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1.
Angew Chem Int Ed Engl ; 62(17): e202300162, 2023 04 17.
Article in English | MEDLINE | ID: mdl-36856160

ABSTRACT

Type I photodynamic therapy (PDT) represents a promising treatment modality for tumors with intrinsic hypoxia. However, type I photosensitizers (PSs), especially ones with near infrared (NIR) absorption, are limited and their efficacy needs improvement via new targeting tactics. We develop a NIR type I PS by engineering acridinium derived donor-π-acceptor systems. The PS exhibits an exclusive type I PDT mechanism due to effective intersystem crossing and disfavored energy transfer to O2 , and shows selective binding to G-quadruplexes (G4s) via hydrogen bonds identified by a molecular docking study. Moreover, it enables fluorogenic detection of G4s and efficient O2 ⋅- production in hypoxic conditions, leading to immunogenic cell death and substantial variations of gene expression in RNA sequencing. Our strategy demonstrates augmented antitumor immunity for effective ablation of immunogenic cold tumor, highlighting its potential of RNA-targeted type I PDT in precision cancer therapy.


Subject(s)
G-Quadruplexes , Nanoparticles , Neoplasms , Photochemotherapy , Humans , Photosensitizing Agents/chemistry , Molecular Docking Simulation , Neoplasms/drug therapy , RNA , Hypoxia/drug therapy , Nanoparticles/chemistry
2.
Article in English | MEDLINE | ID: mdl-35353675

ABSTRACT

A new endophytic bacterium, designated strain MQZ13P-4T was isolated from Sonneratia apetala collected from Maowei sea Mangrove Nature Reserve in Guangxi Zhuang Autonomous Region, PR China. The 16S rRNA gene sequence similarity between strain MQZ13P-4T and its closest phylogenetic neighbour Jiella endophytica CBS5Q-3T was 97.9 %. Phylogenetic analyses using 16S rRNA gene sequences and whole-genome sequences showed that strain MQZ13P-4T formed a distinct lineage with Jiella endophytica CBS5Q-3T, Jiella pacifica 40Bstr34T and Jiella aquimaris JCM 30119T. The draft genome of strain MQZ13P-4T was 5 153 243 bp in size and its DNA G+C content was 68.1 mol%. Comparative genome analysis revealed that the average nucleotide identity, digital DNA-DNA hybridization and average amino acid identity values among strain MQZ13P-4T and other related species were below the cut-off levels of 95, 70 and 95.5 %, respectively. The cell-wall peptidoglycan of strain MQZ13P-4T contained meso-diaminopimelic acid as the diagnostic diamino acid. The respiratory quinone was Q-10. The major cellular fatty acid was C18 : 1 ω7c. The polar lipids comprised phosphatidylcholine, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, two unidentified aminolipids and two unidentified lipids. Strain MQZ13P-4T had a typical chemical compositions of fatty acids, lipids, quinones and diagnostic diamino acid for Jiella species, but could be distinguished from known species of the genus Jiella. Based on polyphasic evidence, strain MQZ13P-4T represents novel species of the genus Jiella, for which the name Jiella sonneratiae sp. nov. is proposed. The type strain is MQZ13P-4T (=CGMCC 1.18727T=JCM 34333T).


Subject(s)
Fatty Acids , Plant Bark , Bacterial Typing Techniques , Base Composition , China , DNA, Bacterial/genetics , Fatty Acids/chemistry , Phospholipids/chemistry , Phylogeny , Plant Bark/microbiology , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA
3.
Sichuan Da Xue Xue Bao Yi Xue Ban ; 51(2): 159-164, 2020 Mar.
Article in Chinese | MEDLINE | ID: mdl-32220182

