKTEDARANNKRARSELRISKIAMTVTCLFIISWSPYAIIALIAQFGPAHWITPLVSELPMMLAKSSSMHNPVVYALSHPKFRKALYQRVPWLFCCCKPKEKADFRTSVCSKRSVTRTESVNSDVSSVISNLSDSTTTLGLTSEGATRANRETSFRRSVSIIKGDEDPCTHPDTFLLAYKEVEVGNLFDMTDDQNRRDSNLHSLYIPTRVQHRPTTQSLGTTPGGVYIVDNGQRVNGLTFNS<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Drosophila_rh6\nMASLHPPSFAYMRDGRNLSLAESVPAEIMHMVDPYWYQWPPLEPMWFGIIGFVIAILGTMSLAGNFIVMYIFTSSKGLRTPSNMFVVNLAFSDFMMMFTMFPPVVLNGFYGTWIMGPFLCELYGMFGSLFGCVSIWSMTLIAYDRYCVIVKGMARKPLTATAAVLRLMVVWTICGAWALMPLFGWNRYVPEGNMTACGTDYFAKDWWNRSYIIVYSLWVYLTPLLTIIFSYWHIMKAVAAHEKAMREQAKKMNVASLRNSEADKSKAIEIKLAKVALTTISLWFFAWTPYTIINYAGIFESMHLSPLSTICGSVFAKANAVCNPIVYGLSHPKYKQVLREKMPCLACGKDDLTSDSRTQATAEISESQA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Drosophila_rh2\nMERSHLPETPFDLAHSGPRFQAQSSGNGSVLDNVLPDMAHLVNPYWSRFAPMDPMMSKILGLFTLAIMIISCCGNGVVVYIFGGTKSLRTPANLLVLNLAFSDFCMMASQSPVMIINFYYETWVLGPLWCDIYAGCGSLFGCVSIWSMCMIAFDRYNVIVKGINGTPMTIKTSIMKILFIWMMAVFWTVMPLIGWSAYVPEGNLTACSIDYMTRMWNPRSYLITYSLFVYYTPLFLICYSYWFIIAAVAAHEKAMREQAKKMNVKSLRSSEDCDKSAEGKLAKVALTTISLWFMAWTPYLVICYFGLFKIDGLTPLTTIWGATFAKTSAVYNPIVYGISHPKYRIVLKEKCPMCVFGNTDEPKPDAPASDTETTSEADSKA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Xenopus_melanops\nMDLGKTVEYGTHRQDAIAQIDVPDQVLYTIGSFILIIGSVGIIGNMLVLYAFYRNKKLRTAPNYFIINLAISDFLMSATQAPVCFLSSLHREWILGDIGCNVYAFCGALFGITSMMTLLAISINRYIVITKPLQSIQWSSKKRTSQIIVLVWMYSLMWSLAPLLGWSSYVPEGLRISCTWDYVTSTMSNRSYTMMLCCCVFFIPLIVISHCYLFMFLAIRSTGRNVQKLGSYGRQSFLSQSMKNEWKMAKIAFVIIIVFVLSWSPYACVTLIAWAGHGKSLTPYSKTVPAVIAKASAIYNPIIYGIIHPKYRETIHKTVPCLRFLIREPKKDIFESSVRGSIYGRQSASRKKNSFISTVSTAETVSSHIWDNTPNGHWDRKSLSQTMSNLCSPLLQDPNSSHTLEQTLTWPDDPSPKEILLPSSLKSVTYPIGLESIVKDEHTNNSCVRNHRVDKSGGLDWIINATLPRIVIIPTSESNISETKEEHDNNSEEKSKRTEEEEDFFNFHVDTSLLNLEGLNSSTDLYEVVERFLS<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Platynereis_rops\nMSRSEVLVPGSMSLDGLLTTAHPIGNDSIETILHPYWQQFDIENTIPDSWHYAVAAWMTFFGILGVSGNLLVVWTFLKTKSLRTAPNMLLVNLAIGDMAFSAINGFPLLTISSINKRWVWGKLWRELYAFVGGIFGLMSINTLAWIAIDRFYVITNPLGAAQTMTKKRAFIILTIIWANASLWALAPFFGWGAYIPEGFQTSCTYDYLTQDMNNYTYVLGMYLFGFIFPVAIIFFCYLGIVRAIFAHHAEMMATAKRMGANTGKADADKKSEIQIAKVAAMTIGTFMLSWTPYAVVGVFGMIKPHSEMFIHPLLAEIPVMMAKASARYNPIIYALSHPKFRAEIDKHFPWLLCCCKPKPKAQLPSSTTKGSIASKTEADTSV<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_melanops\nMSHHSSWRGHHCAPGDINCTAGFKESLGSRNYKLLHVPVHGPTHSHHHDPPHPFPTVDVPDHAHYIIGSVILIVGITGVIGNALVVYVFCRSRTLRTAGNMFIVNLAVADFLMSVTQSPVFFAASLHRRWVFGERPCELYAFCGALFGICSMMTLTAIAADRCLAITQPLALVSRVSRRKAGAVFVVVWLYSLGWSLPPFFGWSAYVPEGLQTSCSWDYMTFTPSVRAYTILLFVFVFFIPLGIIGSCYFAIFQTIRAAGKEIRELDCGETHKVYERMQNEWKMAKVALVVILLFIISWSPYSVVALTATAGYSHFLTPYMNSVPAVIAKASAIHNPIIYAITHPKYRVAIARYIPVLRPILRVKEKDLRSSFSSGSVSSRRPTLTSHQCSLGVSMGNAARANGRWGKTRLSSASDSDSCWTESEADGSSVSSLTFGRRVSTEISTDTVILSPGSSVSNASGQKSERAHKVVSVPVPSITFETDAADGESLSDGKALLGGN<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Sepia_rho\nMGRDIPDNETWWYNPTMEVHPHWKQFNQVPDAVYYSLGIFIGICGIIGCTGNGIVIYLFTKTKSLQTPANMFIINLAFSDFTFSLVNGFPLMTISCFIKKWVFGMAACKVYGFIGGIFGLMSIMTMSMISIDRYNVIGRPMAASKKMSHRRAFLMIIFVWMWSTLWSIGPIFGWGAYVLEGVLCNCSFDYITRDSATRSNIVCMYIFAFCFPILIIFFCYFNIVMAVSNHEKEMAAMAKRLNAKELRKAQAGASAEMKLAKISIVIVTQFLLSWSPYAVVALLAQFGPIEWVTPYAAQLPVMFAKASAIHNPLIYSVSHPKFREAIAENFPWIITCCQFDEKEVEDDKDAETEIPATEQSGGESADAAQMKEMMAMMQKMQQQQAAYPPQGAYPPQGGYPPQGYPPPPAQGGYPPQGYPPPPQGYPPAQGYPPQGYPPPQGAPPQGAPPQAAPPQGVDNQAYQA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Takifugu_TMT\nMIVSNVSLSGCAGVNGAVCAAEGHQAGGSDRSTLTPTGNLVVSVFLGFIGTFGLVNNLLVLVLFCRYKMLRSPINLLLMNISISDLLVCVLGTPFSFAASTQGRWLIGEAGCVWYGFANSLFGVVSLISLAVLSFERYSTMMTPTEADPSNYCKVCLGITLSWVYSLVWTVPPLFGWSSYGPEGPGTTCSVNWTAKTTNSISYIICLFVFCLIVPFLVIVFCYGKLLCAIRQVSGINASTSRKREQRVLCMVVIMVICYLLCWLPYGVVALLATFGPPDLVTPEASIIPSVLAKSSTVINPIIYVFMNKQFYRCFLALLCCQDPRSGSSMKSSSKVATKAKGVTPTGQRRTDLLYMVASLGRPAATIPQLGPSFDATNDFTKPPSSDTIKPVVVSLAAHCDG<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Gallus_LWops\nMSSNSSQAPPNGTPGPFDGPQWPYQAPQSTYVGVAVLMGTVVACASVVNGLVIVVSICYKKLRSPLNYILVNLAVADLLVTLCGSSVSLSNNINGFFVFGRRMCELEGFMVSLTGIVGLWSLAILALERYVVVCRPLGDFQFQRRHAVSGCAFTWGWALLWSTPPLLGWSSYVPEGLRTSCGPNWYTGGSNNNSYILSLFVTCFVLPLSLILFSYTNLLLTLRAAAAQQKEADTTQRAEREVTRMVIVMVMAFLLCWLPYSTFALVVATHKGIIIQPVLASLPSYFSKTATVYNPIIYVFMNKQFQSCLLEMLCCGYQPQRTGKASPGTPGPHADVTAAGLRNKVMPAHPV<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Xenopus_Parietops\nMDGNSTTPGIAVNLTVMPTIFPRSGYSILSFLMFLNAVFSICNNAIVILVTLKHPQLRNPINIFILNLSFSDLMMALCGTTIVVSTNYHGYFYLGKQFCIFQGFAVNYFGIVSLWSLTLLAYERYNVVCEPIGALKLSTKRGYQGLVFIWLFCLFWAIAPLFGWSSYGPEGVQTSCSIGWEERSWSNYSYIISYFLTCFIIPVGIIGFSYGSILRSLHQLNRKIEQQGGKTNPREEKRVVIMVLFMVLAFLICWLPYTVFALIVVINPQLYISPLAATLPTYFAKTSPVYNPIIYIFLNKQFRTYAVQCLTCGHINLDSLEEDTESVSAQAENMLTPKTNQVAPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_MW4\nMNGTEGNNFYIPLSNRTGLARSPYEYPQYYLAEPWQFKLLAVYMFFLICLGFPINGLTLLVTAQHKKLRQPLNFILVNLAVAGTIMVCFGFTVTFYTAINGYFVLGPTGCAIEGFMATLGGEVALWSLVVLAVERYIVVCKPMGSFKFSASHAFAGCAFTWVMAMACAAPPLVGWPRYIPEGMQCSCGPDYYTLNPEYNNESYVLYMFICHFILPVTIIFFTYGRLVCTVKAAAAQQQESESTQKAEREVTRMVILMVLGFLIAWTPYATVAAWIFFNKGAAFSAQFMAVPAFFSKTSALYNPVIYVLLNKQFRNCMLTTLFCGKNPLGDDESSTVSTSKTEVSSVSPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_extraocular\nMNGTEGPNFYVPMSNRTGLVRSPFEEPQYYLAEPWQFSLLAAYMLFLILGSFPINALTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTVTLYTALHGYFLLGVTGCNIEGFFATLGGEIALWSLVVLAIERYIVVCKPMSTFRFGEKHAIIGVGFTWVMALTCAVPPLLGWSRYIPEGMQCSCGIDYYTPKPEVHNTSFVIYMFILHFSIPLLIIFFCYSRLLCTVRAAAAQQQESETTQRAEREVTRMVVVMVIAFLVCWVPYASVAWYIFANQGAEFGPVFMTVPAFFAKSAALYNPVIYIMLNRQFRNCMLSTVCCGKNPLAEDESSSAVSSKTQSSVVSSAQVSPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Latimeria_Rh2\nMNGTEGMNFYVPLSNRTGLVRSPFEYTQYYLAEPWKFSVLCAYMFLLIILGFPINFLTLLVTFKHKKLRQPLNYILVNLAVASLFMVVFGFTVTFYSSLNGYFVLGPMGCAMEGFFATLGGQVALWSLVVLAIERYIVVCKPMGNFRFASSHAIMGIAFTWIMALACAAPPLVGWSRYIPEGLQCSCGPDYYTLNPDFHNESYVMYLFLVHFLLPIIIIFFTYGRLICKVKEAAAQQQESASTQKAEKEVTRMVILMVIGFLTAWVPYASAAFWIFCNRGAEFTATLMTVPAFFSKSSCLFNPIIYVLLNKQFRNCMITTLCCGKNPLGDDDTSSAVSQSKTDVSSVSSSQVSPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Xenopus_green_ops\nMSKGRPDLRMEMPDEFYVPIPLETTNISSLSPFLVPQTHLGTPGIFMSISAFMLFTIIFGFPLNLLTIICTVKYKKLRSHLNYILVNLAVANLIVICFGSTTAFYSFSQMYFSLGTLACKIEGFTATLGGIIGLWSLAVVAFERFLVICKPMGNFTFRESHAVLGCILTWVIGLVAAIPPLLGWSRYIPEGLQCSCGPDWYTVNNKWNNESYVLFLFCFCFGFPLAIIVFSYGRLLLALHAVAKQQEQSATTQKAEREVTRMVIVMVVGFLVCWLPYASFALWAVTHRGELFDLRMSSVPSVFSKASTVYNPFIYIFMNRQFRSCMMKMIFCGKNPLGDDEETSVSGSTQVSSVSSSQIAPS<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Xenopus_violet_ops\nMLEEEDFYLFKNVSNVSPFDGPQYHIAPKWAFTLQAIFMGMVFLIGTPLNFIVLLVTIKYKKLRQPLNYILVNITVGGFLMCIFSIFPVFVSSSQGYFFFGRIACSIDAFVGTLTGLVTGWSLAFLAFERYIVICKPMGNFNFSSSHALAVVICTWIIGIVVSVPPFLGWSRYMPEGLQCSCGPDWYTVGTKYRSEYYTWFIFIFCFVIPLSLICFSYGRLLGALRAVAAQQQESASTQKAEREVSRMVIFMVGSFCLCYVPYAAMAMYMVTNRNHGLDLRLVTIPAFFSKSSCVYNPIIYSFMNKQFRGCIMETVCGRPMSDDSSVSSTSQRTEVSTVSSSQVSPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Gallus_blue_ops\nMHPPRPTTDLPEDFYIPMALDAPNITALSPFLVPQTHLGSPGLFRAMAAFMFLLIALGVPINTLTIFCTARFRKLRSHLNYILVNLALANLLVILVGSTTACYSFSQMYFALGPTACKIEGFAATLGGMVSLWSLAVVAFERFLVICKPLGNFTFRGSHAVLGCVATWVLGFVASAPPLFGWSRYIPEGLQCSCGPDWYTTDNKWHNESYVLFLFTFCFGVPLAIIVFSYGRLLITLRAVARQQEQSATTQKADREVTKMVVVMVLGFLVCWAPYTAFALWVVTHRGRSFEVGLASIPSVFSKSSTVYNPVIYVLMNKQFRSCMLKLLFCGRSPFGDDEDVSGSSQATQVSSVSSSHVAPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_LWops\nMAEHWGDAIYAARRKGDETTREAMFTYTNSNNTKDPFEGPNYHIAPRWVYNVATVWMFFVVVASTFTNGLVLVATAKFKKLRHPLNWILVNLAIADLGETLFASTISVINQFFGYFILGHPMCIFEGYTVSVCGIAALWSLTVISWERWVVVCKPFGNVKFDAKWASAGIIFSWVWAAAWCAPPIFGWSRYWPHGLKTSCGPDVFSGSEDPGVQSYMVVLMITCCIIPLAIIILCYIAVYLAIHAVAQQQKDSESTQKAEKEVSRMVVVMIFAYCFCWGPYTFFACFAAANPGYAFHPLAAAMPAYFAKSATIYNPVIYVFMNRQFRVCIMQLFGKKVDDGSEVSTSKTEVSSVAPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_SWops\nMDAWAVQFGNASKVSPFEGEQYHIAPKWAFYLQAAFMGFVFIVGTPMNGIVLFVTMKYKKLRQPLNYILVNISLAGFIFDTFSVSQVSVCAARGYYSLGYTLCSMEAAMGSIAGLVTGWSLAVLAFERYVVICKPFGSFKFGQGQAVGAVVFTWIIGTACATPPFFGWSRYIPEGLGTACGPDWYTKSEEYNSESYTYFLLITCFMMPMTIIIFSYSQLLGALRAVAAQQAESESTQKAEREVSRMVVVMVGSFVLCYAPYAVTAMYFANSDEPNKDYRLVAIPAFFSKSSSVYNPLIYAFMNKQFNACIMETVFGKKIDESSEVSSKTETSSVSA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Homo_MWops\nMAQQWSLQRLAGRHPQDSYEDSTQSSIFTYTNSNSTRGPFEGPNYHIAPRWVYHLTSVWMIFVVIASVFTNGLVLAATMKFKKLRHPLNWILVNLAVADLAETVIASTISVVNQVYGYFVLGHPMCVLEGYTVSLCGITGLWSLAIISWERWMVVCKPFGNVRFDAKLAIVGIAFSWIWAAVWTAPPIFGWSRYWPHGLKTSCGPDVFSGSSYPGVQSYMIVLMVTCCITPLSIIVLCYLQVWLAIRAVAKQQKESESTQKAEKEVTRMVVVMVLAFCFCWGPYAFFACFAAANPGYPFHPLMAALPAFFAKSATIYNPVIYVFMNRQFRNCILQLFGKKVDDGSELSSASKTEVSSVSSVSPA<\/pre>\n\n\n\n<pre class=\"wp-block-preformatted vf-u-text--break\">&gt;Danio_mel_rec1A\nMFMNGSSLNSSALDPSEQALQRPPWVTTTLGCFLIFTIVVDILGNLLVIFSVYRNKKLQNAGNIFVVSLAVADLVVAIYPYPLVLTSIFHRGWNLGYMHCQISGFLMGVSVIGSIFNITGIAINCYCYICHSLKYDKLYSDKNSVCYVLLIWALTVLAIVPNLFVGSLQYDPRVYSCTFEQSASSAYTIAVVFFHFILPIMIVTYCYLRIWVLVIQVRRRVKPDNRPKITPHDVRNFVTMFVVFVLFAVCWAPLNFIGLAVAISPERVVPLIPEWLFVASYFMAYFNSCLNAIVYGVLNQNFRREYKRIVVSVCTARIFFGESSNEAQERLKSKPSPLMTNNNQVKVDSV<\/pre>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-49802ed2-ad8e-4020-8ef1-38a6e6070f30\"><h2>MUSCLE<\/h2>\n<p><strong>1.<\/strong> Collez toutes vos s\u00e9quences d&#8217;acides amin\u00e9es (incluant le symbole &#8220;plus grand que&#8221;, &gt;, et les noms) en une seule fois dans le champ de saisie ci-dessous. (Ou, transf\u00e9rez un <a href=\"http:\/\/emblog.embl.de\/ells\/wp-content\/uploads\/2014\/01\/FASTA_Opsins_part2.txt\" target=\"_blank\" rel=\"noreferrer noopener\">fichier FASTA<\/a> contenant les s\u00e9quences \u00e0 partir de votre ordinateur.)<\/p>\n\n\n\n<p><strong>2.<\/strong> S\u00e9lectionnez le format de sortie ClustalW.