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Homology modeling, as a successful protein structure prediction method, has two major deficiencies, i.e., the lack of the templates (known structures), and the accuracy of alignment between the query (unknown structure) and its templates. To solve these problems, we have constructed a conservative domain clustering template database, and proposed a profile-based alignment algorithm based on the profile...
Aiming at the two main shortcomings in Homology Modeling, we have designed and established a domain clustering database. Searching the database is a fundamental work for it. However, current alignment algorithms are mainly based on the sequences, ignoring the structure conservation in domain. This paper proposed a profile-based alignment which considers the structure information into the profile,...
Recently, large-scale protein-protein interactions were recovered using the similar two-hybrid system for the model systems. This information allows us to investigate the protein interaction network from a systematic point of view. However, experimentally determined interactions are susceptible to errors. A previous assessment estimated that only ~10% of the interactions can be supported by more than...
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