Title
Mechanistic constraints from the substrate concentration dependence of enzymatic fluctuations
Date Issued
07 September 2010
Access level
open access
Resource Type
journal article
Author(s)
University of California
Abstract
The time it takes an enzyme to complete its reaction is a stochastic quantity governed by thermal fluctuations. With the advent of high-resolution methods of single-molecule manipulation and detection, it is now possible to observe directly this natural variation in the enzymatic cycle completion time and extract kinetic information from the statistics of its fluctuations. To this end, the inverse of the squared coefficient of variation, which we term n min, is a useful measure of fluctuations because it places a strict lower limit on the numberof kinetic states in the enzymatic mechanism. Here we show that there is a single general expression for the substrate dependence of nmin for a wide range of kinetic models. This expression is governed by three kinetic parameters, which we term NL, NS, and α. These parameters have simple geometric interpretations and provide clear constraints on possible kinetic mechanisms. As a demonstration of this analysis, we fit the fluctuations in the dwell times of the packaging motor of the bacteriophage φ29, revealing additional features of the nucleotide loading process in this motor. Because a diverse set of kinetic models display the same substrate dependence for their fluctuations, the expression for this general dependence may prove of use in the characterization and study of the dynamics of a wide range of enzymes.
Start page
15739
End page
15744
Volume
107
Issue
36
Language
English
OCDE Knowledge area
Bioquímica, Biología molecular
Scopus EID
2-s2.0-77957689590
PubMed ID
Source
Proceedings of the National Academy of Sciences of the United States of America
ISSN of the container
10916490
Sponsor(s)
National Institute of General Medical Sciences - R01GM059604.
Sources of information: Directorio de Producción Científica Scopus