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</o:shapelayout></xml><![endif]--></head><body lang=EN-GB link=blue vlink=purple><div class=WordSection1><div><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>BioSB course Protein Structures: production, prowess, power, promises, and problems (4th edition)</span></b><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Date:</span></b><span style='font-family:"Arial",sans-serif;color:black'> 31 October - 3 November 2017</span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Location: </span></b><span style='font-family:"Arial",sans-serif;color:black'>CMBI, Radboudumc, Nijmegen, the Netherlands</span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Course coordinator:</span></b><span style='font-family:"Arial",sans-serif;color:black'> Gert Vriend (CMBI, Radboudumc)</span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Lecturers: </span></b><span style='font-family:"Arial",sans-serif;color:black'>Daniel Hoffmann (University Duisburg/Essen (TBC)), Hanka Venselaar (CMBI), Wouter Touw (CMBI)</span><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Website</span></b><span style='font-family:"Arial",sans-serif;color:black'>: </span><a href="http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/"><span style='font-family:"Arial",sans-serif'>course website</span></a><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Registration:</span></b><span style='font-family:"Arial",sans-serif;color:black'> </span><span style='font-family:"Arial",sans-serif'><a href="http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/enrollment-protein-structures-course/">registration form</a></span><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Target audience</span></b><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>The course is suitable for both PhD students working in structural bioinformatics as well as for PhD students in the life sciences who want to learn more about using structural informatioin in their research. The course schedule accommodates both groups, parallel sessions for both groups will be scheduled when necessary.</span><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Course Description</span></b><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>In the right hands, protein structures are a ‘power’ful tool to answer bio-molecular questions. Knowledge of the structure is a pre-requisite for rational drug design, for biotechnology, for chemical biology, and for answering a whole series of biomedical questions. In this course we will discuss the ‘production’ of protein structures by NMR, X-ray, and homology modelling. These methods all have their pro’s and cons so a certain ‘prowess’ is needed to follow all ‘promises’ and start attacking bio-medical ‘problems’ using protein structures.</span><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>The course will be split in three parts:</span><o:p></o:p></p><ul style='margin-top:0cm' type=disc><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l1 level1 lfo1;vertical-align:baseline'><span style='font-family:"Arial",sans-serif;color:black'>Part 1) Looking and seeing things in protein structures, learning to operate the software, understanding some of the algorithms.</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l1 level1 lfo1;vertical-align:baseline'><span style='font-family:"Arial",sans-serif;color:black'>Part 2) Protein structure determination (prediction) with NMR, X-ray, and homology modelling, and the possibilities and problems that come with each of these three techniques.</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l1 level1 lfo1;vertical-align:baseline'><span style='font-family:"Arial",sans-serif;color:black'>Part 3) Applying all that was learned in real-life example studies.</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li></ul><p class=MsoNormal><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span style='font-family:"Arial",sans-serif;color:black'>Course topics</span></b><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Day 1: Homology modelling seminar </span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Day 2: Protein structure comparison seminars </span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Day 3: Electrostatics and molecular dynamics seminars </span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Day 4: Protein structure determination and validation seminars </span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Day 5: Own project executed with help from CMBI staff</span><o:p></o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><o:p> </o:p></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>Examples of questions you will be able to answer after follwing the course:</span><o:p></o:p></p><ul style='margin-top:0cm' type=disc><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l0 level1 lfo2;vertical-align:baseline;font-variant-ligatures:normal;font-variant-caps:normal'><span style='font-family:"Arial",sans-serif;color:black'>Why is a person with this mutation sick? Or in other words, how does the molecular phenotype cause a disease state?