ABSTRACT

OBJECTIVE: To investigate the effects of enterovirus 71 (EV71) on mitochondrial dynamics in human Glioma U251 cells. METHODS: The EV71 was replicated in Vero cells and the 50% tissue culture infective dose (TCID 50) was calculated based on the Reed-Muench formula. After the U251 cells were infected with EV71, the cellular morphology was assessed through the light microscope. The mitochondrial morphology was detected by MitoTracker Deep Red staining under laser confocal microscopy and the mitochondrial ultrastructure was visualized by transmission electron microscopy. The expressions of mitochondrial fission proteins Drp1, p-Drp1 and fusion protein Opa1 were examined by Western blot. The level of ATP was measured by a commercial ATP assay kit. The generation of mitochondrial superoxide was detected by MitoSOX staining. RESULTS: The TCID 50 of EV71 was 10 -5.4/0.1 mL. Twenty-four or 48 h after EV71 infection, the U251 cells appeared shrunken, round and dead. The laser confocal microscopy and transmission electron microscopy images showed that the EV71 infection induced mitochondrial elongation and cristae damage. Moreover, Western blot analysis demonstrated that the protein expressions of Drp1 and Opa1 were downregulated at both 24 and 48 h after EV71 infection in U251 cells, companied with a significant increase in Drp1 phosphorylation at 48 h after infection ( P<0.05). In addition, a decreased ATP level and elevated mitochondrial superoxide generation were observed in the EV71 infected group, as compared to the control group. CONCLUSION: Our study demonstrated that infection with EV71 led to changes of mitochondrial morphology and dynamics in U251 cells, which may impair mitochondrial function and contribute to nervous system dysfunction.


Subject(s)
Brain Neoplasms/virology , Enterovirus A, Human , Enterovirus Infections , Enterovirus , Glioma/virology , Mitochondrial Dynamics , Animals , Chlorocebus aethiops , Enterovirus A, Human/pathogenicity , Enterovirus Infections/complications , Humans , Nervous System/physiopathology , Nervous System/virology , Tumor Cells, Cultured , Vero Cells
4.
Chem Sci ; 10(40): 9257-9264, 2019 Oct 28.
Article in English | MEDLINE | ID: mdl-32055310

ABSTRACT

Molecular probes that enable high-contrast photoacoustic (PA) imaging of cellular processes are valuable tools for in vivo studies. Design of activatable PA probes with high contrast remains elusive. We develop a new NIR rhodol derivative, Rhodol-NIR, with a large extinction coefficient, low quantum yield and structural switching from a 'ring-open' form to a 'closed' spirolactone upon esterification. This structural transition, together with the ideal photophysical properties, enables the development of activatable probes for high-contrast PA imaging via a target-specific de-esterification reaction. This strategy is demonstrated using a PA probe designed for a tumor biomarker, human NAD(P)H: quinone oxidoreductase isozyme 1 (hNQO1), which affords high contrast and excellent sensitivity for PA detection and imaging of hNQO1 in living cells and animals. The strategy can provide a new paradigm for engineering activatable PA probes for high-contrast imaging.

5.
Phys Chem Chem Phys ; 20(16): 10997-11002, 2018 Apr 25.
Article in English | MEDLINE | ID: mdl-29629461

ABSTRACT

Cubic Pd nanocrystals (CPNCs) as one of typical nanostructures are generally fabricated using I- or Br- as capping ions. However, which ion, I- or Br-, exclusively mediates the growth of CPNCs in a given reaction system is not well understood. Herein, regardless of I- or Br- as the capping ion, we successfully achieved CPNCs in the same reaction system simply by adjusting the pH. Based on the Finke-Watzky kinetic model, an increase in pH accelerates the overall reduction rate of Pd2+, and the formation of CPNCs only occurs over the range of specific solution reduction rate constants (k1). This kinetically illuminates that the reduction rate of Pd2+ is the physicochemical parameter that determines which ion, I- or Br-, dictates the growth of CPNCs. Also, density functional theory (DFT) calculations further elucidate the dependence of the reduction rate of Pd2+ on pH and the configuration of the activated Pd2+ complex.

6.
Angew Chem Int Ed Engl ; 57(25): 7473-7477, 2018 06 18.
Article in English | MEDLINE | ID: mdl-29682856

ABSTRACT

Two-photon imaging is an emerging tool for biomedical research and clinical diagnostics. Electron donor-acceptor (D-A) type molecules are the most widely employed two-photon scaffolds. However, current D-A type fluorophores suffer from solvatochromic quenching in aqueous biological samples. To address this issue, we devised a novel class of D-A type green fluorescent protein (GFP) chromophore analogues that form a hydrogen-bond network in water to improve the two-photon efficiency. Our design results in two-photon chalcone (TPC) dyes with 0.80 quantum yield and large two-photon action cross section (210 GM) in water. This strategy to form hydrogen bonds can be generalized to design two-photon materials with anti-solvatochromic fluorescence. To demonstrate the improved in vivo imaging, we designed a sulfide probe based on TPC dyes and monitored endogenous H2 S generation and scavenging in the cirrhotic rat liver for the first time.


