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1.
J Am Chem Soc ; 146(13): 9311-9317, 2024 Apr 03.
Article in English | MEDLINE | ID: mdl-38502926

ABSTRACT

A π-conjugated molecule with one electronic spin often forms a π-stacked dimer through molecular orbital interactions between two unpaired electrons. The bonding is recognized as a multicentered two-electron interaction between the two π-conjugated molecules. Here, we disclose a multicentered bonding interaction between two antiaromatic molecules involving four electrons. We have synthesized an antiaromatic porphyrin analogue, Ni(II) bis(pentafluorophenyl)norcorrole. Its dimer adopts a face-to-face stacked structure with an extremely short stacking distance of 2.97 Å. The close stacking originates from a multicenter four-electron bonding interaction between the two molecules. The bonding electrons were experimentally observed via synchrotron X-ray diffraction analysis and corroborated by theoretical calculations. The intermolecular interaction of the molecular orbitals imparts the stacked dimer with aromatic character that is distinctly different from that of its monomer.

2.
Oncologist ; 29(2): e290-e293, 2024 Feb 02.
Article in English | MEDLINE | ID: mdl-38016182

ABSTRACT

How and where patients with advanced cancer facing limited survival spend their time is critical. Healthcare contact days (days with healthcare contact outside the home) offer a patient-centered and practical measure of how much of a person's life is consumed by healthcare. We retrospectively analyzed contact days among decedent veterans with stage IV gastrointestinal cancer at the Minneapolis Veterans Affairs Healthcare System from 2010 to 2021. Among 468 decedents, the median overall survival was 4 months. Patients spent 1 in 3 days with healthcare contact. Over the course of illness, the percentage of contact days followed a "U-shaped" pattern, with an initial post-diagnosis peak, a lower middle trough, and an eventual rise as patients neared the end-of-life. Contact days varied by clinical factors and by sociodemographics. These data have important implications for improving care delivery, such as through care coordination and communicating expected burdens to and supporting patients and care partners.


Subject(s)
Gastrointestinal Neoplasms , Veterans , Humans , United States/epidemiology , Retrospective Studies , Delivery of Health Care , Gastrointestinal Neoplasms/therapy
3.
Phys Chem Chem Phys ; 26(14): 10711-10722, 2024 Apr 03.
Article in English | MEDLINE | ID: mdl-38512217

ABSTRACT

Developing innovative platinum-based electrocatalysts and enhancing their efficiency are crucial for advancing high-performance fuel cell technology. In this study, we employed DFT calculations to provide a theoretical basis for interpreting the impact of graphene coatings on various Pt surfaces on oxygen reduction reaction (ORR) catalytic activity, which are currently applied as protective layers in experiments. We comprehensively assess the geometric and electronic properties of Pt(100), Pt(110), and Pt(111) surfaces in comparison to their graphene-coated counterparts, revealing different adsorption behaviors of O2 across these surfaces. The ORR mechanisms on different Pt surfaces show distinct rate-determining steps, with Pt(111) showing the highest ORR activity, followed by Pt(110) and Pt(100). Graphene coatings play a key role in enhancing charge transfer from the surface, resulting in modifications of O2 adsorption. Despite influencing ORR kinetics, these graphene-coated surfaces demonstrate competitive catalytic activity compared to their bare counterparts. Notably, Pt(111) with a graphene coating exhibits the lowest activation energy among graphene-coated surfaces. Our calculations also suggest that the ORR can occur directly on non-defective Pt@graphene surfaces rather than being restricted to exposed Pt centers due to point defects on graphene. Furthermore, our work highlights the potential of nitrogen doping onto the Pt(111)@C surface to further enhance ORR activity. This finding positions nitrogen-doped Pt@C as a promising electrocatalyst for advancing electrochemical technologies.

