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Analysis of sequence‐dependent curvature in matrix attachment regions
Author(s) -
Yamamura Jun,
Nomura Koji
Publication year - 2001
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/s0014-5793(01)02098-1
Subject(s) - curvature , sequence (biology) , matrix (chemical analysis) , chemistry , mathematics , geometry , biochemistry , chromatography
Sequence‐dependent DNA conformations of matrix attachment regions (MARs) available in a database were calculated using the wedge model, and compared with randomly chosen genes, promoters, enhancers and transposons. The MARs had a longer bent part and higher angle/helical turn than the other regions. It is known that some MAR sequences have A‐tracts that cause DNA bending, and we also found many A‐tracts in examined MARs. Furthermore, non‐random and clustered distribution of A‐tracts shown here gave further evidence of the importance of A‐tracts for MAR conformations. These results suggest that DNAs of MARs have a characteristic conformation instead of conserved sequence.