Subject(s)
Liver Cirrhosis/diagnostic imaging , Solvents/chemistry , Animals , Density Functional Theory , Fluorescence , Fluorescent Dyes/chemistry , Green Fluorescent Proteins/chemistry , Hydrogen Bonding , Photons , Rats
7.
Chemosphere ; 194: 117-124, 2018 Mar.
Article in English | MEDLINE | ID: mdl-29197814

ABSTRACT

The mechanism of As(V) removal from the drinking water and industrial effluents by iron materials remains unclear at the molecular level. In this work, the association of Fe-based materials with As(V) species was explored using density functional theory and ab initio calculations. Solvent separated ion pair structures of [FeH2AsO4]2+aq species may be dominant in an acidic solution of FeAs complex. The association trend of H2AsO4- species by Fe3+aq is found to be quite weak in the aqueous solution, which may be attributed to the strong hydration of Fe3+aq and [FeH2AsO4]2+ species. However, the association of H2AsO4- species by colloidal clusters is quite strong, due to the weakened hydration of Fe(III) in colloidal structures. The hydrophobicity of Fe-based materials may be one of the key factors for their As(V) removal efficiency in an aqueous phase. When the number of OH- coordinated with Fe(III) increases, the association trend of As(V) by colloidal ferric hydroxides weakens accordingly. This study provides insights into understanding the coprecipitation and adsorption mechanisms of arsenate removal and revealing the high efficiency of arsenate removal by colloidal ferric hydroxides or iron salts under moderate pH conditions.


Subject(s)
Arsenic/isolation & purification , Iron Compounds/chemistry , Water Purification/methods , Adsorption , Arsenates/isolation & purification , Arsenic/chemistry , Chemical Precipitation , Ferric Compounds , Hydrogen-Ion Concentration , Water Pollutants, Chemical/isolation & purification
8.
Phys Chem Chem Phys ; 19(18): 11390-11403, 2017 May 10.
Article in English | MEDLINE | ID: mdl-28422226

ABSTRACT

The molecular structure of growth units building crystals is a fundamental issue in the crystallization processes from aqueous solutions. In this work, a systematic investigation of pre-nucleation clusters and their hydration characteristics in aqueous CaSO4 solutions was performed using ab initio calculations and molecular dynamics (MD) simulations. The results of ab initio calculations and MD simulations indicate that the dominant species in aqueous CaSO4 solutions are monodentate ion-associated structures. Compared with charged ion clusters, neutral clusters are more likely to be present in an aqueous CaSO4 solution. Neutral (CaSO4)m clusters are probably the growth units involved in the pre-nucleation or crystallization processes. Meanwhile, hydration behavior around ion associated species in aqueous CaSO4 solutions plays an important role in related phase/polymorphism selections. Upon ion clustering, the residence of some water molecules around Ca2+ in ion-associated species is weakened while that of some bridging waters is enhanced due to dual interaction by Ca2+ and SO42-. Some phase/polymorphism selections can be achieved in aqueous CaSO4 solutions by controlling the hydration around pre-nucleation clusters. Moreover, the association trend between calcium and sulfate is found to be relatively strong, which hints at the low solubility of calcium sulfate in water.

9.
J Phys Chem A ; 120(28): 5635-48, 2016 Jul 21.
Article in English | MEDLINE | ID: mdl-27285203

ABSTRACT

In this study, the structural characteristics of high-coordinated Ca-Cl complexes present in mixed CaCl2-LiCl aqueous solution were investigated using density functional theory (DFT) and molecular dynamics (MD) simulations. The DFT results show that [CaClx](2-x) (x = 4-6) clusters are quite unstable in the gas phase, but these clusters become metastable when hydration is considered. The MD simulations show that high-coordinated Ca-chloro complexes are possible transient species that exist for up to nanoseconds in concentrated (11.10 mol·kg(-1)) Cl(-) solution at 273 and 298 K. As the temperature increases to 423 K, these high-coordinated structures tend to disassociate and convert into smaller clusters and single free ions. The presence of high-order Ca-Cl species in concentrated LiCl solution can be attributed to their enhanced hydration shell and the inadequate hydration of ions. The probability of the [CaClx](2-x)aq (x = 4-6) species being present in concentrated LiCl solution decreases greatly with increasing temperature, which also indicates that the formation of the high-coordinated Ca-Cl structure is related to its hydration characteristics.

