The emission properties of eumelanin from Sepia officinalis are examined following UV-A excitation. The emission decay is nonexponential, exhibiting decay components on the tens of picosecond to several nanosecond time scales. The corresponding depolarization dynamics are also nonexponential and reveal that the emission becomes totally depolarized with an average time constant of ∼80 ps at 20 °C. The depolarization of the emission is found to be activated; a simple Arrhenius fit to the depolarization rate data gives an activation barrier of 21 ± 3 kJ mol-1. The nonexponential emission decay is concluded to be a reflection of the structural disorder of eumelanin. The rapid and nonexponential depolarization dynamics are attributed to energy transfer processes that occur within “spherical” subunits that comprise the eumelanin aggregates.

Frameshift mutagenesis occurs through the misalignment of primer and template strands during DNA synthesis and involves DNA intermediates that contain one or more extrahelical bases in either strand of the DNA substrate. To investigate whether these DNA structures are recognized by the proofreading apparatus of DNA polymerases, time-resolved fluorescence spectroscopy was used to examine the interaction between the Klenow fragment of DNA polymerase I and synthetic DNA primer-templates containing extrahelical bases at defined positions within the template strand. A dansyl probe attached to the DNA was used to measure the fractional occupancies of the polymerase and 3'-5' exonuclease sites of the enzyme for DNA substrates with and without the extrahelical bases. The presence of an extrahelical base at the first position from the primer 3' terminus increased the level of partitioning of the DNA substrates into the 3'-5' exonuclease site by 3-7-fold, relative to the perfectly base-paired primer-template, depending on the identity of the extrahelical base. The ability of different extrahelical bases to promote partitioning of DNA into the 3'-5' exonuclease site decreased in the following order: G > A approximately T > C. The results of partitioning measurements for DNA substrates containing a bulged adenine base at different positions within the template showed that an extrahelical base is recognized up to five bases from the primer 3' terminus. The largest effects were observed for the extrahelical base at the third or fourth positions from the primer terminus, which increased the level of partitioning of DNA into the 3'-5' exonuclease site by 8- and 18-fold, respectively, relative to that of the perfectly base-paired substrate. Steady-state fluorescence measurements of analogous primer-templates containing 2-aminopurine (AP) at the primer 3' terminus indicate that extrahelical bases increase the degree of terminus unwinding, especially when close to the terminus. In addition, steady-state kinetic measurements of removal of AP from the primer-templates indicate that the exonucleolytic cleavage activity of Klenow fragment is correlated with the increased level of partitioning of bulged DNA substrates to the 3'-5' exonuclease site relative to that of properly base-paired DNA. The results of this study indicate that misalignment of primer and template strands to generate an extrahelical base strongly promotes transfer of a DNA substrate to the 3'-5' exonuclease site, suggesting that the premutational intermediates in frameshift mutagenesis are subject to proofreading by the polymerase.

Phosphorescence and ODMR measurements have been made on ribonuclease T1 (RNase T1), the mutated enzyme RNase T1 (Y45W), and their complexes with 2'GMP and 2'AMP. It is not possible to observe the phosphorescence of Trp45 in RNase T1 (Y45W). Only that of the naturally occurring Trp59 is seen. The binding of 2'GMP to wild-type RNase T1 produces only a minor red shift in the phosphorescence and no change in the ODMR spectrum of Trp59. However, a new tryptophan 0,0-band is found 8.2 nm to the red of the Trp59 0,0-band in the 2'GMP complex of the mutated RNase T1 (Y45W). Wavelength-selected ODMR measurements reveal that the red-shifted emission induced by 2'GMP binding, assigned to Trp45, occurs from a residue with significantly different zero-field splittings than those of Trp59, a buried residue subject to local polar interactions. The phosphorescence red shift and the zero-field splitting parameters demonstrate that Trp45 is located in a polarizable environment in the 2'GMP complex. In contrast with 2'GMP, binding of 2'AMP to RNase T1 (Y45W) induces no observable phosphorescence emission from Trp45, but leads only to a minor red shift in the phosphorescence origin of Trp59 in both the mutated and wild-type enzyme. The lack of resolved phosphorescence emission from Trp45 in RNase T1 (Y45W) implies that the emission of this residue is quenched in the uncomplexed enzyme. We conclude that local conformational changes that occur upon binding 2'GMP remove quenching residues from the vicinity of Trp45, restoring its luminescence.(ABSTRACT TRUNCATED AT 250 WORDS)

