3utr accessibility ago algorithm alignment all-against-all amino-acid application approximate_geometric_attributes bayesian beta-augmentation bind binding binding_site bioinformatics biology book cancer capri characteristics chemical_peptide complex complexes computational connolly conservation crystal_packing curvature database dehydron design development disorder diversity docking domain domains drug-design eh enzyme evolution example experiment experimental function genome-wide genomics geometry-based glycogen_phosphorylase gpcr g-proteins graph graphics grid grid_scoring highthroughput hiv hla hmm hpv hub hubs human importance index inhibitors interaction interactionb interactions interface isoforms kinases lethality ligand linear metabolic_networks mhc mirna model modelling modularity molecular_dynamics motif motifs network networks netwrk p53 pathways pattern patterns peptide peptides phospho_peptides phospho-tyrosine potential ppi prediction principle profile proline proline-r proline-rich properties protein protein-engineering protein-interaction-networks protein-protein rasmol regognition regulation review rev_ref rna_transport robo score sequence sh2 sh3 signaling signal_peptides similarity slit small-molecule specificity statistics structure surface svm systems translocation use visualization x-ray y2h yeast