AmIGoMR (Am I good for MR?) predicts the probability of Molecular Replacement (MR) success when a comparative model created on the base of a given template is used. AmIGoMR operates only on the target and template sequences and does not require information about the native tertiary or secondary structure.
To execute AmIgoMR, a user must visit the following page: http://iimcb.genesilico.pl/pawlo/amigomr/submission.py, then he or she must define the sequence of the target protein and either sequences of template proteins or pdbcodes of these proteins. In majority of cases, the results will be generated in less than 10 minutes.
The AmIGoMR is also integrated in GeneSilico Fold Prediction Metaserver, a gateway to various methods for protein structure prediction, To execute AmIGoMR for a given job of the GeneSilico Fold Prediction Metaserver, a user must visit the job’s page and then press the “Execute AmIGoMR” button.
The user will get the table that presents the probability of solving MR search
with a model generated for a given template. The results are presented for each of following types of search models:
In our MR-workflow, AmIgoMR predicts the MR success almost as accurately as GDT_TS does. Nevertheless, for different home-made MR workflows, AmIgoMR may less accurately estimate the absolute probability of solving MR with a given model. However, in such cases our method can still help to rank models according to their usefulness for MR.
The reference to the method will be updated, once the work has been published.
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