<\/p>\n\n\n\n<p><strong>3.<\/strong> Envoyez les s\u00e9quences pour l&#8217;alignement.<\/p>\n\n\n\n<p><strong>4.<\/strong> Les s\u00e9quences multiples d&#8217;opsines sont maintenant align\u00e9es. Vous pouvez voir le r\u00e9sultat sous l&#8217;onglet &#8220;Alignement&#8221; et choisir l&#8217;option &#8220;Affichez les couleurs&#8221; pour obtenir une vue plus contrast\u00e9e.<\/p>\n\n\n\n<p><strong>5.<\/strong> Pour effectuer une analyse plus pouss\u00e9e, nous utiliserons le programme JalView pour observer et modifier l&#8217;alignement. Pour y arriver, effectuez un clic droit sur l&#8217;onglet &#8220;R\u00e9capitulatif des r\u00e9sultats&#8221; puis ouvrez une nouvelle fen\u00eatre &#8220;R\u00e9capitulatif des r\u00e9sultats&#8221; dans un nouvel onglet de votre navigateur (fonction : &#8220;Ouvrir le lien dans un nouvel onglet&#8221;). Dans le nouvel onglet du navigateur, ouvrez l&#8217;alignement en utilisant \u201cJalView\u201d. Veuillez noter que le nouvel onglet du navigateur est n\u00e9cessaire seulement pour permettre \u00e0 JalView de demeurer ouvert pendant l&#8217;activit\u00e9; toutes les \u00e9tapes suivantes de l&#8217;activit\u00e9 pourront \u00eatre effectu\u00e9es normalement sous l&#8217;onglet initial de votre navigateur.<\/p>\n\n\n\n<p class=\"has-text-align-left\"><strong><strong>6.<\/strong> <\/strong>Assurez-vous que vous pouvez voir toutes les 24 s\u00e9quences ci-dessous en augmentant la hauteur de la fen\u00eatre (utilisez le curseur de votre souris pour agrandir la fen\u00eatre vers le haut).<\/p>\n\n\n\n<div class=\"wp-block-image wp-image-4944\"><figure class=\"vf-figure  | vf-figure--align vf-figure--align-centered  size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"170\" height=\"157\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/ells\/wp-content\/uploads\/2021\/05\/IdentityScale_Web.png\" alt=\"\" class=\"wp-image-1440\"\/><figcaption class=\"vf-figure__caption\">Identity Scale<\/figcaption><\/figure><\/div>\n\n\n\n<div class=\"wp-block-image wp-image-4943\"><figure class=\"vf-figure  | vf-figure--align vf-figure--align-centered  size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"435\" height=\"203\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/ells\/wp-content\/uploads\/2021\/05\/HydrophobicityScale_Web.png\" alt=\"\" class=\"wp-image-1439\" srcset=\"https:\/\/www.embl.org\/ells\/wp-content\/uploads\/2021\/05\/HydrophobicityScale_Web.png 