the Mechanism of the Oxidation of Cob(I)alamins

Abstract

Spectroelectrochemical investigations of the reoxidation sequence of the reduced cob(I)alamin to the oxidized cob(III)alamin show that two different cob(II)alamin intermediates are formed during the processes which appear to correlate to base-on and base-off cob(II)-alamin species.     

Theoretical study on S_1(~1B_(3u)) state electronic structure and absorption spectrum of pyrazine

Making use of a set of quantum chemistry methods, the harmonic potential surfaces of the ground state (S0(1Ag)) and the first (S1(1B3u)) excited state of pyrazine are investigated, and the electronic structures of the two states are characterized. In the present study, the conventional quantum mechanical method, taking account of the Born-Oppenheimer adiabatic approximation, is adopted to simulate the absorp-tion spectrum of S1(1B3u) state of pyrazine. The assignment of main vibronic transitions is made for S1(1B3u) state. It is found that the spectral profile is mainly described by the Franck-Condon progression of totally symmetric mode ν6a. For the five totally symmetric modes, the present calculations show that the frequency differences between the ground and the S1(1B3u) state are small. Therefore the displaced harmonic oscillator approximation along with Franck-Condon transition is used to simulate S1(1B3u) absorption spectra. The distortion effect due to the so-called quadratic coupling is demonstrated to be unimportant for the absorption spectrum, except the coupling mode ν10a. The calculated S1(1B3u) ab-sorption spectrum is in reasonable agreement with the experimental spectra.     

Ultrafast excited-state dynamics in vitamin B12 and related cob(III)alamins

Femtosecond transient IR and visible absorption spectroscopies have been employed to investigate the excited-state photophysics of vitamin B12 (cyanocobalamin, CNCbl) and the related cob(III)alamins, azidocobalamin (N3Cbl), and aquocobalamin (H2OCbl). Excitation of CNCbl, H2OCbl, or N3Cbl results in rapid formation of a short-lived excited state followed by ground-state recovery on time scales ranging from a few picoseconds to a few tens of picoseconds. The lifetime of the intermediate state is influenced by the sigma-donating ability of the axial ligand, decreasing in the order CNCbl > N3Cbl > H2OCbl, and by the polarity of the solvent, decreasing with increasing solvent polarity. The peak of the excited-state visible absorption spectrum is shifted to ca. 490 nm, and the shape of the spectrum is characteristic of weak axial ligands, similar to those observed for cob(II)alamin, base-off cobalamins, or cobinamides. Transient IR spectra of the upper CN and N3 ligands are red-shifted 20-30 cm(-1) from the ground-state frequencies, consistent with a weakened Co-upper ligand bond. These results suggest that the transient intermediate state can be attributed to a corrin ring pi to Co 3d(z2) ligand to metal charge transfer (LMCT) state. In this state bonds between the cobalt and the axial ligands are weakened and lengthened with respect to the corresponding ground states.     

Influence of the Axial Alkyl Ligand on the Reduction Potential of Alkylcob(III)alamins and Alkylcob(III)yrinates

The irreversible-reduction potentials of 26 alkylcob(III)alamins (RCbl^III 1a – z ) and 26 alkylcob(III)yrinates (R‘Cby’^III; 2a – z ) (E_p 1a – z and E_p 2a – z , resp.) have been measured in situ by single-scan voltammetry of hydroxocob(III)alamin hydrochloride (vitamin B_12b- HCl; 1 ) or heptamethyl cob(II)yrinate perchlorate (ClO₄‘Cby’^II; 2 ) in presence of the corresponding alkyl halides (RX; 3a – z ) in DMF. The reduction potentials of alkylcobalt complexes exhibiting half-life times as short as a few seconds become measurable by this technique. Thermodynamic cycles prove that the observed reduction potentials are closely related to the standard reduction potentials E°(R? Co^III + e^??R? + Co^I). Electron-withdrawing groups and/or an increased degree of substitution at the Co-bound C-atom in RCbl^III and, R‘Cby’^III shift E_p( 1a – z ) and E_p ( 2a – z ) towards positive potentials. Linear correlations have been found between E_p( 1a – z ) (E_p( 2a – z )) of RCbl^III (R‘Cby’^III) and the pK_a of RH (or the Taft σ*- or the Hammett σ-values of R) within each class of R, i. e. MeCbl^III (Me‘Cby’^III), primary RCbl^III (R‘Cby’^III) and secondary RCbl^III (R‘Cby’^III). The correlations allow to distinguish between electronic effects of the Co-bound alkyl residues and their steric interactions with the corrin side chains. The correlations have further been used to visualize the light-induced formal insertion of an olefin into the Co, C-bond of an alkylcobalamin (Scheme 2, 1a → 1u ), a key step in the vitamin-B₁₂-catalized C, C-bond formation.     

