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

From Bioinformatikpedia
(→‎Amino acid features)
(→‎Amino acid features)
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<figtable id="TODO_ID">
  
<figtable id="TODO_ID">
−
{| class="wikitable" style="width: 1000px; margin: 1em 1em 1em 0; border-collapse: collapse; border-style: solid; border-width:0px; border-color: #000"
 +
{| class="wikitable" style="width: 900px; margin: 1em 1em 1em 0; border-collapse: collapse; border-style: solid; border-width:0px; border-color: #000"
 
|-
  
|-
 
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Mutation
  
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Mutation
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobic (wt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobicity (wt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobic (mt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Hydrophobicity (mt)
 
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (wt)
  
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (wt)
 
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (mt)
  
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Polarity (mt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Charge (wt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pI (wt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Charge (mt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pI (mt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pH (wt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |v.d.W. volume (wt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |pH (mt)
 +
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |v.d.W. volume (mt)
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Volume (wt)
  
−
! style="text-align:left; border-style: solid; border-width: 1px 1px 2px 1px" |Volume (mt)
  
 
|-
  
|-
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |M35T
  
| 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" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.74
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.6
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |93
  
| 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" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.74
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |105
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |105
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
  
| 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" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6.06
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |10.76
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |strongly basic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |48
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |48
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |148
  
| 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" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.65
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral/positive
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |7.6
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |114
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |114
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |118
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |118
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6.01
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.68
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |67
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |67
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |73
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |73
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6.01
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6.3
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |90
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |90
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.6
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |6.05
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |93
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |93
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |124
  
| 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" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |nonpolar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |10.76
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.89
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |strongly basic
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak basic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |148
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |148
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |163
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |163
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |negative
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |3.15
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |positive
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |9.6
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |acidic
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |basic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |109
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |109
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |135
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |135
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| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |polar
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.05
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |neutral
 +
| style="border-style: solid; border-width: 1px 1px 1px 1px" |5.68
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |acidic
  
−
| style="border-style: solid; border-width: 1px 1px 1px 1px" |weak acidic
  
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |86
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |86
 
| style="border-style: solid; border-width: 1px 1px 1px 1px" |73
  
| style="border-style: solid; border-width: 1px 1px 1px 1px" |73

Revision as of 16:51, 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 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 5.6 124 93
V53M 4.2 1.9 nonpolar nonpolar 6 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 7.6 114 118
A162S 1.8 -0.8 nonpolar polar 6.01 5.68 67 73
L183P 3.8 -1.6 nonpolar nonpolar 6.01 6.3 124 90
T217I -0.7 4.5 polar nonpolar 5.6 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 9.6 109 135
C282S 2.5 -0.8 polar polar 5.05 5.68 86 73
TODO: description.

</figtable>


PyMol visualization


Secondary structure


DUMMY


References


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