The undersigned authors note the following: "We wish to bring to your attention an issue regarding our PNAS publication referenced above. Although we cite our earlier PNAS publication (see ref. Figs. 2 and 3 display the UWHBs for Hb β-subunit (pdb.1bz0, chain B) and human cellular prion protein (pdb.1qm0) (12)(13)(14). Within the natural interactive context of the Hb subunit, the UWHBs signal crucial binding regions (24): UWHBs (90, 94), (90, 95) are associated with the β-FG corner involved in the quaternary α1β2 interface; UWHB (5, 9) is adjacent to Glu-6 which in sickle cell anemia mutates to Val-6 and is located at the Val-6-(Phe-85, Leu-88) interface in the deoxyHbS fiber."The following text in the section titled 'Toward a Structural Diagnosis' on page 6449 of our text is similar to the text beginning in the last paragraph on page 2392 in ref. 23:The distribution of proteins according to their average extent of hydrogen bond wrapping and their spatial concentration of structural defects is shown in Fig. 5 (see also ref. 23). The sample of 2,811 PDB proteins is large enough to define a reliable abundance distribution with an inflection point at ρ = 6.20. The integration of the distribution over a ρ-interval gives the fraction of proteins whose ρ lies within that range. Of the 2,811 proteins examined, 2,572 have ρ > 6.20, and none of them is known to yield amyloid aggregation under physiological conditions entailing partial retention of structure. Strikingly, relatively few disease-related amyloidogenic proteins are known in the sparsely populated, underwrapped 3.5 < ρ < 6.20 range, with the cellular prion proteins located at the extreme of the spectrum (3.53 < ρ < 3.72)....The range of H-bond wrapping 3.5 < ρ < 4.6 of 20 sampled PDB membrane proteins has been included in Fig. 5 for comparison. As expected, such proteins do not have the stringent H-bond packing requirements of soluble proteins for their H bonds at the lipid interface. Thus, this comparison becomes suggestive in terms of elucidating the driving factor for aggregation in soluble proteins: Although the UWHB constitutes a structural defect in a soluble protein because of its vulnerability to water attack, it is not a structural defect in a membrane protein. The exposure of the polar amide and carbonyl of the unbound state to a nonpolar phase is thermodynamically unfavorable (22). The virtually identical ρ value for human prion and outer-membrane protein A (Fig. 5) is revealing in this regard.Furthermore, all known amyloidogenic proteins that occur naturally in complexed form have sufficient H-bond wrapping within their respective complexes (ρ value near 6.2). Their amyloidogenic propensity appears only under conditions in which the protein is dissociated from the complex (compare Fig. 5). This finding is corroborated by the following computation. If an intramolecular hydrogen bond is underwrapped within the isolated protein molecule but located at an interface upon complexation, then to determine its extent of wrapping within the complex, we take ...

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The electronic structure, spectra and linear and second-order polarizabilities of two symmetric ketocyanines, which are prototypic examples of D-A-D chromophores, have been investigated with two different toolsets: (i) the so-called 'essential-state model', here comprising three states, the ground and two lowest excited (1)ππ* states, has been adapted for these non-centrosymmetric, yet symmetric compounds to determine their permanent electric dipole moments, polarizabilities and first hyperpolarizabilities making use of experimental transition energies and moments; (ii) extensive TDDFT calculations have provided ground-state conformational results consistent with NMR-derived structural information, energies and dipole moments of up to 20 lowest-lying electronic states as well as, within the sum-over-states (SOS) scheme, the most relevant components of the polarizabilities and first hyperpolarizabilities. The two levels of description form consistent pictures of the ketocyanine excited states that provide the most relevant contributions to hyperpolarizabilities: extension of the SOS set beyond the three states of the basic model left unchanged (within ∼10%) the calculated vector component of the second-order polarizability tensor along the direction of the ground-state dipole moment (β(y)). Both approaches indicate that these D-A-D compounds, in spite of their quasi-linear structure, reminiscent of that of centrosymmetric quadrupolar chromophores, feature significant second-order molecular polarizabilities. These rapidly increase with the length of the polyenic bridges in the chromophores. About half of the total value of β(y) is predicted to come from the three-level-term part, β(y,3), most of which derives from the contribution involving the three electronic states of the essential-state model.

The preparation and characterization of a self-assembled material showing a high nonlinear response and good photostability to ultrashort laser pulses is presented. The material is built by alternate deposition of tetrakis(4-sulfonatophenyl) porphyrin diacid (H4TPPS2-) and poly(diallyldimethylammonium chloride) (PDDA) forming electrostatically self-assembled multilayers (ESAMs). UV-visible absorption and emission experiments show that in this matrix H4TPPS2- is present mainly in its J-aggregated form. Furthermore, linear dichroism experiments on a 3 bilayer film show a preferential alignment of the porphyrin aggregate with the J-band transition dipole moment parallel to the film surface. The two photon absorption (TPA) properties of these films are investigated with the Z-scan technique at 806 nm, employing 130 fs pulses. The samples exhibit strong nonlinearities with a very large two-photon absorption coefficient beta(TPA) of 50 cm GW(-1). The origin of this large response is investigated. It has been already demonstrated that aggregation enhances the molecular TPA cross section of H4TPPS2- from 30 to 1000 GM in water solution thanks to cooperative effects. In a 20 bilayer film a further increase by a factor of 1.7 is observed and explained in terms of preferential alignment of J-aggregates in the multilayer