Transcription factor concentrations versus binding site affinities in the yeast S-cerevisiae

被引:4
作者
Aurell, Erik [1 ]
d'Herouel, Aymeric Fouquier
Malmnas, Claes
Vergassola, Massimo
机构
[1] AlbaNova Univ Ctr, KTH Royal Inst Technol, Dept Comp Biol, S-10691 Stockholm, Sweden
[2] CNRS, Inst Pasteur, Dept Genom & Genet, Res Unit Genet Silico, F-75700 Paris, France
关键词
D O I
10.1088/1478-3975/4/2/006
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Transcription regulation is largely governed by the profile and the dynamics of transcription factors' binding to DNA. Stochastic effects are intrinsic to this dynamics, and the binding to functional sites must be controlled with a certain specificity for living organisms to be able to elicit specific cellular responses. Specificity stems here from the interplay between binding affinity and cellular abundance of transcription factor proteins, and the binding of such proteins to DNA is thus controlled by their chemical potential. We combine large- scale protein abundance data in the budding yeast with binding affinities for all transcription factors with known DNA binding site sequences to assess the behavior of their chemical potentials in an exponential growth phase. A sizable fraction of transcription factors is apparently bound non-specifically to DNA, and the observed abundances are marginally sufficient to ensure high occupations of the functional sites. We argue that a biological cause of this feature is related to its noise-filtering consequences: abundances below physiological levels do not yield significant binding of functional targets and mis- expressions of regulated genes may thus be tamed.
引用
收藏
页码:134 / 143
页数:10
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