Promoter recognition, sequence-specific

V. Petri, M. Hsieh, E. Jamison and M. Brenowitz. DNA sequence-specific recognition by the Saccharomyces cerevisiae "TATA" binding protein promoter-dependent differences in the thermodynamics and kinetics of binding. Biochemistry 37 (1998) 15842-9. 

Reese, M. G., Harris, N. L., Eeckman, F. H. (1996) Large Scale Sequencing Specific Neural Networks for Promoter and Splice Site Recognition. In Proceedings of the Pacific Symposium on Biocomputing, Eds Hunter L, Klein T. 

The initiation reaction. A promoter not only locates the site of initiation but also determines the direction of transcription and, therefore, the strand of the DNA duplex that is to serve as the template. The requirement for two specific recognition sequences ensures this directionality. The RNA polymerase may bind randomly to DNA, then move rapidly along the double helix imtil it locates a strong binding site where it binds to the recognition sequences of the promoter through specific interactions in the major groove of the DNA helix (see Fig. 5-3). 

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