Difference between revisions of "Talk:Sequence Alignment GLA"
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Please do not rely on external servers to store your results (HHsearch), but summarise the results here. |
Please do not rely on external servers to store your results (HHsearch), but summarise the results here. |
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| + | Nice discussion of the HSSP coverage. There is one option I should have mentioned when I set the task: By default, the search tools only report a limited number of results. If there are many hits better than the given E-value cutoff, then the tools do not report all relevant hits. Therefore, the coverage you found might be limited by the number of reported hits rather than the number of significant found hits. |
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| + | Nice discussion of the functionally conserved residues: If you look at the alignments, there is a Cysteine next to the aligned position in some of the "unconserved" cases. It would be interesting to look at the structures and see whether a purely structural alignment would align these cysteines or whether the position can indeed be shifted by one amino acid without disrupting the bond. |
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Latest revision as of 14:02, 4 July 2011
Please do not rely on external servers to store your results (HHsearch), but summarise the results here.
Nice discussion of the HSSP coverage. There is one option I should have mentioned when I set the task: By default, the search tools only report a limited number of results. If there are many hits better than the given E-value cutoff, then the tools do not report all relevant hits. Therefore, the coverage you found might be limited by the number of reported hits rather than the number of significant found hits.
Nice discussion of the functionally conserved residues: If you look at the alignments, there is a Cysteine next to the aligned position in some of the "unconserved" cases. It would be interesting to look at the structures and see whether a purely structural alignment would align these cysteines or whether the position can indeed be shifted by one amino acid without disrupting the bond.
