Genomic Position Analyses and the Transcription
Machinery
Ernesto Pérez-Rueda, Jay D. Gralla, Julio Collado-Vides
Journal of Molecular Biology
275(2): 165-170 (Jan 16, 1998)
Abstract
Position analyses have been devised to extract additional transcriptional
information from rapidly expanding genomic data bases. The locations of
promoter regulatory sites and also the locations of transcription factor
DNA-binding domains are analyzed. Strongly preferred positions of
activator binding sites occur in both Escherichia coli and eukaryotes,
suggesting specific common features of transcription in the two systems.
In both systems regulatory proteins are found to have their DNA-binding
domains near termini and the data suggest an evolutionary analysis that
complements phylogenetic analysis based on sequence alignments. The
results indicate that positional information can be an important adjunct to
sequence comparisons in analyzing genomic information.
