In a first instantiation of our scheme, we start with the proteome data of model organisms, perform a PSI-BLAST search, use MVIEW to convert hits into a multiple alignment, and perform Clustal realignment and tree building.
The poster will present our pipeline, and results on the investigation of the ABC transporter protein family.
Our procedure can be used to present the evolution of sequence data from the perspective of a single organism, providing e.g. a "human-centered" view of ABC transporter evolution. Based on the results of PSI-Blast runs with human ABC sequences, our trees not only map sequences from other species into the human system, but they are exclusively based on those parts of the sequences that are homologous to the human ones. Moreover, we do not need to restrict the evolutionary analysis to the central domain of ABC transporters, yielding trees that are superior, more complete and better supported than trees published before.