435w, https:\/\/www.embl.org\/ells\/wp-content\/uploads\/2021\/05\/HydrophobicityScale_Web-300x140.png 300w\" sizes=\"auto, (max-width: 435px) 100vw, 435px\" \/><figcaption class=\"vf-figure__caption\">Hydrophobicity Scale<\/figcaption><\/figure><\/div>\n\n\n\n<p>Dans JalView, vous pouvez s\u00e9lectionner diff\u00e9rents crit\u00e8res de couleur pour l&#8217;alignement (allez dans la section &#8220;Couleur&#8221; pour les s\u00e9lectionner). Par exemple, vous pouvez choisir la coloration en fonction du pourcentage d&#8217;identit\u00e9 ou de l&#8217;hydrophobicit\u00e9 des r\u00e9sidus individuels d&#8217;acides amin\u00e9s.<\/p>\n\n\n\n<p><strong>7.<\/strong> Au bas de la fen\u00eatre JalView, vous pouvez voir les r\u00e9sultats des alignements qui sont repr\u00e9sent\u00e9s par des barres de s\u00e9quence d&#8217;identit\u00e9\/similarit\u00e9. Est-ce que vous remarquez certaines particularit\u00e9s ? Essayez de r\u00e9pondre aux questions sous l&#8217;onglet &#8220;Questions&#8221;.<\/p>\n\n\n\n<p><strong>Note :<\/strong> veuillez ne pas fermer la fen\u00eatre JalView lorsque vous aurez termin\u00e9 cette partie de l&#8217;activit\u00e9; vous en aurez besoin dans le prochain exercice.<\/p>\n\n\n<div\n  class=\"vf-embed vf-embed--custom-ratio\"\n\n  style=\"--vf-embed-max-width: 100%;\n    --vf-embed-custom-ratio-x: 640;\n    --vf-embed-custom-ratio-y: 360;\"\n><iframe loading=\"lazy\" width=\"640\" height=\"360\" src=\"https:\/\/www.ebi.ac.uk\/Tools\/msa\/muscle\/\" frameborder=\"0\" allow=\"accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture\" allowfullscreen><\/iframe><\/div>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-f3293f44-6770-44b4-aa21-2e837496da09\"><h2>Questions<\/h2>\n<p><strong><strong>1.<\/strong> <\/strong>Que pouvez-vous d\u00e9duire \u00e0 partir de cet alignement ?<strong><br><strong>2.<\/strong> <\/strong>Y a-t-il des segments de s\u00e9quences qui sont plus conserv\u00e9s que d&#8217;autres ? Si oui, combien pouvez-vous en identifier ? Quelle est leur nature biochimique ? (Sont-ils plut\u00f4t basiques, acides, hydrophobes ou hydrophiles ?)<strong><br><strong>3.