10.
J Phys Chem A ; 117(35): 8468-76, 2013 Sep 05.
Article in English | MEDLINE | ID: mdl-23909826

ABSTRACT

In this work, a systematic investigation of the competition coordination of H2O and Cl(-) with Ni(2+) in saturated NiCl2 aqueous solution at room temperature was conducted using density functional theory (DFT), Car-Parrinello molecular dynamics (CPMD) simulations, and extended X-ray absorption fine structure (EXAFS) spectra. The calculated results reveal that the six-coordinated structure is favorable for [NiCl(x)(H2O)(n)](2-x) (x = 0-2; n = 1-12) clusters in the aqueous phase. The hydration energy calculation shows that the six-coordinated solvent-shared ion pair (SSIP) ([Ni(H2O)6(H2O)(n-6)Cl](+)) is more stable than its contact ion pair (CIP) ([NiCl(H2O)5(H2O)(n-5)](+)) isomer as n ≥ 9 in the aqueous phase, and the six-coordinated solvent-shared ion pair with a dissociated double Cl(-) (SSIP/d) ([Ni(H2O)6(H2O)(n-6)Cl2](0)) is more preferable than its CIP ([NiCl2(H2O)4(H2O)(n-4)](0)) and solvent-shared ion pair with single dissociated Cl(-) (SSIP/s) ([NiCl(H2O)5(H2O)(n-5)Cl](0)) isomers as n ≥ 11. The six-coordinated SSIP/d ([Ni(H2O)6(H2O)(n-6)Cl2](0)) conformers are the dominant structures in a saturated NiCl2(aq) solution (NiCl2 concentration: ~5.05 mol·kg(-1), corresponding to n ≈ 11). The CPMD simulations exhibited that there are six water molecules with Ni-O distance at ~205.0 pm on average around each Ni(2+) in the first hydration sphere, even in the saturated NiCl2 aqueous solution (~5.05 mol·kg(-1)) at room temperature, and no obvious Ni-Cl interaction was found. The EXAFS spectra revealed that the first solvation shell of Ni(2+) is an octahedral structure with six water molecules tightly bound in the NiCl2(aq) solution with a concentration ranging from 1.00 to 5.05 mol·kg(-1), and there is no obvious evidence of Ni-Cl contact ion pairs. A comprehensive conclusion from the DFT, CPMD, and EXAFS studies is that there is no obvious direct contact between Ni(2+) and Cl(-), even in saturated NiCl2 aqueous solution at room temperature.

