title: Salt effects on surface-tethered peptides in solution.
abstract: The capability to manipulate proteins/peptide fragments at liquid-solid interfaces has led to tremendous applications in detectors and biotechnology. Therefore, understanding the detailed molecular behavior of proteins and peptides tethered on a hard material surface is an interesting and important topic. The inhomogeneity presented by surfaces as well as ions in the solution plays an important role in the thermodynamics and kinetics of the tethered proteins. In this study, we perform a series of molecular dynamics simulations of a pentapeptide RHSVV, a p53 epitope, tethered on a prepared microarray surface in various salt concentrations (0, 0.14, 0.5, and 1 M NaCl), as well as free in ionic solution (0, 0.5, and 1 M). The conformational space the tethered peptide visits largely overlaps with the free peptide in solution. However, surface tethering as well as the salt concentration changes both the thermodynamics and kinetics of the peptide. Frequent conformational changes are observed during the simulations and tend to be slowed down by both increasing the salt concentration and surface tethering. The local composition of ions at different salt concentrations is also compared between the tethered and free peptide.
authors: Department of Biology and Biochemistry, University of Houston, Houston, Texas 77204-5001, USA.
authors: Jun
authors: J
authors: Feng
authors: Ka-Yiu
authors: KY
authors: Wong
authors: Gillian C
authors: GC
authors: Lynch
authors: Xiaolian
authors: X
authors: Gao
authors: B Montgomery
authors: BM
authors: Pettitt
mesh_terms: D000595:Amino Acid Sequence; D003198:Computer Simulation; D000939:Epitopes / Q000737:chemistry*; D006801:Humans; D055767:Immobilized Proteins / Q000737:chemistry*; D007477:Ions / Q000737:chemistry; D007700:Kinetics; D008958:Models, Molecular; D010455:Peptides / Q000737:chemistry*; D011487:Protein Conformation; D012492:Salts / Q000737:chemistry*; D013499:Surface Properties; D013816:Thermodynamics; D016159:Tumor Suppressor Protein p53 / Q000737:chemistry*
chemical_list: D000939:Epitopes; D055767:Immobilized Proteins; D007477:Ions; D010455:Peptides; D012492:Salts; D016159:Tumor Suppressor Protein p53