<\/strong> <\/strong>Y a-t-il des r\u00e9sidus conserv\u00e9s ou de petits motifs qui sont pr\u00e9sents dans toutes les s\u00e9quences ? Soyez prudent, l&#8217;une des s\u00e9quences &#8211; &#8220;Danio_mel_rec1A&#8221; &#8211; n&#8217;est pas une opsine mais une mol\u00e9cule apparent\u00e9e \u00e9volu\u00e9e (qui sera pertinente pour la prochaine partie de l&#8217;activit\u00e9).<\/p>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-52f5c833-db34-493c-919c-efbbcbcdb5cc\"><h2>Navigation d\u2018activit\u00e9<\/h2>\n<ul class=\"wp-block-list\"><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/?lang=fr\" data-type=\"teachingbase\" data-id=\"28421\">Exploration de l&#8217;\u00e9volution des prot\u00e9ines photosensibles<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-1-search-for-protein-identity\/?lang=fr\" data-type=\"teachingbase\" data-id=\"28442\">Partie 1: \u00c0 la recherche de l\u2019identit\u00e9 des prot\u00e9ines<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-2-multiple-sequence-alignment-of-protein-sequences\/?lang=fr\" data-type=\"teachingbase\" data-id=\"28456\">Partie 2 : Alignements multiples des s\u00e9quences de prot\u00e9ines<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-3-phylogenetic-analysis-of-aligned-protein-sequences\/?lang=fr\" data-type=\"teachingbase\" data-id=\"28476\"><strong>Partie 3 : Analyses phylog\u00e9n\u00e9tiques des alignements de s\u00e9quences de prot\u00e9ines<\/strong><\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/opsins-bioinformatics\/part-4-topological-and-structural-analysis-of-proteins\/?lang=fr\" data-type=\"teachingbase\" data-id=\"28499\">Partie 4 : Analyses topologique et structurelle des prot\u00e9ines<\/a><\/li><\/ul>\n<\/section>\n<\/div><\/div>\n\n\n\n<p><\/p>\n\n\n\n<p><\/p>\n<\/div><\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"featured_media":28457,"parent":28421,"menu_order":3,"template":"","class_list":["post-28456","teachingbase","type-teachingbase","status-publish","has-post-thumbnail","hentry"],"acf":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase\/28456","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase"}],"about":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/types\/teachingbase"}],"up":[{"embeddable":true,"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase\/28421"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/media\/28457"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/media?parent=28456"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}