Difference between revisions of "Task 4: Homology-based structure prediction"

From Bioinformatikpedia
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===HHpred===
  
===HHpred===
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{|class="wikitable" border="1" style="border-spacing:0;text-align: right;"
−
{
  
  +
!Region
−
|Bah
  
  +
!PolyPhobius Start
−
|
  
  +
!Stop
−
|
  
  +
!UniProt Start
  +
!Stop
  +
!OPM Start
  +
!Stop
  +
!PDBTM Start
  +
!Stop
 
|-
  
|-
  +
|1.transmembrane
−
|blubb
  
−
|
 +
|30
−
|
 +
|55
  +
|33
  +
|55
  +
|34
  +
|52
  +
|35
  +
|52
 
|-
  
|-
  +
|2.transmembrane
−
}
  
  +
|66
  +
|88
  +
|66
  +
|88
  +
|67
  +
|91
  +
|68
  +
|84
  +
|-
  +
|3.transmembrane
  +
|105
  +
|126
  +
|105
  +
|126
  +
|101
  +
|126
  +
|109
  +
|123
  +
|-
  +
|4.transmembrane
  +
|150
  +
|170
  +
|150
  +
|170
  +
|150
  +
|170
  +
|152
  +
|166
  +
|-
  +
|5.transmembrane
  +
|188
  +
|212
  +
|188
  +
|212
  +
|187
  +
|209
  +
|191
  +
|206
  +
|-
  +
|6.transmembrane
  +
|329
  +
|352
  +
|330
  +
|351
  +
|330
  +
|351
  +
|334
  +
|347
  +
|-
  +
|7.transmembrane
  +
|367
  +
|386
  +
|367
  +
|388
  +
|363
  +
|386
  +
|368
  +
|382
  +
|-
  +
|}
   
 
===COMA===
  
===COMA===

Revision as of 13:57, 30 May 2012

More detailed information about the generation of the results can be found in the Task 4 Protocol.

Datasets

In order to generate a model for our protein we first need to find homologous structures on which we base our model on. For this task we use HHpred and COMA.

HHpred

Region PolyPhobius Start Stop UniProt Start Stop OPM Start Stop PDBTM Start Stop
1.transmembrane 30 55 33 55 34 52 35 52
2.transmembrane 66 88 66 88 67 91 68 84
3.transmembrane 105 126 105 126 101 126 109 123
4.transmembrane 150 170 150 170 150 170 152 166
5.transmembrane 188 212 188 212 187 209 191 206
6.transmembrane 329 352 330 351 330 351 334 347
7.transmembrane 367 386 367 388 363 386 368 382

COMA

blah

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