11.
J Phys Chem A ; 115(17): 4416-26, 2011 May 05.
Article in English | MEDLINE | ID: mdl-21462945

ABSTRACT

In this work, structures and thermodynamic properties of [CuCl(3)](-) and [CuCl(4)](2-) hydrates in aqueous solution were investigated using density functional theory and ab initio methods. Contact ion pair (CIP) and solvent-shared ion pair (SSIP) structures were both taken into account. Our calculations suggest that [CuCl(3)(H(2)O)(n)](-) clusters might favor a four-coordinated CIP structure with a water molecule coordinating with the copper atom in the equatorial position for n = 3 and 4 in aqueous solution, whereas the four-coordinated SSIP structure with one chloride atom dissociated becomes more stable as n increases to 5. For the [CuCl(4)](2-) cluster, the four-coordinated tetrahedron structure is more stable than the square-planar one, whereas for [CuCl(4)(H(2)O)(n)](2-) (n ≥ 1) clusters, it seems that four-coordinated SSIP structures are slightly more favorable than CIP structures. Our calculations suggest that Cu(2+) perhaps prefers a coordination number of 4 in CuCl(2) aqueous solution with high Cl(-) concentrations. In addition, natural bond orbital (NBO) calculations suggest that there is obvious charge transfer (CT) between copper and chloride atoms in [CuCl(x)](2-x) (x = 1-4) clusters. However, compared with that in the [CuCl(2)](0) cluster, the CT between the copper and chloride atoms in [CuCl(3)](-) and [CuCl(4)](2-) clusters becomes negligible as the number of attached redundant Cl(-) ions increases. This implies that the coordination ability of Cl(-) is greatly weakened for [CuCl(3)](-) and [CuCl(4)](2-) clusters. Electronic absorption spectra of these different hydrates were obtained using long-range-corrected time-dependent density functional theory. The calculated electronic transition bands of the four-coordinated CIP conformer of [CuCl(3)(H(2)O)(n)](-) for n = 3 and 4 are coincident with the absorption of [CuCl(3)](-)(aq) species (∼284 and 384 nm) resolved from UV spectra obtained in CuCl(2) (ca. 10(-4) mol·kg(-1)) + LiCl (>10 mol·kg(-1)) solutions, whereas the calculated bands of [CuCl(3)(H(2)O)(n)](-) in their most stable configurations are not when n = 0 - 2 or n > 4, which means that the species [CuCl(3)](-)(aq) exists in those CuCl(2) aqueous solutions in which the water activity is neither too low nor too high. The calculated bands of [CuCl(4)(H(2)O)(n)](2-) clusters correspond to the absorption spectra (∼270 and 370 nm) derived from UV measurements only when n = 0, which suggests that [CuCl(4)](2-)(aq) species probably exist in environments in which the water activity is quite low.


Subject(s)
Chlorides/chemistry , Copper/chemistry , Quantum Theory , Solutions , Thermodynamics , Water/chemistry
12.
J Phys Chem A ; 114(32): 8406-16, 2010 Aug 19.
Article in English | MEDLINE | ID: mdl-20701349

ABSTRACT

In this work, structures, and properties of Cu(2+) and CuCl(+) hydrates in the gas and aqueous phases have been investigated using the B3LYP method. Contact ion pair (CIP) and solvent-shared ion pair (SSIP) were both taken into account for CuCl(+) hydrates. Our calculations show that [Cu(H(2)O)(n)](2+) clusters favor a very open four-coordinated structure for n = 5-12 in the gas phase, while a five-coordinated conformer is favored for n > or = 8 in the aqueous phase. An approximate complete solvation shell of Cu(2+) in the aqueous phase needs more than 12 water molecules, while that of CuCl(+) in the aqueous phase needs only about eight water molecules. For [CuCl(H(2)O)(n)](+) clusters, the most stable structure is a four-coordinated CIP conformer for n = 4-7 in the gas phase and a five-coordinated CIP conformer for n = 8-10 in the aqueous phase. However, the five-coordinated CIP/h conformer (CIP conformer that the axial chloride atom tends to dissociate) of [CuCl(H(2)O)(n)](+) clusters becomes more favorable as n increases to 11. As the hydration process proceeds, the charges on the copper atom of [Cu(H(2)O)(n)](2+) clusters decrease, while those of [CuCl(H(2)O)(n)](+) clusters increase (probably due to the dissociation of Cl(-)). The d-d electron transition and partial charge transition band around 160 nm of the five-coordinated conformer of [Cu(H(2)O)(n)](2+) clusters and those bands (approximately 170 and approximately 160 nm) of SSIP or five-coordinated CIP/h conformers of [CuCl(H(2)O)(n)](+) clusters are coincident with the absorption of [Cu](2+)(aq) species (approximately 180 nm) resolved from the spectra obtained in trace CuCl(2) (ca. 10(-5) mol x kg(-1)) + LiCl (0-18 mol x kg(-1)) aqueous solution, while those of five-coordinated CIP conformers of [CuCl(H(2)O)(n)](+) clusters (n = 8 and 9) around 261 and 247 nm correspond to the absorption of [CuCl](+)(aq) species (approximately 250 nm). Our calculated electronic spectra indicate that the typical peak of copper(II)-chloride complexes changes from 180 to 250 nm, and 275 nm, as the process of Cl(-) coordination. For [Cu](2+)(aq), [CuCl](+)(aq), and [CuCl(2)](0)(aq) species, the central Cu(II) atom prefers five-coordination.

