Title of article :
A duplex DNA model with regular inter-base-pair hydrogen bonds
Author/Authors :
Li، نويسنده , , Xu-Qing and Fan، نويسنده , , Ping، نويسنده ,
Issue Information :
روزنامه با شماره پیاپی سال 2010
Pages :
6
From page :
374
To page :
379
Abstract :
It is well known that base-pair stacking is the main factor in stabilizing DNA duplex and plays an important role in determining DNA sequence-dependence. What is the dominant force in base-pair stacking? This fundamental biological question remains a challenging problem. Here, based on recent studies about the non-planarity of amino groups on DNA bases, we propose a new duplex DNA model, in which all base amino groups are non-planar and participate in forming regular inter-base-pair hydrogen bonds (IBP H-bonds). This model implies that IBP H-bonds are the dominant force stabilizing base-pair stacking and play a crucial role in determining the geometry and physical properties of sequence-dependent twisted stacking between adjacent base pairs. The model presents a new insight into the link, through regular IBP H-bonds, between base-sequence, fine structure and physical properties at dinucleotide step level, and provides an attractively concise, uniform and quantitative interpretation for various experimentally observed DNA sequence-dependent properties in terms of regular IBP H-bonds. It would provide a new approach to understanding the dynamics and underlying mechanisms of DNA sequence-dependent biological processes, sequence–structure–property relationships, DNA strand separation during replication and transcriptions, etc.
Keywords :
Non-planar amino groups , Sequence-dependent properties , Base-pair stacking , DNA flexibility and thermal stability , Dinucleotide step
Journal title :
Journal of Theoretical Biology
Serial Year :
2010
Journal title :
Journal of Theoretical Biology
Record number :
1540311
Link To Document :
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