The interactions of an arsenic (III) reagent, (CH3)2AsSCH2CONH2, with two Escherichia coli RI methyltransferase mutants, W183F and C223S, have been studied by phosphorescence, optically detected magnetic resonance, and fluorescence spectroscopy. The phosphorescence spectrum of the W183F mutant containing only one tryptophan at position 225 reveals a single 0,0-band that is red-shifted by 9.8 nm upon binding of As(III). Fluorescence titration of W183F with (CH3)2AsSCH2CONH2 produces a large tryptophan fluorescence quenching. Analysis of the quenching data points to a single high-affinity As(III) binding site that is associated with the fluorescence quenching. Triplet-state kinetic measurements performed on the perturbed tryptophan show large reductions in the lifetimes of the triplet sublevels, especially that of the T chi sublevel. As(III) binding to the enzyme at a site very close to the Trp225 residue induces an external heavy-atom effect, showing that the perturber atom is in van der Waals contact with the indole chromophore. In the case of the C223S mutant, a single tryptophan 0,0-band also is observed in the phosphorescence spectrum, but no change occurs upon addition of the As(III) reagent. Fluorescence titration of C223S with As(III) shows essentially no quenching of tryptophan fluorescence, in contrast with W183F. These results, along with previous triplet-state and biochemical studies on the wild-type enzyme [Tsao, D. H.H., & Maki, A. H. (1991) Biochemistry 30, 4565-4572], show that As(III) binds with high affinity to the Cys223 residue and that the Trp225 side chain is located close enough to that of Cys223 to produce a heavy-atom perturbation when As(III) is bound.

Th e DNA complexes of triostin A, echinomycin, and the monoquinoline (ION) and bisquinoline (20N) biosynthesized derivatives of echinomycin were investigated by optic띠 detection of triplet-state magnetic resonance (ODMR) spectroscopy, with the quinox따ine and q띠noline moieties of the DNA-binding peptides used as intrinsic probes. Plots of zero-field splitting (zfs) D parameter versus monitored wavelength revealed heterogeneity in the phosphorescence emission of echinomycin, triostin A, and 20N ascribed to the occurren,:e of m혀or and minor forms of the peptides in aqueous solution. ODMR results, in co띠unctIOn with findings from phosphorescence studies, indicate that the quinox외ine and quinoline chromophores of the major forms of the peptides are involved in aromatic stacking interactions in complexes with the natural DNAs from Micrococcus ωodeiktic따; Escherichia coli, and calf thymus as evidenced by red shifts in the phosphorescence 0,0 bands of the drugs, reductions in the phosphorescence lifetimes and zfs D and E parameters, and p이arity reversal of the ODMR slow passage signals upon drug complexation. The reversal in ODMR signal pol따ity of echinomycin 뻐d 20N is a consequence of changes in the triplet-state sublevel decay constants upon peptide binding to the natural DNAs. Th e extent of reduction of the D parameter for the major form of echinomycin, 20N, and the quinoline moiety of ION upon complexation with polymeric DNAs was found to correlate with the binding a떠nities measured for these targets [1], but no correlation was found for the quinox외ine moiety of ION. Preliminary studies of triostin A-DNA complexes also revealed no correlation between the reduction in zfs D-value upon complexation and binding affinity, although the largest reductions in D-value among the peptides investigated in this report were exhibited by the poly(dG-dC) ' poly(dGdC) and natural DNA complexes of triostin A.

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