</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l0 level1 lfo2;vertical-align:baseline;font-variant-ligatures:normal;font-variant-caps:normal'><span style='font-family:"Arial",sans-serif;color:black'>This enzyme converts mannose. Can I make is specificity broader?</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l0 level1 lfo2;vertical-align:baseline;font-variant-ligatures:normal;font-variant-caps:normal'><span style='font-family:"Arial",sans-serif;color:black'>This enzyme doesn’t function in my in vitro assay. Should I add some ions?</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l0 level1 lfo2;vertical-align:baseline;font-variant-ligatures:normal;font-variant-caps:normal'><span style='font-family:"Arial",sans-serif;color:black'>I want to add a tag to my enzyme, should I put it on the N-terminus, the C-terminus, or is something different needed?</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li><li style='color:#404040;margin-top:0cm;margin-bottom:0cm;margin-bottom:.0001pt;mso-list:l0 level1 lfo2;vertical-align:baseline;font-variant-ligatures:normal;font-variant-caps:normal'><span style='font-family:"Arial",sans-serif;color:black'>This receptor binds a ligand, but if I look at the structure, that ligand doesn’t fit at all. Can I predict motions that take place upon ligand binding?</span><span style='font-family:"Arial",sans-serif'><o:p></o:p></span></li></ul><div><p class=MsoNormal><o:p> </o:p></p></div><div><p class=MsoNormal><span style='font-family:"Arial",sans-serif;color:black'>This course is part of the</span><a href="http://biosb.nl/education/course-portfolio-2/"><span style='font-family:"Arial",sans-serif'> Education Programme of BioSB</span></a><span style='font-family:"Arial",sans-serif;color:black'>, the Netherlands Bioinformatics and Systems Biology Research School, which offers training and education for in bioinformatics and systems biology.</span><o:p></o:p></p></div><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-family:"Arial",sans-serif;color:black'>More information about BioSB can be found at </span><a href="http://www.biosb.nl/"><span style='font-family:"Arial",sans-serif'>www.biosb.nl</span></a><span style='font-family:"Arial",sans-serif;color:black'>.</span><o:p></o:p></p><p class=MsoNormal style='margin-bottom:12.0pt'><o:p> </o:p></p><div><div><div><div><div><div><div><div><div><div><div><div><div><div><div><div><div><div><div><p class=MsoNormal><b><span style='font-size:12.0pt;font-family:"Arial",sans-serif;color:black'></span></b><b><span style='font-size:12.0pt;font-family:"Trebuchet MS",sans-serif;color:black'><o:p></o:p></span></b></p></div><div><p class=MsoNormal><b><span style='font-size:12.0pt;font-family:"Arial",sans-serif;color:black'></span></b><b><span style='font-size:12.0pt;font-family:"Trebuchet MS",sans-serif;color:black'><o:p></o:p></span></b></p></div></div><div><div><p class=MsoNormal><b><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Femke Francissen</span></b><span style='font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Community manager</span><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>BioSB Research School</span><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p> </o:p></span></p></div><div><div><p class=MsoNormal><i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:red'>NEW </span></i><i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:black'>V</span></i><i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>isiting address (as of 1 July 2017): </span></i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Jaarbeurs Innovation Mile (JIM) | 6th floor Beatrixgebouw | Jaarbeursplein 6 | 3521 AL Utrecht</span><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><div><p class=MsoNormal><i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:red'>NEW </span></i><i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Postal address (as of 1 July 2017): </span></i><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Postbus 8500 | 3503 RM Utrecht</span><span style='font-size:13.5pt;color:black'><o:p></o:p></span></p></div></div></div><div><p class=MsoNormal><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p> </o:p></span></p></div></div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>E-mail: </span><span style='font-size:10.5pt;color:black'><a href="mailto:femke.francissen@biosb.nl" target="_blank"><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#1155CC'>femke.francissen@biosb.nl</span></a></span><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'> </span><span style='font-size:10.5pt;color:black'><o:p></o:p></span></p></div><div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Mobile: +31 6 17 90 4888</span><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Skype: femke.francissen</span><span style='font-size:10.5pt;font-family:"Arial Unicode MS",serif;color:#484848'><o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:#484848'>Website: </span><span style='font-size:9.0pt;font-family:"Arial Unicode MS",serif;color:purple'><a 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