S1←S0 vibronic spectrum and structure of fluoral in the S1 state

The vibronic absorption spectrum of fluoral vapor was studied in the region of the S₁←S₀ electronic transition (313–360 nm). The origin O₀ ⁰⁺) of the transition (29419 cm⁻¹) and a number of fundamental frequencies in the S₀ and S₁ states were determined. The character of intensity distribution in the spectral bands indicates that the electronic excitation leads to significant change of the CF₃ group orientation relative to the molecular frame. Moreover, it was found that the carbonyl fragment of the molecule in the S₁ state has pyramidal structure (in contrast, the carbonyl fragment of the fluoral molecule in the S₀ state is planar). The experimental torsion and inversion energy levels were used for the calculation of internal rotation and inversion potential functions of fluoral molecule in the S₁ state. The potential barriers to internal rotation and inversion were found to be 1270 cm⁻¹ (15.2 kJ mol⁻¹) and 550 cm⁻¹ (6.6 kJ mol⁻¹), respectively. The conformational changes caused by S₁←S₀ electronic excitation in the fluoral molecule are similar to those observed in acetaldehyde and biacetyl molecules and differ from the conformational behavior of hexafluorobiacetyl molecule. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 2, pp. 294–299, February, 1998.     

Reduction‐Labile Organo‐cob(III)alamins via Cob(II)alamin: Efficient Synthesis and Solution and Crystal Structures of [(Methoxycarbonyl)methyl]cob(III)alamin

An efficient synthesis of Coβ‐[(methoxycarbonyl)methyl]cob(III)alamin ( 6 ) is reported as an example of a new method for the preparation of some easily reducible organo‐cob(III)alamins via the alkylation of cob(II)alamin. The procedure represents a considerable improvement compared to earlier methods that were based on an alkylation of cob(I)alamin. Thus, aquacob(III)alamin chloride ( 5 ⁺?Cl) was reduced to cob(II)alamin ( 4 ), either by controlled potential electrolytic reduction or with an excess of sodium formate as reducing agent. The solution of 4 was then treated with an excess of methyl bromoacetate while being reductively poised potentiostatically or kept reduced by the formate, to give crystalline 6 in a yield of up to 91%. The structure of 6 in aqueous solution was mainly established by the completely assigned ¹H‐ and ¹³CNMR spectra (Table 1). The NOE data (Table 2) were best rationalized by the presence of a single main conformation of the (methoxycarbonyl)methyl ligand. Single crystals of 6 were obtained by crystallization from an aqueous solution, and the crystal structure was determined by X‐ray analysis at cryotemperatures. The NMR and crystallographic data of 6 indicated similar structures in aqueous solution and in the crystal with the (methoxycarbonyl)methyl ligand preferring a ‘southern' orientation in each case.     

The structure of 2-methylpropanal molecule in the S1 lowest excited singlet electronic state: theoretical and experimental studies

Structural Chemistry - We have obtained and analyzed the S1 ← S0 fluorescence excitation spectrum of jet-cooled 2-methylpropanal ((CH3)2CHCHO). In addition, the ab initio calculations of the...     

