Spectroscopic Study of Radiation-Induced DNA Lesions 569
carbon atoms, and the 2s and 2p orbitals of the phosphorus atom in GMP. Although the molecular
photoabsorption cross sections for water or the nucleotide in liquid water have not yet been obtained
experimentally or theoretically, the sum of the atomic photoabsorption cross sections can provide
reasonable estimates. Because the cross section for light atoms in the region of K-shell absorption
is about 1Mb (10–18cm
2
) at maximum, the photoabsorption cross sections for other atoms at a
photon energy around 400eV are about 0.5 Mb for carbon, 0.06Mb for oxygen, and 0.7Mb for
phosphorus (Yeh and Lindau, 1985). If we consider the case of a mass concentration of GMP/water
of 10g/100mL (corresponding to a molecular ratio of 1/213), the net absorption cross section for
continuous electron yields relative to one guanine unit containing ve nitrogen atoms amounts to
18Mb. Thus, a value of about 15% for the ratio of the electron yields due to nitrogen atoms in GMP
to the continuous electron yields due to water and other elements is reasonably explained by the fact
that GMP molecules are not concentrated in the middle or the surface of the liquid beam, but are
equally
dispersed in water.
The
main features of the XANES spectrum for GMP in water solution consist of relatively sharp
peaks at photon energies of 400 and 402eV and a much broader peak in the region of photon energy
around 407eV. The peaks at 400 and 402eV are normally ascribed to the excitation of nitrogen K-shell
electrons into the vacant antibonding orbital(s). The XANES spectrum for GMP in the form of a thin
solid lm is also shown in Figure 20.19. The GMP in the solid lm is thought to be neat GMP or GMP
containing the fewest number of water molecules under vacuum. The XANES spectrum for a GMP/
water solution is, in general, very similar to that for the solid lm. A similar reference is also available
showing the XANES spectrum for a guanine thin solid lm (Fujii etal., 2004b), which is also similar
to the present XANES spectra for the GMP/water solution and GMP in the solid lm.
Because excitation in the region near the nitrogen K-edge takes place mainly in the frame of the
guanine site, the XANES spectrum is thought to be sensitive to the inuence of water molecules sur-
rounding the guanine site. Both the K-shell and antibonding orbitals of GMP in solution are subject
to the inuence of the external Coulombic eld from the surrounding water molecules. Because the
antibonding orbital is thought to be widely spread around the nucleobase site, its energy is more sensi-
tive to the external Coulombic eld than that of the K-shell orbital; thus, strong hydration should give
rise to an environmental chemical shift. However, a signicant chemical shift is not observed in the
peak energies in the XANES spectrum for GMP in a water solution when compared with those for a
solid lm. Fujii etal. (2004b), therefore, tentatively conclude that strong attractive interactions at the
guanine site from the water molecules are absent, which is consistent with the common understand-
ing of the hydrophobic properties of nucleobases, although the guanine site is thought to be embed-
ded in the bulk water molecules (as discussed above) because of the ratio of the yield of electrons
ejected from nitrogen atoms in GMP to those from other elements. In other words, the hydrophobic
interaction of GMP at the guanine site should increase the interaction energy with an approaching
water molecule and repel the water molecule at a relatively large intermolecular distance, which is
accessible with thermal energy. However, this tentative conclusion as regards the interaction of the
guanine site in GMP with water molecules should be more clearly examined with higher-resolution
chemical-shift measurements. Photoelectron emission spectra from DNA-related molecules in solu-
tion should be analyzed in future using an electron energy analyzer combined with the liquid water
beam technique. Ukai etal. (2009) have developed a photoelectron energy analyzer for liquid beam
samples. They reported that partial electron yields for the K
−1
1b
1
1b
1
Auger transition were obtained
for the rst time by measuring the electrostatically dispersed electron kinetic energy spectra as a
function of photon energy.
20.7 summary
Experimental evidence introduced in this chapter suggests the following: (1) The yield of DNA dam-
age demonstrates a rather complicated relationship when compared with that induced by other radi-
ations, because the yield strongly depends on the radical scavenging conditions during irradiation.