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

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(→‎Blosum62/PAM1/PAM250)
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=== Blosum62/PAM1/PAM250 ===
  
=== Blosum62/PAM1/PAM250 ===
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<figtable id="TODO_ID">
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{| class="wikitable" style="width: 250px; 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" |BLOSUM62
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |PAM1
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! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |PAM250
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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
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |6
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |500
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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" |1
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |4
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |200
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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" |-2
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |0
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |200
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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" |0
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |20
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |700
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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
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |28
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |900
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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
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |2
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |300
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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" |-1
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |7
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |400
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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" |-3
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |2
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |200
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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" |1
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |7
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |800
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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" |-1
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |11
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |700
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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>
   
   

Revision as of 22:29, 14 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 Hydrophobicity (wt) Hydrophobicity (mt) Polarity (wt) Polarity (mt) pI (wt) pI (mt) v.d.W. volume (wt) v.d.W. volume (mt)
M35T 1.9 -0.7 nonpolar polar 5.74 5.60 124 93
V53M 4.2 1.9 nonpolar nonpolar 6.00 5.74 105 124
G93R -0.4 -4.5 nonpolar polar 6.06 10.76 48 148
Q127H -3.5 -3.2 polar polar 5.65 7.60 114 118
A162S 1.8 -0.8 nonpolar polar 6.01 5.68 67 73
L183P 3.8 -1.6 nonpolar nonpolar 6.01 6.30 124 90
T217I -0.7 4.5 polar nonpolar 5.60 6.05 93 124
R224W -4.5 -0.9 polar nonpolar 10.76 5.89 148 163
E277K -3.5 -3.9 polar polar 3.15 9.60 109 135
C282S 2.5 -0.8 polar polar 5.05 5.68 86 73
TODO: description.

</figtable>


Evolutionary analysis


Blosum62/PAM1/PAM250

<figtable id="TODO_ID">

Mutation BLOSUM62 PAM1 PAM250
M35T -1 6 500
V53M 1 4 200
G93R -2 0 200
Q127H 0 20 700
A162S 1 28 900
L183P -3 2 300
T217I -1 7 400
R224W -3 2 200
E277K 1 7 800
C282S -1 11 700
TODO: description.

</figtable>



PSSM


MSA conservation


M35T


V53M


G93R


Q127H


A162S


L183P


T217I


R224W


E277K


C282S


References

<references/>

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