NUCLEIC ACID ELECTROSTATIC PROPERTIES FROM CRYSTALS
Project Number1R01GM039513-01
Contact PI/Project LeaderCRAVEN, BRYAN M
Awardee OrganizationUNIVERSITY OF PITTSBURGH AT PITTSBURGH
Description
Abstract Text
Electrostatic properties of the nucleic acids will be determined
from X-ray and neutron single crystal diffraction studies of
simple nucleic acid components ranging up to minihelical
dinucleotide structures. Emphasis will be on mapping the
electrostatic potential, either within the crystal unit cell, or for
molecules extracted from the crystal lattice. We have shown that
the electrostatic potential can be experimentally determined
more easily than other molecular properties such as the charge
density or the electric field. With a simple structure model
including only a monopole atomic charge parameters in addition
to the atomic parameters used in conventional crystal structure
determinations, we expect to obtain physically meaningful maps
of electrostatic potential for molecules containing at least 50
atoms.
Such results will be of particular significance for the nucleic acids
which have strongly ionic character and contain many polar
groups. The H bonding of the bases, their stacking, the binding of
counterions and polar molecules such as water, all involve
interactions which are predominantly electrostatic. We will map
the electrostatic potential in the voids of nucleotide crystal
structures after water molecules and cations are completely or
selectively removed from the pseudoatom model, and in this way
we will study their binding sites.
An important characteristic of this project is that experimental
electrostatic potentials will be carefully crosschecked for
consistency with each other and with results from simple
benchmark crystal structures. Atomic charges which are shown
to give a satisfactory molecular electrostatic potential will then
be candidates for inclusion as parameters in the semi-empirical
force-fields required for molecular mechanics calculations. Such
calculations are being used increasingly in studies of nucleic acid
structure and dynamics.
Public Health Relevance Statement
Data not available.
NIH Spending Category
No NIH Spending Category available.
Project Terms
X ray crystallographychemical modelscrystallizationelectron densityhydrogen bondmathematical modelneutron diffractionnucleic acid structureoligonucleotides
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