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In vitro examining the existing prognoses how TBP binds to TATA with SNP associated with human diseases

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DOI: 10.4236/health.2011.39099    3,035 Downloads   5,611 Views   Citations

ABSTRACT

We in vitro examined the existing prognoses of the dissociation constant, KD, between ТАТА- Binding Protein (TBP) and ТАТА box with single nucleotide polymorphism (SNP) associated with human diseases. Five SNPs of the genes for cytochrome P450 2A6 (associated with lung cancer), β-globin (associated with β-thalassemia), mannose binding lectin (associated with variable immunodeficiency), superoxide dismutase 1 (associated with amyotrophic lateral sclerosis) and triosephosphate isomerase (associated with anemia) fell within the range of –ln(KD;M/KD;WT) between –1.5 and –1 (here KD;WT and KD;M denote the normal ТАТА box and with SNP). The mea-surements using EMSA demonstrated that: 1) all the predictions stating that the affinity between ТВР and ТАТА boxes with SNPs would be reduced were correct; 2) the departures of three predictions from the measurements fell within the confidence interval; 3) all the predictions consistently underestimated actual mutational damage caused to ТАТА boxes with SNPs (a < 0.05; binomial law) and two of these predictions did so significantly (a < 0.05, Student’s t-test). This consistent underestimation seems to be associated with the damage to the context that modulates ТВP/ТАТА affinity, for example, the contact between the nucleosomal histone H3-Н4 dimer and the core promoter immediately near ТАТА boxes.

Conflicts of Interest

The authors declare no conflicts of interest.

Cite this paper

Drachkova, I. , Ponomarenko, P. , Arshinova, T. , Ponomarenko, М. , Suslov, V. , Savinkova, L. and Kolchanov, N. (2011) In vitro examining the existing prognoses how TBP binds to TATA with SNP associated with human diseases. Health, 3, 577-583. doi: 10.4236/health.2011.39099.

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