Structure of open promoter complexes with Escherichia coli RNA polymerase as revealed by the DNase I footprinting technique: compilation analysis.
Footprinting data for 33 open promoter complexes with Escherichia coli RNA polymerase, as well as 17 ternary complexes with different regulators, have been compiled using a computer program FUTPR. The typical and individual properties of their structural organization are analyzed. Promoters are subgrouped according to the extent of the polymerase contact area. A set of alternative sequence elements that could be responsible for RNA polymerase attachment in different promoter groups is suggested on the basis of their sequence homology near the hyperreactive sites. The model of alternative pathways used for promoter activation is discussed.
Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino, Moscow Region, Russian Federation.
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Tsyganov
D017398:Alternative Splicing; D001483:Base Sequence; D018983:DNA Footprinting / Q000379:methods; D004269:DNA, Bacterial / Q000235:genetics / Q000378:metabolism*; D012321:DNA-Directed RNA Polymerases / Q000378:metabolism*; D016208:Databases, Factual; D003850:Deoxyribonuclease I; D004926:Escherichia coli / Q000201:enzymology* / Q000235:genetics; D008969:Molecular Sequence Data; D011401:Promoter Regions, Genetic; D012689:Sequence Homology, Nucleic Acid; D012984:Software
D004269:DNA, Bacterial; D012321:DNA-Directed RNA Polymerases; D003850:Deoxyribonuclease I