Task 4: Homology-based structure prediction

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%
3m49_A	2.4e-26	18%
1gpu_A	2.3e-26	18%
2e6k_A	1.1e-26	20%
3l84_A	6.4e-26	17%
2r8o_A	1.9e-25	20%
3uk1_A	2.6e-25	19%
3rim_A	1.2e-24	18%
1r9j_A	5.7e-24	17%
2o1x_A	1e-25	15%
1itz_A	7.4e-23	20%
3mos_A	2.3e-22	19%
2qtc_A	1.5e-21	16%
3ahc_A	7.2e-16	16%

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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