High-resolution electronic spectrum of the p-difluorobenzene-water complex: structure and internal rotation dynamics

The rotationally resolved S(1) <-- S(0) electronic spectrum of the water complex of p-difluorobenzene (pDFB) has been observed in the collision-free environment of a molecular beam. Analyses of these data show that water forms a planar sigma-bonded complex with pDFB via two points of attachment, a stronger F---H-O hydrogen bond and weaker H---O-H hydrogen bond, involving an ortho hydrogen atom of the ring. Despite the apparent rigidity of this structure, the water molecule also is observed to move within the complex, leading to a splitting of the spectrum into two tunneling subbands. Analyses of these data show that this motion is a combined inversion-internal rotation of the attached water, analogous to the "acceptor-switching" motion in the water dimer. The barriers to this motion are significantly different in the two electronic states owing to changes in the relative strengths of the two hydrogen bonds that hold the complex together.     

铒甘氨酸配位化合物和铒组氨酸配位化合物的EXAFS谱研究

本文用EXAFS谱研究了三个固体铒甘氨基酸配位化合物, 得到铒甘氨酸和铒组氨酸的第一配位层Er-O键长分别为2.35和2.32A, 配位数分别为8.3和8.0. 并进一步用EXAFS径向结构函数图, 讨论了与其结构类型的关系, 推测出铒氨基酸配位化合物晶体的所属可能结构类型。     

Cyan fluorescent protein: molecular dynamics, simulations, and electronic absorption spectrum

The dynamics and electronic absorption spectrum of enhanced cyan fluorescent protein (ECFP), a mutant of green fluorescent protein (GFP), have been studied by means of a 1 ns molecular dynamics (MD) simulation. The two X-ray conformations A' and B' of ECFP were considered. The chromophore was assumed to be neutral, and all titratable residues were taken in their standard protonation state at neutral pH. The protein was embedded in a box of water molecules (and counterions). The first result is that the two conformations A' and B' are found to be stable all along the simulation. Then, an analysis of the hydrogen-bond networks shows strong differences between the two conformations in the surroundings of the nitrogen atom of the indolic part of the chromophore. This is partly due to the imperfection in the beta barrel near the His148 residue, which allows the access of one solvent molecule inside the protein in conformation A'. Finally, quantum mechanical calculations of the electronic transition energies of the chromophore in the charge cloud of the protein and solvent water molecules were performed using the TDDFT method on 160 snapshots extracted every 5 ps of the MD trajectories. It is found that conformations A' and B' exhibit very similar spectra despite different H-bond networks involving the chromophore. This similarity is related to the weak charge transfer involved in the electronic transition and the weak electrostatic field created by ECFP near the chromophore, within the hypotheses made in the present simulation.     

Excited state electronic structures and dynamics of NOCl: a new potential function set, absorption spectrum, and photodissociation mechanism

A set of analytical potential energy surfaces (PESs) for six singlet excited states of NOCl are constructed based on multireference configuration interaction calculations. The total absorption cross section at the energy range of 2-7 eV is calculated by quantum dynamics calculations with the present PESs and transition dipole moments. The calculated absorption spectrum agrees well with the experiment. It is also found that the A band with the absorption maximum at 6.3 eV is attributed to the transition to the 4 1A' state, though the excitations to the 3 1A' and 3 1A" states contribute to the spectrum at the energy range between 4 and 5 eV. The spin-forbidden transitions are concluded to be negligibly weak. The mechanism of photodissociation reaction at the energy region corresponding to the A band is examined. The nonadiabatic transition rates from the 4 1A' state to lower singlet and triplet states are estimated by Fermi's golden rule, and the transitions to the 1 1A' and 3 1A' states induced by vibronic coupling are found to be the predominant dissociation pathways. The experimentally observed energy dependence of the recoil anisotropy of the fragments is discussed based on the calculated nonadiabatic transition rates.     

