User:Michael Strong/H1N1: Difference between revisions
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<scene name='User:Michael_Strong/H1N1/NS1/MSA/All/2'>All Polymorphisms</scene> | <scene name='User:Michael_Strong/H1N1/NS1/MSA/All/2'>All Polymorphisms</scene> | ||
== NS2 Protein Structural Homolgy Model == | |||
<applet load='MNS22.pdb' size='300' frame='true' align='center' caption='NS2 Homology Model, Mexico Strain, [http://www.ncbi.nlm.nih.gov/nuccore/FJ998220 A/Mexico/InDRE4487/2009 NS2], residues 64-116, 94% sequence identity to pdp template [http://proteopedia.org/wiki/index.php/1pd3 1pd3]' scene ='User:Michael_Strong/H1N1/NS2/MSA/1/1'/> | |||
=== NS2 Sequence Polymorphisms === | |||
{| class="wikitable" | |||
|Protein | |||
|Polymorphism | |||
|Strain with Polymorphism | |||
|Number of Strains with Polymorphism | |||
|---- | |||
|NS2 | |||
|E63K | |||
|gi|229783374_A/Korea/01/2009 | |||
|1 | |||
|---- | |||
|NS2 | |||
|E67K | |||
|gi|229598887_A/Texas/15/2009 | |||
|1 | |||
|<scene name='User:Michael_Strong/H1N1/NS2/MSA/67/1'>67</scene> | |||
|---- | |||
|NS2 | |||
|A89E | |||
|gi|228017754_A/California/06/2 | |||
|3 | |||
|<scene name='User:Michael_Strong/H1N1/NS2/MSA/89/1'>89</scene> | |||
|---- | |||
|NS2 | |||
|A115T | |||
|gi|229892755_A/Canada-NS/RV153 | |||
|1 | |||
|<scene name='User:Michael_Strong/H1N1/NS2/MSA/115/1'>115</scene> | |||
|---- | |||
|} | |||
<scene name='User:Michael_Strong/H1N1/NS2/MSA/All/1'>All Polymorphisms</scene> | |||
==Multiple Sequence Alignment of 5 H1N1 Strains== | |||
===multiple sequence alignment of PB2=== | ===multiple sequence alignment of PB2=== | ||
| Line 819: | Line 858: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of PB1=== | |||
'''PB1''' | '''PB1''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 938: | Line 978: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of PA=== | |||
'''PA''' | '''PA''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 1,052: | Line 1,093: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of HA=== | |||
'''HA''' | '''HA''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 1,142: | Line 1,184: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of NP=== | |||
'''NP''' | '''NP''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 1,223: | Line 1,266: | ||
**** | **** | ||
</PRE><SPAN class=3Dpsmall> | </PRE><SPAN class=3Dpsmall> | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of NA=== | |||
'''NA''' | '''NA''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 1,301: | Line 1,346: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of MP=== | |||
'''MP''' | '''MP''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||
| Line 1,349: | Line 1,395: | ||
-------------------- | -------------------- | ||
===multiple sequence alignment of NS=== | |||
'''NS''' | '''NS''' | ||
<PRE>CLUSTAL 2.0.10 = | <PRE>CLUSTAL 2.0.10 = | ||