Theoretical permutation gel electrophoretic analysis of a curved DNA fragment located in circular permutation.
IR@IICB: CSIR-Indian Institute of Chemical Biology, Kolkata
View Archive Info| Field | Value | |
| Title |
Theoretical permutation gel electrophoretic analysis of a
curved DNA fragment located in circular permutation.
|
|
| Creator |
Nair, T Murlidharan
Madhusudan, K Nagaraja, V Kulkarni, B D Majumder, Hemanta K Singh, Rajan |
|
| Subject |
Infectious Diseases and Immunology
|
|
| Description |
The conformational properties of the polymorphic mole-
cule DNA are controlled by the nucleotide sequence it
contains. Apart from the structural polymorphism based
on the variants of DNA secondary structure viz. B-DNA,
A-DNA, Z-DNA and the parallel stranded and H-DNA,
the role of local structural polymorphism has been a
subject of intense theoretical and experimental investiga-
tions in the recent past [l-41. The evidence for such
local structural polymorphism was found in the crystallo-
graphic studies of defined DNA fragments [5]. DNA cur-
vature is an example of such microstructural polymor-
phism and is now believed to be an intrinsic attribute of
certain DNA sequences [l, 6-81. The existence of such
sequence-dependent structural deformation in DNA,
which was first identified in the phased (A), tracts from
the kinetoplast DNA (K-DNA) of Leishmania torentolae,
is now an established fact [l, 41. Two classes of models
have been proposed to explain the basis of DNA curva-
ture. The wedge model originally proposed by Trifonov
[6-91 is based on the assumption that the non-parallel-
ness of the base pairs due to the different dihedral
angles between different base pair stacks gives rise to
some small sequence-dependent wedges. The axial
deflection of the successive wedges combine to form a
planer curve and is particularly significant for the AA
sequence. The junction bending model [lo, 111 identifies
the origin of curvature at the conformational transition
between locally somewhat different sequence-dependent
forms of DNA, such as the deflection of the DNA axis at
the junction between B-form and A-form. The phasing
of the (A), tracts assures that the curvatures of individ-
ual bending elements add up to produce a large overall
bend in both models. Intrinsic DNA curvature is not
limited to sequences containing poly-A runs. Investiga-
tions have shown that there are a number of curved
DNA fragments whose sequence contain no poly-A
tracts [12, 131. The functional role of intrinsic DNA cur-
vature has been found to be associated with replication,
|
|
| Date |
1996
|
|
| Type |
Article
PeerReviewed |
|
| Format |
application/pdf
|
|
| Identifier |
http://www.eprints.iicb.res.in/704/1/ELECTROPHORESIS%2C_17(_4)%2C_633%2D641[48].pdf
Nair, T Murlidharan and Madhusudan, K and Nagaraja, V and Kulkarni, B D and Majumder, Hemanta K and Singh, Rajan (1996) Theoretical permutation gel electrophoretic analysis of a curved DNA fragment located in circular permutation. Electrophoresis, 17 (4). pp. 633-641. |
|
| Relation |
http://dx.doi.org/0173-0835/96/0404-0633
http://www.eprints.iicb.res.in/704/ |
|