13.
J Phys Chem A ; 113(51): 14029-38, 2009 Dec 24.
Article in English | MEDLINE | ID: mdl-19928772

ABSTRACT

In this work, the hydrates of copper dichloride in gas and aqueous phase have been investigated using the B3LYP method. Low-lying conformers of CuCl(2)(H(2)O)(n) clusters for n = 1-10 were obtained by an extensive conformation search. Contact ion pair (CIP) and solvent-shared ion pair (SSIP) with one dissociated chloride atom (SSIP/s) and SSIP with two dissociated chloride atoms (SSIP/d) all were considered. Our calculations present such a trend that a four-fold CIP conformer is more favorable for CuCl(2)(H(2)O)(n) cluster (n < or = 7) and four-fold SSIP/s for n = 8-10 in the gas phase, while in aqueous solution, more stable structures are five-fold SSIP/s conformer for n = 7-9 and four-fold CIP conformer for n = 2-6. Hydrogen bond (HB) plays an important role in the CuCl(2) solvation, especially HBs formed between the first and second solvation shell water molecules. Electronic absorption spectra of CuCl(2)(H(2)O)(n) clusters were obtained using long-range-corrected time-dependent density functional theory. The calculated electronic absorption peak around 270 nm of CIP conformers is coincident with the absorption of [CuCl(2)](0)(aq) species resolved from the spectra obtained in solutions of trace CuCl(2) (ca. 10(-5) mol/kg) + LiCl (0-18 m), while those of SSIP/s (approximately 250 nm) and SSIP/d (approximately 180 nm) conformers probably correspond to the absorption spectra of [CuCl](+)(aq) and [Cu](2+)(aq) species, respectively. Natural bond orbital charge population analyses show that charge transfer (CT) between a central copper(II) atom and ligands (Cl and H(2)O) increases as the hydrated cluster expands, especially CT from Cu(2+) to the first solvation shell, which enhances the strength of HBs. Such CT becomes more apparent for SSIP structure with the dissociation of chloride ion. OH stretching vibration frequencies of proton donor type water in CuCl(2)(H(2)O)(n) clusters are obviously red-shifted in comparison to those of water clusters, due to CT between the central atom Cu and ligands. SSIP conformers have apparent IR absorption peaks of OH stretching vibration at approximately 3000 cm(-1) for the effect of half-dissociated chloride atoms.

14.
J Chem Theory Comput ; 5(6): 1709-17, 2009 Jun 09.
Article in English | MEDLINE | ID: mdl-26609861

ABSTRACT

The cation-π interactions have been intensively studied. Nevertheless, the interactions of π systems with heavy transition metals and their accurate conformations are not well understood. Here, we theoretically investigate the structures and binding characteristics of transition metal (TM) cations including novel metal cations (TM(n+) = Cu(+), Ag(+), Au(+), Pd(2+), Pt(2+), and Hg(2+)) interacting with benzene (Bz). For comparison, the alkali metal complex of Na(+)-Bz is also included. We employ density functional theory (DFT) and high levels of ab initio theory including Møller-Plesset second-order perturbation (MP2) theory, quadratic CI method with single and double substitutions (QCISD), and the coupled cluster theory with single, double, and perturbative triple excitations (CCSD(T)). Each of the transition metal complexes of benzene exhibits intriguing binding characteristics, different from the typical cation-π interactions between alkali metal cations and aromatic rings. The complexes of Na(+), Cu(+), and Ag(+) favor the conformation of C6v symmetry with the cation above the benzene centroid (πcen). The formation of these complexes is attributed to the electrostatic interaction, while the magnitude of charge transfer has little correlation with the total interaction energy. Because of the TM(n+)←π donation, cations Au(+), Pd(2+), Pt(2+), and Hg(2+) prefer the off-center π conformation (πoff) or the π coordination to a C atom of the benzene. Although the electrostatic interaction is still important, the TM←π donation effect is responsible for the binding site. The TM(n+)-Bz complexes give some characteristic IR peaks. The complexes of Na(+), Cu(+), and Ag(+) give two IR active modes between 800 and 1000 cm(-1),which are inactive in the pure benzene. The complexes of Au(+), Pd(2+), Pt(2+), and Hg(2+) give characteristic peaks for the ring distortion, C-C stretching, and C-H stretching modes as well as significant red-shifts in the CH out-of-plane bending.

