Difference between revisions of "Gaucher Disease: Task 05 - Homology Modelling"
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Kalemanovm (talk | contribs) (→Structures from task 04) |
Kalemanovm (talk | contribs) (→Structures from task 04) |
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* first aligned the two fasta sequences from PDB with [http://www.genome.jp/tools-bin/clustalw ClustalW] |
* first aligned the two fasta sequences from PDB with [http://www.genome.jp/tools-bin/clustalw ClustalW] |
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* then calculated the PID using [http://imed.med.ucm.es/cgi-bin/sias.cgi?jobid=1370816376 SIAS] with default options |
* then calculated the PID using [http://imed.med.ucm.es/cgi-bin/sias.cgi?jobid=1370816376 SIAS] with default options |
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+ | Selected structures for modelling are written in bold. |
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! style="background:#efefef;" | < 30% PID |
! style="background:#efefef;" | < 30% PID |
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− | |2xwd_A (82.77%) || 2f7k_A (9.65%) |
+ | |'''2xwd_A (82.77%)''' || 2f7k_A (9.65%) |
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− | |2nsx_A || 2gep_A (9.66%) |
+ | |2nsx_A || '''2gep_A (9.66%)''' |
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|2nt1_A || 2isb_A (7.17%) |
|2nt1_A || 2isb_A (7.17%) |
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==Evaluation of models== |
==Evaluation of models== |
Revision as of 00:06, 10 June 2013
Calculation of models
Structures from task 04
We assembled the following structures in Gaucher_Disease:_Task_04_-_Structural_Alignment, now we divide them into two groups at
- > 60% sequence identity
- < 30% sequence identity (ideally go towards 20%)
For not glucocerebrosidases, we calculated PID as follows:
- first aligned the two fasta sequences from PDB with ClustalW
- then calculated the PID using SIAS with default options
Selected structures for modelling are written in bold.
Homologous structures to 1ogs_A | |
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> 60% PID | < 30% PID |
2xwd_A (82.77%) | 2f7k_A (9.65%) |
2nsx_A | 2gep_A (9.66%) |
2nt1_A | 2isb_A (7.17%) |
2djf_B (5.68%) | |
2qgu (7.17%) |