title: Binding of a de novo designed peptide to specific glycosaminoglycans.
abstract: The binding of glycosaminoglycans to a synthetic peptide (SKAQKAQAKQAKQAQKAQKAQAKQAKQW-CONH(2)), consisting of a hybrid consensus heparin binding sequence, is studied using circular dichroism, fluorescence anisotropy and nuclear magnetic resonance techniques. The results unveil certain novel features, most importantly, the peptide binds preferentially to iduronic acid containing glycosaminoglycans and the dissociation constant for the peptide-heparin complex was found to be 30 nM. Interestingly, higher order intermolecular association(s)/aggregation was not observed, especially at saturating concentrations of the ligand. The helical structure of the peptide backbone, induced upon binding to a particular glycosaminoglycan is directly related to their binding affinity. In our opinion, studies on such unconventional hybrid peptide sequences containing low density basic amino acid residues would lead to the design of sequence specific glycosaminoglycan binding peptides.
authors.affiliation: Department of Life Sciences, National Tsing Hua University, Hsinchu 30043, Taiwan.
authors.forename: G
authors.initials: G
authors.lastname: Jayaraman
authors.forename: C W
authors.initials: CW
authors.lastname: Wu
authors.forename: Y J
authors.initials: YJ
authors.lastname: Liu
authors.forename: K Y
authors.initials: KY
authors.lastname: Chien
authors.forename: J C
authors.initials: JC
authors.lastname: Fang
authors.forename: P C
authors.initials: PC
authors.lastname: Lyu
mesh_terms: D000595:Amino Acid Sequence; D002236:Carbohydrate Conformation; D002942:Circular Dichroism; D016384:Consensus Sequence; D005454:Fluorescence Polarization; D006025:Glycosaminoglycans / Q000737:chemistry*; D006493:Heparin / Q000737:chemistry; D008239:Lysine; D008969:Molecular Sequence Data; D019906:Nuclear Magnetic Resonance, Biomolecular; D010455:Peptides / Q000138:chemical synthesis / Q000737:chemistry*; D011487:Protein Conformation; D017510:Protein Folding
chemical_list: D006025:Glycosaminoglycans; D010455:Peptides; D006493:Heparin; D008239:Lysine