Excited states of GFP chromophore and active site studied by the SAC-CI method: effect of protein-environment and mutations

Excited states of fluorescent proteins were studied using symmetry-adapted cluster-configuration interaction (SAC-CI) method. Protein-environmental effect on the excitation and fluorescence energies was investigated. In green fluorescent protein (GFP), the overall protein-environmental effect on the first excitation energy is not significant. However, glutamine (Glu) 94 and arginine (Arg96) have the red-shift contribution as reported in a previous study (Laino et al., Chem Phys 2004, 298, 17). The excited states of GFP active site (GFP-W22-Ser205-Glu222-Ser65) were also calculated. Such large-scale SAC-CI calculations were performed with an improved code containing a new algorithm for the perturbation selection. The SAC-CI results indicate that a charge-transfer state locates at 4.19 eV, which could be related to the channel of the photochemistry as indicated in a previous experimental study. We also studied the excitation and fluorescence energies of blue fluorescent protein, cyan fluorescent protein, and Y66F. The SAC-CI results are very close to the experimental ones. The protonation state of blue fluorescent protein was determined. Conformation of cyan fluorescent protein indicated by the present calculation agrees to the experimentally observed structure.     

Relativistic effects and the halogen dependencies in the 13C chemical shifts of CH4−nIn,CH4−nBrn,CCl4−nIn,and CBr4−nIn (n=0–4)

Linear and nonlinear halogen dependencies of the ¹³C magnetic shielding constants of CH_4−nI_n, CH_4−nBr_n, CCl_4−nI_n, and CBr_4−nI_n were fairly reproduced by the ab initio generalized unrestricted Hartree–Fock (GUHF)/finite perturbation (FP) method including spin‐orbit (SO) interaction and spin‐free relativistic (SFR) terms. As seen from the experimental trends, the calculated ¹³C chemical shifts in CCl_4−nI_n and CBr_4−nI_n depend linearly on n=0–4, while those in CH_4−nI_n and CH_4−nBr_n depend nonlinearly. We found that both the linear and nonlinear dependencies are due to the relativistic effects, and especially due to the Fermi–Contact (FC) term originating from the SO interaction. © 2001 John Wiley & Sons, Inc. J Comput Chem 22: 528–536, 2001     

Inner-shell ionizations and satellites studied by the open-shell reference symmetry-adapted cluster/symmetry-adapted cluster configuration-interaction method

Open-shell reference version of the symmetry-adapted cluster (SAC) and SAC-configuration-interaction (CI) methods, termed open-shell reference (OR)-SAC and OR-SAC-CI methods, are developed and applied to inner-shell ionizations of CH4, NH3, H2O, and HF. The inner-shell ionization potentials and spectra calculated by the OR-SAC and OR-SAC-CI methods are in excellent agreement with the experimental data. Including both of the electron correlation and orbital relaxation is important for quantitative agreements. Timing comparisons with the SAC-CI general-R calculations that give similar high accuracies show an efficiency of the present OR-SAC and OR-SAC-CI methods.     

Structural Transitions from Triangular to Square Molecular Arrangements in the Quasi-One-Dimensional Molecular Conductors (DMEDO-TTF)(2)XF(6) (X = P, As, and Sb)

A series of quasi-one-dimensional molecular conductors (DMEDO-TTF)(2)XF(6) (X = P, As, and Sb), where DMEDO-TTF is dimethyl(ethylenedioxy)tetrathiafulvalene, undergo characteristic structural transitions in the range of 130-195 K for the PF(6) salt and 222-242 K for the AsF(6) salt. The dramatic structural transition is induced by the order of the ethylenedioxy moiety, and the resulting anion rotation leads to the reconstruction of the H···F interaction between the methyl groups and the anions. The unique hydrogen bonds play a crucial role in the transition. As a result, the molecular packing is rearranged entirely; the high-temperature molecular stacks with an ordinary quasi-triangular molecular network transforms to a quasi-square-like network, which has never been observed among organic conductors. Nonetheless, the low-temperature phase exhibits a good metallic conductivity as well, so the transition is a metal-metal (MM) transition. The resistivity measured along the perpendicular direction to the conducting ac-plane (ρ(⊥)) and the calculation of the Fermi surface demonstrate that the high-temperature metal phase is a one-dimensional metal, whereas the low-temperature metal phase has considerable interchain interaction. In the SbF(6) salt, a similar structural transition takes place around 370 K, so that the quasi-square-like lattice is realized even at room temperature. Despite the largely different MM transition temperatures, all these salts undergo metal-insulator (MI) transitions approximately at the same temperature of 50 K. The low-temperature insulator phase is nonmagnetic, and the reflectance spectra suggest the presence of charge disproportionation with small charge difference (0.14).     

HeII(304Å) photoelectron spectrum of N2O4

The 304 Å HeII photoelectron (PE) spectrum of a mixture of NO₂ and N₂O₄ in the gaseous phase has been measured in the region up to 29 eV. By subtracting the HeII spectrum of NO₂ from the mixed spectrum, the HeII spectrum due to N₂O₄ has been deduced, indicating that there are three new PE bands in the region 20—29 eV. Relative band intensities have also been obtained from the HeII of N₂O₄ below 16 eV, corrected for electron collecting efficiency.     

Synthesis of pyrylium salts from trisubstituted 1,4-pentadiyn-3-ols with HClO4

The synthesis of 2,4,6-trisubstituted pyrylium salts from 1,3,5-trisubstituted 1,4-pentadiyn-3-ols with HClO₄ is reported for the first time.     

A comparison of the structure and localized magnetism in Ce2PdGa12 with the heavy fermion CePdGa6

Single crystals of Ce₂PdGa₁₂ have been synthesized in Ga flux and characterized by X-ray diffraction. This compound crystallizes in the tetragonal P4/nbm space group, Z=2 with lattice parameters of and . It shows strongly anisotropic magnetism and orders antiferromagnetically at T_N∼11 K. A field-induced metamagnetic transition to the ferromagnetic state is observed below T_N. Structure-property relationships with the related heavy-fermion antiferromagnet CePdGa₆ are discussed.