Identification of Possible Kinetically Significant Anion-Binding Sites in Human Serum Transferrin Using Molecular Modeling Strategies

Elizabeth Ambrose Amin, Wesley R. Harris, William J. Welsh

Research output: Contribution to journalArticlepeer-review

9 Scopus citations

Abstract

Certain anions have been shown experimentally to influence the rate of iron release from human serum transferrin (HST), implying the existence of one or more allosteric kinetically significant anion-binding (KISAB) sites on or near the surface of the protein. A rank-ordered selection of potential HST KISAB sites has been obtained using a novel three-stage molecular modeling strategy. The crystal structure of HST (1A8E.pdb) was first subjected to a heuristic analysis, in which positively charged and hydrogen-bonding residues on or near the surface of the protein were identified. In this stage, a preliminary electrostatic potential map was also calculated, yielding six preliminary sites. Next, energy-grid calculations were conducted in order to identify anion-protein interaction energy minima, which resulted in the inclusion of three additional sites. Finally, three anions already shown experimentally to demonstrate varied effects on HST iron-release kinetics were placed at each potential site; molecular dynamics and molecular mechanics calculations were performed in order to elucidate the hydrogen-bonding environment around each anion of the protein as well as to calculate anion-protein-binding energies.

Original languageEnglish (US)
Pages (from-to)205-215
Number of pages11
JournalBiopolymers
Volume73
Issue number2
DOIs
StatePublished - Feb 5 2004

Keywords

  • Human serum transferrin
  • Iron-release kinetics
  • Kinetically significant anion-binding sites
  • Molecular dynamics
  • Molecular mechanics
  • Molecular modeling

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