The electronic absorption spectrum and excited state dipole moment of 3-fluoropyridine

The electronic absorption spectrum of 3-fluoropyridine in the vapour state and in solutions in different solvents in the region 3000-1900 Å has been measured and analysed. Three systems of absorption bands; n→π* transition I, π→π* transition II and π→π* transition III are identified. The oscillator strength of the absorption band systems due to the π→π* transition II and π→π* transition III and the excited state dipole moments associated with these transitions have been determined by the solvent-shift method.     

The electronic structure and spectra of spin-triplet ground state bis(biuretato)cobalt(III) coordination compounds

The planar coordination compounds of cobalt(III) with bis(biuretato) ligands are highly unusual due to their intermediate spin triplet ground state. Density functional theory (DFT) and time-dependent DFT have been applied in a study of the structure and electronic spectroscopy of this type of coordination compounds. The investigations included prediction and spectroscopic measurements of the absorption and circular dichroism (CD), as well as an experimental study of the magnetic CD. The results obtained by TD-DFT were in excellent agreement with the observed spectral features, both regarding the d-d and the charge transfer regions. There was noted a systematic blue-shift of the TD-DFT results compared to experiment, corresponding to an offset of ca. 0.5 microm(-1) and a scaling factor of 1.25 for the transition energies. The DFT results are rationalized in terms of a qualitative MO analysis.     

Further theoretical studies of the structure and electronic spectrum of cyclobutadiene

The possible geometries for cyclobutadiene and the electronic spectra corresponding to those geometries were calculated by a modified Pariser-Parr method with inclusion of doubly-excited as well as singly-excited configurations in calculating the -energy. The bond lengths of the most stable forms agreed well with previous calculations where the empirical parameters used in the -energy calculation were different from those used here, and where only singly-excited configurations were included. With these additional refinements, the rectangular singlet is calculated to be more stable than the square triplet. It is noted that the geometry predicted to have the lowest energy is a function of the approximations employed.

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Zusammenfassung Mögliche Geometrien und die zugehörigen Spektren von Cyclobutadien wurden nach Pariser-Parr unter Einschlu\ der einfach und zweifach angeregten Konfigurationen berechnet. Die BindungslÄngen der stabilsten Form stimmen gut mit früheren Rechnungen mit anderen gewÄhlten Parametern überein, bei denen nur die einfach angeregten Konfigurationen berücksichtigt worden waren. Und zwar ergibt sich, da\ eine rechteckige Form (Singulett) stabiler als die quadratische (Triplett) ist. Allerdings hÄngt diese Geometrie von den gewÄhlten Parametern ab.

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Résumé Les geometries possibles du butadiéne et les spectres électroniques correspondants ont été calculés par une méthode de Pariser-Parr motifiée avec interaction de configurations avec les états mono et diexcités des électrons . Les longueurs de liaison des formes les plus stables sont en accord avec celles obtenues précédemment avec des paramètres empiriques différents dans un calcul ne tenant compte que des configurations monoexcitées. Dans notre calcul amélioré le singulet rectangulaire est plus stable que le triplet carré. La géométrie la plus stable dépend de l'approximation utilisée.

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This research was supported in part by Research Grant GP 4290 from the National Science Foundation.     

13C NMR studies of the electronic structure of low-spin iron(III) tetraphenylchlorin complexes

