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Interaction of spermine with different forms of DNA. A conformational study
Author(s) -
Zhurkin Victor B.,
Lysov Yury P.,
Ivanov Valery I.
Publication year - 1980
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.1980.360190802
Subject(s) - spermine , chemistry , dna , dna condensation , molecule , crystallography , helix (gastropod) , hydrogen bond , stereochemistry , biochemistry , organic chemistry , biology , enzyme , gene , transfection , snail , ecology
The energy of interaction of a spermine molecule with the A ‐ and B ‐forms of DNA has been calculated, assuming that the molecule of spermine is fixed in the narrow groove of the DNA helix with the formation of hydrogen bonds between the amino groups of spermine and the phosphate groups of DNA. The atom–atom potentials method was used. Optimal structures for the A‐DNA–spermine and B‐DNA–spermine complexes are suggested. It is shown that, in agreement with the experimental data, the interaction of the spermine molecule with the A ‐DNA is energetically more favorable than that with the B ‐DNA. Two main factors are responsible for this: (1) the distance between neighboring phosphates of the chain in A ‐DNA (which is about 1 Å less than that in B ‐DNA) corresponds better to the distance between the amino groups of the propyl part of spermine; and (2) the orientation of phosphate groups in A ‐DNA inside the groove is preferable for complex formation with spermine to the outside groove arrangement of the phosphates in B ‐DNA. These conclusions are further confirmed by the calculations for DNA–propane diamine complexes.