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Journal of Zhejiang University SCIENCE B 2006 Vol.7 No.12 P.969~973

10.1631/jzus.2006.B0969


Regularities in the E. coli promoters composition in connection with the DNA strands interaction and promoter activity


Author(s):  BEREZHNOY Andrey Yu, SHCKORBATOV Yuriy G., HISANORI Kiryu

Affiliation(s):  National Scientific Center, Kharkov Physical-Technical Institute, Kharkov 61108, Ukraine; more

Corresponding email(s):   Yury.G.Shckorbatov@univer.kharkov.ua

Key Words:  DNA sequence, Promoter strength, DNA chains interaction energy, DNA sequences classification


BEREZHNOY Andrey Yu, SHCKORBATOV Yuriy G., HISANORI Kiryu. Regularities in the E. coli promoters composition in connection with the DNA strands interaction and promoter activity[J]. Journal of Zhejiang University Science B, 2006, 7(12): 969~973.

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author="BEREZHNOY Andrey Yu, SHCKORBATOV Yuriy G., HISANORI Kiryu",
journal="Journal of Zhejiang University Science B",
volume="7",
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pages="969~973",
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publisher="Zhejiang University Press & Springer",
doi="10.1631/jzus.2006.B0969"
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%T Regularities in the E. coli promoters composition in connection with the DNA strands interaction and promoter activity
%A BEREZHNOY Andrey Yu
%A SHCKORBATOV Yuriy G.
%A HISANORI Kiryu
%J Journal of Zhejiang University SCIENCE B
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%D 2006
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.2006.B0969

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T1 - Regularities in the E. coli promoters composition in connection with the DNA strands interaction and promoter activity
A1 - BEREZHNOY Andrey Yu
A1 - SHCKORBATOV Yuriy G.
A1 - HISANORI Kiryu
J0 - Journal of Zhejiang University Science B
VL - 7
IS - 12
SP - 969
EP - 973
%@ 1673-1581
Y1 - 2006
PB - Zhejiang University Press & Springer
ER -
DOI - 10.1631/jzus.2006.B0969


Abstract: 
The energy of interaction between DNA strands in promoters is of great functional importance. Visualization of the energy of DNA strands distribution in promoter sequences was achieved. The separation of promoters in groups by their energetic properties enables evaluation of the dependence of promoter strength on the energetic properties. The analysis of groups (clusters) of promoters distributed by the energy of DNA strands interaction in −55, −35, −10 and +6 sequences indicates their connection with the transcriptional activity.

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article

Reference

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[11] Record, M.T.Jr, Reznikoff, W.S., Craig, M.L., McQuade, K.L., Schlaz, P.J., 1996. Escherichia coli RNA Polymerase (Eσ70), Promoters, and the Kinetics of the Steps of Transcription Initiation. In: Neidhardt, F.C., Curtiss III, R., Ingraham, J.L., Lin, E.C.C., Low, K.R., Magasanik, B., Reznikoff, W.S., Riley, M., Schaechter, M., Umbarger, H.E. (Eds.), Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd Ed. ASM Press, Washington DC, p.792-820.

[12] Roberts, C.W., Roberts, J.W., 1996. Base-specific recognition of the nontemplate strand of promoter DNA by E. coli RNA polymerase. Cell, 86(3):495-501.

[13] Saecker, R.M., Tsodikov, O.V., McQuade, K.L., Schlax, P.E.Jr, Capp, M.W., Record, M.T.Jr, 2002. Kinetic studies and structural models of the association of E. coli sigma (70) RNA polymerase with the lambdaP (R) promoter: large scale conformational changes in forming the kinetically significant intermediates. J. Mol. Biol., 319(3):649-671.

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