Difference between revisions of "Task 4: Homology-based structure prediction"
From Bioinformatikpedia
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!e-Value |
!e-Value |
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!Identity |
!Identity |
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! >80% Sequence Identity |
! >80% Sequence Identity |
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|1.2e-84 |
|1.2e-84 |
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|99% |
|99% |
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| − | |1.508 |
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| − | |- |
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|- |
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! 80-40% Sequence Identity |
! 80-40% Sequence Identity |
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|1.1e-79 |
|1.1e-79 |
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|39% |
|39% |
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| − | |0.580 |
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! <30% Sequence Identity |
! <30% Sequence Identity |
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|3.6e-71 |
|3.6e-71 |
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|27% |
|27% |
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| − | |0.403 |
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|- |
|- |
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|2yic_A |
|2yic_A |
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|1.2e-55 |
|1.2e-55 |
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|14% |
|14% |
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| − | |0.116 |
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|- |
|- |
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|2xt6_A |
|2xt6_A |
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|2.9e-55 |
|2.9e-55 |
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|14% |
|14% |
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| − | |0.121 |
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|- |
|- |
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|2jgd_A |
|2jgd_A |
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|4e-55 |
|4e-55 |
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|14% |
|14% |
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| − | |0.099 |
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|- |
|- |
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|2o1s_A |
|2o1s_A |
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|2.1e-27 |
|2.1e-27 |
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|20% |
|20% |
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| − | |0.200 |
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|- |
|- |
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|3kom_A |
|3kom_A |
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|2.4e-26 |
|2.4e-26 |
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|18% |
|18% |
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| − | |0.148 |
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Revision as of 15:11, 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
| PDB ID | e-Value | Identity |
|---|---|---|
| >80% Sequence Identity | ||
| 2BFD | 1.2e-84 | 99% |
| 80-40% Sequence Identity | ||
| 1qs0_A | 1.1e-79 | 39% |
| <30% Sequence Identity | ||
| 2ozl_A | 3.6e-71 | 27% |
| 2yic_A | 1.2e-55 | 14% |
| 2xt6_A | 2.9e-55 | 14% |
| 2jgd_A | 4e-55 | 14% |
| 2o1s_A | 2.1e-27 | 20% |
| 3kom_A | 2.4e-26 | 18% |
Unfortunately the HHpred search did not produce any hits with a sequence identity between 40% and 80%. For testing purposes we assume 1qs0_A to fit in that category.
COMA
| PDB ID | e-Value | Identity |
|---|---|---|
| >80% Sequence Identity | ||
| 1dtw_A | 8e-59 | 100% |
| 80-40% Sequence Identity | ||
| <30% Sequence Identity | ||
| 2xt6_A | 8.1e-56 | 12% |
| 3duf_A | 2.1e-53 | 28% |
| 3exe_A | 3.6e-50 | 25% |
| 3mos_A | 1e-45 | 15% |
| 1l8a_A | 7.5e-40 | 9% |
| 3m34_A | 1.2e-38 | 14% |
| 2o1x_A | 2.6e-37 | 12% |
| 3uk1_A | 2.4e-33 | 15% |
| 3ahc_A | 1.1e-25 | 8% |
| 1y9d_A | 1e-12 | 10% |
| 3ey9_A | 1.8e-12 | 11% |
| 2c31_A | 1.7e-11 | 16% |
| 1zpd_A | 2.1e-11 | 12% |
| 3d7k_A | 2.7e-11 | 9% |
| 1upa_A | 3.7e-11 | 10% |
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