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Protein Conservation 8
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Protein Similarity
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<font face="verdana, arial, helvetica, sans-serif" size="5">Across all of
the organisms on earth, there are some similarities. You may not think you
have much in common with a bacterium, a butterfly, a lily, or a liger* but
in fact, you have some very similar proteins. </font><br><br><font face="verdana, arial, helvetica, sans-serif" size="3">*A
liger, the offspring of a lion and a tiger, is Napolean Dynamite's
favorite animal. </font>
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org.concord.modeler.text.LineIcon700.0305515<html><body align="center"><strong><font size="5" face="Verdana, Arial, Helvetica, sans-serif" color="rgb(051, 051, 051)">Different Creatures, Similar Proteins</font></strong></body></html>-46544255
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<font face="verdana, arial, helvetica, sans-serif" size="4"><b>Thymidine
Synthase</b><br>Thymidine synthase is an enzyme required for
making one of the building blocks of DNA. Because DNA is essential
to life, the need for this enzyme is universal, and it can be
found in virtually every organism on earth.<br><br><b>Use the
controls below to compare thymidine synthase from three different
species.</b></font>
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<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><b>Species:</b></font>
<table cellspacing="0" cellpadding="0" border="0">
<tr>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><input alt="show all amino acids" value="checkbox" script="script:jmol:1:display displayed or model=1;" script_deselected="script:jmol:1:display displayed and not model=1;" checked="checked" name="checkbox1" type="checkbox">
</font>
</td>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" color="#ff0000" size="4"><b>human  </b></font>
</td>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><input alt="show only hydrophilic amino acids" value="checkbox" script="script:jmol:1:display displayed or model=2;" script_deselected="script:jmol:1:display displayed and not model=2;" name="checkbox2" type="checkbox">
</font>
</td>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" color="#0000dd" size="4"><b>rat  </b></font>
</td>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><input alt="show only hydrophobic amino acids" value="checkbox" script="script:jmol:1:display displayed or model=3" script_deselected="script:jmol:1:display displayed and not model=3;" name="checkbox3" type="checkbox">
</font>
</td>
<td>
<font face="Verdana, Arial, Helvetica, sans-serif" color="#11dd11" size="4"><b>bacteria</b></font>
</td>
<td>
 
</td>
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<hr>
<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><b>Display
styles:</b></font>
</td>
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<tr>
<td width="50%">
<strong><font face="verdana, arial, sans-serif" size="3"><input value="radio" script="script:jmol:1:select all; cpk 25%; wireframe 0.3;backbone off; cartoon off;" checked="checked" name="RadioGroup2" type="radio">
</font></strong><font face="verdana, arial, sans-serif" size="3">ball
& stick<br><input value="radio" script="script:jmol:1:select all; cpk; backbone off; cartoon off;" name="RadioGroup2" type="radio">spacefill  </font>
</td>
<td>
<font face="verdana, arial, sans-serif" size="3"><input value="radio" script="script:jmol:1:select all; cpk off; wireframe off; cartoon off; backbone 0.25;" name="RadioGroup2" type="radio">
backbone<br><input value="radio" script="script:jmol:1:select all; cpk off; wireframe off; cartoon on; backbone off;" name="RadioGroup2" type="radio">cartoon</font>
</td>
</tr>
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<hr>
<font face="Verdana, Arial, Helvetica, sans-serif" size="3"><b>Color:</b><br><input value="radio" script="script:jmol:1:select sidechain and model=1; color red; select sidechain and model=2; color [x0000dd]; select sidechain and model=3; color [x11dd11];" checked="checked" name="RadioGroup3" type="radio">
monotones    <input value="radio" script="script:jmol:1:select sidechain and model=1; color pink; select sidechain and model=2; color [xaaaaff]; select sidechain and model=3; color [xaaffaa];" name="RadioGroup3" type="radio">
sidechains lighter</font>
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<font face="verdana, arial, helvetica, sans-serif" size="4"><b>Use the
controls above to explore thymidine synthase. Then take snapshots to anwer
the challenges below. In the snapshot, use the text annotation button <img src="textAnnotation.gif">
to explain your answer.</b><br><br>Find a view that clearly shows... </font>
<ol>
<li>
<font size="4" face="verdana, arial, helvetica, sans-serif">a
difference in the folding of thymidine synthase between two species. </font>
</li>
<li>
<font size="4" face="verdana, arial, helvetica, sans-serif">a region
where folding is the same in two or more species. </font>
</li>
<li>
<font size="4" face="verdana, arial, helvetica, sans-serif">a
difference in the side chains of two or more species. </font>
</li>
<li>
<font size="4" face="verdana, arial, helvetica, sans-serif">a side
chain that is identical, and occupies the same position in two species.</font>
</li>
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