(A) The MetaGO algorithm for GO annotation, which contains three pipelines of global and local structure alignment (bottom red), PPI partner homolog detection (top green), and sequence homolog identification (center blue), followed by a logistic regression based combination. (B) An illustrative example of MetaGO being applied to human EBP protein (Q15125). Left panel is the superposition of I-TASSER model (red) and the PDB structure of the adiponectin receptor (cyan), which are combined with PPI-homolog (green box) and sequence-based predictions (blue box) to create the complete set of MetaGO predictions (right panel). Highlights are to illustrate how the representative function terms from individual pipelines are merged into the final MetaGO predictions.