Difference between revisions of "Sequence-Based Mutation Analysis Hemochromatosis"

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(→‎Amino acid features)
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== Amino acid features ==
  
== Amino acid features ==
   
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<figtable id="TODO_ID">
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{| class="wikitable" style="width: 1000px; margin: 1em 1em 1em 0; border-collapse: collapse; border-style: solid; border-width:0px; border-color: #000"
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|-
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Mutation
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobic (wt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobic (mt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (wt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (mt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Charge (wt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Charge (mt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pH (wt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pH (mt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Volume (wt)
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Volume (mt)
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |M35T
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |1.9
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.7
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |93
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |V53M
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |4.2
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |1.9
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |105
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |G93R
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.4
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-4.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |strongly basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |48
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |148
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |Q127H
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-3.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-3.2
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral/positive
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |114
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |118
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |A162S
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |1.8
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.8
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |67
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |73
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |L183P
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |3.8
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-1.6
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |90
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |T217I
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.7
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |4.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |93
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |R224W
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-4.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.9
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |strongly basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |148
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |163
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |E277K
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-3.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-3.9
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |negative
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |basic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |109
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |135
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|-
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |C282S
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |2.5
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |-0.8
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |86
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |73
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|-
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|+ style="caption-side: top; text-align: left" | <font size=1>'''TODO''': description.
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|}
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</figtable>
   
 
<br style="clear:both;">
  
<br style="clear:both;">

Revision as of 16:34, 13 June 2012

Hemochromatosis>>Task 6: Sequence-based mutation analysis


Riddle of the Task

Coming soon...


Short task description

Detailed description: Sequence-based mutation analysis


Protocol

A protocol with a description of the data acquisition and other scripts used for this task is available here.


SNPs

From MSUD: M35T V53M G93R Q127H A162S L183P T217I R224W E277K C282S


Amino acid features

<figtable id="TODO_ID">

Mutation Hydrophobic (wt) Hydrophobic (mt) Polarity (wt) Polarity (mt) Charge (wt) Charge (mt) pH (wt) pH (mt) Volume (wt) Volume (mt)
M35T 1.9 -0.7 nonpolar polar neutral neutral neutral weak acidic 124 93
V53M 4.2 1.9 nonpolar nonpolar neutral neutral neutral neutral 105 124
G93R -0.4 -4.5 nonpolar polar neutral positive neutral strongly basic 48 148
Q127H -3.5 -3.2 polar polar neutral neutral/positive weak basic weak basic 114 118
A162S 1.8 -0.8 nonpolar polar neutral neutral neutral weak acidic 67 73
L183P 3.8 -1.6 nonpolar nonpolar neutral neutral neutral neutral 124 90
T217I -0.7 4.5 polar nonpolar neutral neutral weak acidic neutral 93 124
R224W -4.5 -0.9 polar nonpolar positive neutral strongly basic weak basic 148 163
E277K -3.5 -3.9 polar polar negative positive acidic basic 109 135
C282S 2.5 -0.8 polar polar neutral neutral acidic weak acidic 86 73
TODO: description.

</figtable>


PyMol visualization


Secondary structure


DUMMY


References


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