title: Role of context in the relationship between form and function: structural plasticity of some PROSITE patterns.
abstract: True positive hits of PROSITE sequence pattern are expected to have a characteristic three-dimensional structure. The combined sequence-structure attributes of PROSITE patterns can be used for function prediction of an uncharacterized protein with known primary and 3D structure, a situation that might arise in structural genomics projects. We have found specific examples of true hits of PROSITE patterns displaying structural plasticity by assuming significantly different local conformation, depending upon the context. Our work highlights the importance of taking into account all the known distinct conformations of PROSITE patterns, while creating a sensitive 3D template for the pattern, for use in functional annotation.
authors.affiliation: Department of Physics, Indian Institute of Science, Bangalore 560 012, India.
authors.forename: Sukanta
authors.initials: S
authors.lastname: Mondal
authors.forename: S P
authors.initials: SP
authors.lastname: Jaishankar
authors.forename: S
authors.initials: S
authors.lastname: Ramakumar
mesh_terms: D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D030562:Databases, Protein; D023281:Genomics; D008958:Models, Molecular; D008969:Molecular Sequence Data; D015394:Molecular Structure; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry / Q000502:physiology; D020539:Sequence Analysis, Protein; D013329:Structure-Activity Relationship
chemical_list: D011506:Proteins