A historical perspective of the biophysics of the thrombin-heparin system: an example of nonspecific binding and the consequent parking problem in action

Winzor, Donald J. (2013) A historical perspective of the biophysics of the thrombin-heparin system: an example of nonspecific binding and the consequent parking problem in action. Biophysical Reviews, 5 2: 173-185. doi:10.1007/s12551-013-0103-5

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Author Winzor, Donald J.
Title A historical perspective of the biophysics of the thrombin-heparin system: an example of nonspecific binding and the consequent parking problem in action
Journal name Biophysical Reviews   Check publisher's open access policy
ISSN 1867-2450
1867-2469
Publication date 2013-07
Year available 2013
Sub-type Critical review of research, literature review, critical commentary
DOI 10.1007/s12551-013-0103-5
Open Access Status File (Publisher version)
Volume 5
Issue 2
Start page 173
End page 185
Total pages 13
Place of publication Heidelberg, Germany
Publisher Springer
Collection year 2014
Subject 1304 Biophysics
1312 Molecular Biology
1315 Structural Biology
Abstract Difficulties are encountered in the thermodynamic characterization of interactions between a protein ligand and a linear acceptor, such as a polynucleotide or a polysaccharide, because of the involvement of more than one unit of the polymer chain in each attachment of a protein molecule. Complications arise from the fact that random attachment of ligand to the polymer chain, each unit of which is a potential binding site, initially leads to suboptimal location of protein molecules along the polymer chain-a situation that has to be rectified before the attainment of thermodynamic equilibrium can be realized. Kinetic as well as thermodynamic consequences of such nonspecific binding, termed the parking problem, therefore need to be considered in any quantitative characterization of the interaction between a large ligand and a linear polymer acceptor chain. Results for the thrombin-heparin interaction have been used to illustrate a thermodynamic characterization of nonspecific binding that takes into account these consequences of the parking problem.
Keyword Nonspecific binding
Parking problem
Protein-polymer interactions
Thrombin-heparin system
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Special Issue: Protein–Protein and Protein–Ligand Interactions in Dilute and Crowded Solution Conditions. In Honor of Allen Minton’s 70th Birthday

Document type: Journal Article
Sub-type: Critical review of research, literature review, critical commentary
Collections: Official 2014 Collection
School of Chemistry and Molecular Biosciences
 
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