15.
J Chem Phys ; 125(16): 164332, 2006 Oct 28.
Article in English | MEDLINE | ID: mdl-17092098

ABSTRACT

Despite intensive studies of the neutral tropyl radical, none of its structure, energetics, and vibrational modes are still clear. This system has puzzled scientists for over a decade since one vibrational mode frequency sharply varies from imaginary number 3000i cm-1 to the real number 6000 cm-1, depending on the calculation methods employed. We find that the origin of this peculiar mode is due to the pseudorotation (omegairot) involved in the interconversion of two nearly isoenergetic Jahn-Teller configurations (elongated structure 2B1 and compressed structure 2A2 with C2v symmetry). Here, we first report that this interconversion is not via D7h or C2v symmetry configuration but via Cs symmetry (i.e., by changing the C2v axis). This interconversion barrier is found negligibly small. Thus, the two conformers are considered to be not two different structures but a dynamically identical structure with partial quantum statistical distributions on the potential energy surface. Owing to the nearly barrierless pseudorotation, the overall structure in a short time scale (less than femtosecond) would be Cs-like between 2A2 and 2B1 configurations with small fluctuation of bond distances. However, the dynamical transitions between the 2B1 and 2A2 configurations via 14 different pseudorotation pathways would make the tropyl radical have the effective D7h structure in either a nonshort time scale (greater than femtosecond) or at nonlow temperatures, which explains the high temperature electron spin resonance experiments.

16.
Chemistry ; 12(18): 4885-92, 2006 Jun 14.
Article in English | MEDLINE | ID: mdl-16671046

ABSTRACT

To understand the self-assembly process of the transition metal (TM) nanoclusters and nanowires self-synthesized by hydroquinone (HQ) and calix[4]hydroquinone (CHQ) by electrochemical redox processes, we have investigated the binding sites of HQ for the transition-metal cations TM(n+)=Ag(+), Au(+), Pd(2+), Pt(2+), and Hg(2+) and those of quinone (Q) for the reduced neutral metals TM(0), using ab initio calculations. For comparison, TM(0)-HQ and TM(n+)-Q interactions, as well as the cases for Na(+) and Cu(+) (which do not take part in self-synthesis by CHQ) are also included. In general, TM-ligand coordination is controlled by symmetry constraints imposed on the respective orbital interactions. Calculations predict that, due to synergetic interactions, silver and gold are very efficient metals for one-dimensional (1D) nanowire formation in the self-assembly process, platinum and mercury favor both nanowire/nanorod and thin film formation, while palladium favors two-dimensional (2D) thin film formation.


Subject(s)
Hydroquinones/chemistry , Nanostructures/chemistry , Quinones/chemistry , Transition Elements/chemistry , Cations/chemistry , Metals/chemistry , Oxidation-Reduction
17.
J Phys Chem B ; 110(8): 3808-15, 2006 Mar 02.
Article in English | MEDLINE | ID: mdl-16494440

ABSTRACT

The structures, stabilities, thermodynamic quantities, dissociation energies, infrared spectra, and electronic properties of CsF hydrated by water molecules are investigated by using density functional theory, Møller-Plesset second-order perturbation theory (MP2), coupled cluster theory with singles, doubles, and perturbative triples excitations (CCSD(T)), and ab initio molecular dynamic (AIMD) simulations. It is revealed that at 0 K three water molecules (as a global minimum structure) begin to half-dissociate the Cs-F, and six water molecules (though not a global minimum energy structure) can dissociate it. By the combination of the accurate CCSD(T) conformational energies for Cs(H2O)6 at 0 K with the AIMD thermal energy contribution, it reveals that the half-dissociated structure is the most stable at 0 K, but this structure (which is still the most stable) changes to the dissociated structure above 50 K. The spectra of CsF(H2O)(1-6) from MP2 calculations and the power spectra of CsF(H2O)6 from 50 and 100 K AIMD simulations are also reported.


Subject(s)
Algorithms , Cesium/chemistry , Computer Simulation , Fluorides/chemistry , Water/chemistry , Hydrogen Bonding , Molecular Conformation , Spectrophotometry, Infrared , Thermodynamics
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