A series of low-spin six-coordinate (tetraphenylchlorinato)iron(III) complexes [Fe(TPC)(L)2]+/- (L = 1-MeIm, CN-, 4-CNPy, and (t)BuNC) have been prepared, and their (13)C NMR spectra have been examined to reveal the electronic structure. These complexes exist as the mixture of the two isomers with the (d(xy))2(d(xz), d(yz))3 and (d(xz), d(yz))4(d(xy))1 ground states. Contribution of the (d(xz), d(yz))4(d(xy))1 isomer has increased as the axial ligand changes from 1-MeIm, to CN(-) (in CD2Cl2 solution), CN- (in CD(3)OD solution), and 4-CNPy, and then to tBuNC as revealed by the meso and pyrroline carbon chemical shifts; the meso carbon signals at 146 and -19 ppm in [Fe(TPC)(1-MeIm)2]+ shifted to 763 and 700 ppm in [Fe(TPC)(tBuNC)2]+. In the case of the CN- complex, the population of the (d(xz), d(yz))4(d(xy))1 isomer has increased to a great extent when the solvent is changed from CD2Cl2 to CD3OD. The result is ascribed to the stabilization of the d(xz) and d(yz) orbitals of iron(III) caused by the hydrogen bonding between methanol and the coordinated cyanide ligand. Comparison of the 13C NMR data of the TPC complexes with those of the TPP, OEP, and OEC complexes has revealed that the populations of the (d(xz), d(yz))4(d(xy))1 isomer in TPC complexes are much larger than those in the corresponding TPP, OEC, and OEP complexes carrying the same axial ligands.     

Photoelectron spectrum and ground state electronic structure of chromyl chloride vapor

The electronic structure of chromyl chloride CrO₂Cl₂ has been investigated by ultraviolet (HeI) photoelectron spectroscopy. Mulliken-Wolfsberg-Helmholtz molecular orbital calculations have been performed in order to provide a model for interpretation of the photoelectron spectra and to assist in assigning the low-energy optical absorption and emission transitions. The first ionization potential of CrO₂Cl₂ at 11.8 eV is due to ionization of the near-degenerate oxygen and chlorine nonbonding 2a₂, 4b₁, and 4b₂ MO's. The first unoccupied orbital is basically a chromium dπ^* orbital. The excitations (2a₂, 4b₁, 4b₂)→ 7a₁^* correlate well with the three low energy absorption transitions observed.     

S 1 ←S 0 vibronic spectrum and the structure of the chloral molecule in theS 1 stateS 0 vibronic spectrum and the structure of the chloral molecule in theS 1 state

The vibronic absorption spectrum of chloral (CCl₃COH) vapors is studied in the region of S₁ ← S₀ electron transition (32,000–28,700 cm⁻¹). The 29,070 cm⁻¹ vibronic transition (not observed because of low intensity) is believed to be the ‘start’ of the electron transition. Several fundamentals are found in the S₀ and S₁ states. Inversion splitting of the zero vibrational level in the S₁ state of chloral, indicating a nonplanar structure of the carbonyl fragment, is found. The intensity ratio of the torsional transition bands indicates that the S₁ ← S₀ electronic excitation of the chloral molecule causes significant changes in the orientation of the −CCl₃ group relative to the molecular framework. The potential functions of internal rotation (S₀ and S₁ states) and inversion (S₁ state) of the chloral molecule are determined from experimental data. The potential barriers of internal rotation (S₀ and S₁ states) and inversion (S₁ state) are 380, 780, and 760 cm⁻¹ (4.5, 9.3, and 9.1 kJ/mole), respectively. M. V. Lomonosov Moscow State University. Translated fromZhurnal Strukturnoi Khimii, Vol. 39, No. 3, pp. 507–513, May–June, 1998.     

A CASPT2 study of the electronic spectrum of hexacyanoosmate(III)

CASPT2 calculations reveal that the ligand field splitting parameter Delta(o) of [Os(CN)6]3- is much higher than previously proposed values of +/-38,000 cm(-1). In line with the expected increase down a transition-metal group, Delta(o) is found to be +/-55,000 cm(-1), excluding the possible appearance of ligand field transitions in the UV-vis spectrum. Instead, the calculations confirm that the observed spectrum arises from the three lowest symmetry-allowed ligand-to-metal charge-transfer (LMCT) excitations. Spin-orbit coupling in the ground state is found to be about 4350 cm(-1), leading to a spin-orbit coupling constant zeta of +/-2900 cm(-1). Spin-orbit coupling in the 2T(1u) LMCT states is found not to be negligible, contrary to previous belief.