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<p class="MsoNormal" style="margin-bottom:12.0pt;line-height:12.65pt"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">BioSB course Protein Structures: production, prowess, power, promises, and problems (3<sup>rd</sup>
edition)</span></b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><br>
<br>
<br>
<u>Date:</u> 9–13 Nov 2015 <br>
<u>Course coordinator</u>: Gert Vriend<br>
<u>Location:</u> Center for Molecular and Biomolecular Informatics (CMBI), Radboudumc, Nijmegen, the Netherlands<br>
<u>Website: <a href="http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/"><span style="color:windowtext">http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/</span></a></u><br>
<u>Registration:</u> <a href="http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/enrollment-protein-structures-course/">
<span style="color:windowtext">http://biosb.nl/education/course-portfolio/protein-structures-production-prowess-power-promises-and-problems/enrollment-protein-structures-course/</span></a>. Please note that this course is free of charge for PhDs who are or
will become a member of the BioSB research school, and with a reduced fee for other researchers who are or will become a member of BioSB. More information about the BioSB membership can be found here:
<a href="http://biosb.nl/about/members/biosb-membership-information/"><span style="color:windowtext">http://biosb.nl/about/members/biosb-membership-information/</span></a> .<o:p></o:p></span></p>
<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">Target audience</span></b><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:12.0pt"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">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.
<br>
The course schedule accommodates both groups, parallel sessions for both groups will be scheduled when necessary.
</span><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">Course Description
</span></b><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:12.0pt"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">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><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">The course will be split in three parts.</span><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">Part 1) Looking and seeing things in protein structures, learning to operate the software, understanding some of the algorithms.</span><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">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-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext">Part 3) Applying all that was learned in real-life example studies.</span><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><br>
<b>Course topics<br>
</b><br>
Day 1: Homology modelling <br>
Day 2: Protein structure comparison <br>
Day 3: Electrostatics and molecular dynamics <br>
Day 4: Protein structure determination and validation<br>
Day 5: Own project executed with help from CMBI staff.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><br>
Examples of questions you will be able to answer after following the course:</span><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoListParagraph" style="margin-left:54.0pt;text-indent:-18.0pt"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">· 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-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoListParagraph" style="margin-left:54.0pt;text-indent:-18.0pt"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">· This enzyme converts mannose. Can I make is specificity broader?</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoListParagraph" style="margin-left:54.0pt;text-indent:-18.0pt"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">· This enzyme doesn't function in my in vitro assay. Should I add some ions?</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoListParagraph" style="margin-left:54.0pt;text-indent:-18.0pt"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">· 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-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoListParagraph" style="margin-left:54.0pt;text-indent:-18.0pt"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">· 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-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"> <o:p></o:p></span></b></p>
<p class="MsoNormal"><b><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p> </o:p></span></b></p>
<p class="MsoNormal" style="margin-bottom:10.0pt;line-height:12.65pt"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext">BioSB Education Programme</span></b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:windowtext"><br>
This course is part of the Education Programme of BioSB, the Netherlands Bioinformatics and Systems Biology research school, which offers training and education for in bioinformatics and systems biology.<br>
More information about BioSB can be found at <a href="http://www.biosb.nl/" target="_blank"><span style="color:windowtext">www.biosb.nl</span></a>. <o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:12.0pt"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p> </o:p></span></p>
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</div>
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</div>
<p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"> </span></b><span lang="EN-US" style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Dr. Celia W.G. van Gelder<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Education Manager BioSB<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Coordinator Education CMBI<o:p></o:p></span></p>
<p class="MsoNormal" style="margin-bottom:12.0pt;line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Programme Manager Learning DTL/ELIXIR-NL<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">tel. +31613375327<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">e-mail:
</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><a href="mailto:Celia.vanGelder@radboudumc.nl"><span lang="EN-US" style="color:#1F497D">Celia.vanGelder@radboudumc.nl</span></a></span><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">websites:
</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><a href="http://www.nbic.nl/"><span lang="EN-US" style="color:#1F497D">www.nbic.nl</span></a></span><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">,
</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><a href="www.biosb.nl"><span lang="EN-US" style="color:#1F497D">www.biosb.nl</span></a></span><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">,
</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><a href="http://www.cmbi.ru.nl/"><span lang="EN-US" style="color:#1F497D">www.cmbi.ru.nl</span></a></span><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">,
</span><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><a href="www.dtls.nl"><span lang="EN-US" style="color:#1F497D">www.dtls.nl</span></a></span><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Postal address:<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">CMBI 260<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Radboud University Nijmegen-Medical Centre<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">PO Box 9101<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">6500 HB Nijmegen The Netherlands<o:p></o:p></span></p>
<p class="MsoNormal" style="line-height:normal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;line-height:115%;font-family:"Calibri","sans-serif";color:windowtext"><o:p> </o:p></span></p>
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<p style="font-size:13px;font-family:arial;">Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629.<br>
The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.<br>
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