4.
Angew Chem Int Ed Engl ; 63(15): e202400711, 2024 04 08.
Article in English | MEDLINE | ID: mdl-38315771

ABSTRACT

The development of near-infrared (NIR) fluorophores that have both excellent chemical stability and photostability, as well as efficient cell permeability, is highly demanded. In this study, we present phospha-rhodamine (POR) dyes which display significantly improved performance for protein labeling. This is achieved by incorporating a 2-carboxy-3-benzothiophenyl group at the 9-position of the xanthene scaffold. The resulting cis and trans isomers were successfully isolated and structurally characterized using X-ray diffraction. The HaloTag ligand conjugates of the two isomers exhibited different staining abilities in live cells. While the cis isomer showed non-specific accumulation on the organelle membranes, the trans isomer selectively labeled the HaloTag-fused proteins, enabling the long-term imaging of cell division and the 5-color imaging of cell organelles. Molecular dynamics simulations of the HaloTag ligand conjugates within the lipid membrane suggested that the cis isomer is more prone to forming oligomers in the membrane. In contrast, the oligomerization of the trans isomer is effectively suppressed by its interaction with the lipid molecules. By taking advantage of the superior labeling performance of the trans isomer and its NIR-emissive properties, multi-color time-lapse super-resolution 3D imaging, namely super-resolution 5D-imaging, of the interconnected network between the endoplasmic reticulum and microtubules was achieved in living cells.


Subject(s)
Fluorescent Dyes , Organelles , Rhodamines , Ligands , Fluorescent Dyes/chemistry , Organelles/metabolism , Proteins , Microscopy, Fluorescence/methods , Lipids
5.
Inorg Chem ; 62(49): 20496-20505, 2023 Dec 11.
Article in English | MEDLINE | ID: mdl-38010736

ABSTRACT

A first DMRG/CASSCF-CASPT2 study of a series of paradigmatic {FeNO}6, {FeNO}7, and {FeNO}8 heme-nitrosyl complexes has led to substantial new insight as well as uncovered key shortcomings of the DFT approach. By virtue of its balanced treatment of static and dynamic correlation, the calculations have provided some of the most authoritative information available to date on the energetics of low- versus high-spin states of different classes of heme-nitrosyl complexes. Thus, the calculations indicate low doublet-quartet gaps of 1-4 kcal/mol for {FeNO}7 complexes and high singlet-triplet gaps of ≳20 kcal/mol for both {FeNO}6 and {FeNO}8 complexes. In contrast, DFT calculations yield widely divergent spin state gaps as a function of the exchange-correlation functional. DMRG-CASSCF calculations also help calibrate DFT spin densities for {FeNO}7 complexes, pointing to those obtained from classic pure functionals as the most accurate. The general picture appears to be that nearly all the spin density of Fe[P](NO) is localized on the Fe, while the axial ligand imidazole (ImH) in Fe[P](NO)(ImH) pushes a part of the spin density onto the NO moiety. An analysis of the DMRG-CASSCF wave function in terms of localized orbitals and of the resulting configuration state functions in terms of resonance forms with varying NO(π*) occupancies has allowed us to address the longstanding question of local oxidation states in heme-nitrosyl complexes. The analysis indicates NO(neutral) resonance forms [i.e., Fe(II)-NO0 and Fe(III)-NO0] as the major contributors to both {FeNO}6 and {FeNO}7 complexes. This finding is at variance with the common formulation of {FeNO}6 hemes as Fe(II)-NO+ species but is consonant with an Fe L-edge XAS analysis by Solomon and co-workers. For the {FeNO}8 complex {Fe[P](NO)}-, our analysis suggests a resonance hybrid description: Fe(I)-NO0 ↔ Fe(II)-NO-, in agreement with earlier DFT studies. Vibrational analyses of the compounds studied indicate an imperfect but fair correlation between the NO stretching frequency and NO(π*) occupancy, highlighting the usefulness of vibrational data as a preliminary indicator of the NO oxidation state.

6.
J Phys Chem A ; 127(36): 7544-7556, 2023 Sep 14.
Article in English | MEDLINE | ID: mdl-37651105

ABSTRACT

A systematic analysis was conducted to explore the spin-state energetics of a series of 19 FeN4 complexes. The performance of a large number of multireference methods was assessed, highlighting the significant challenges associated with accurately describing the spin-state energetics of FeN4 complexes. Most multireference methods were found to be susceptible to errors originating from the reference CASSCF wavefunction, leading to an overstabilization of high-spin states. Nonetheless, a few multireference methods, namely, CASPT2/CC, DSRG-MRPT3, and LDSRG(2), demonstrated promising performance compared to the benchmark CCSD(T) method. Furthermore, our study revealed that FeN4 complexes having a quintet ground state are exceedingly rare. Accordingly, only one specific model (Fe(L2)) and one synthesized complex (Fe(OTBP)) have the quintet ground state among the studied complexes. This scarcity of quintet FeN4 complexes highlights the unique nature of these systems and raises intriguing questions regarding the factors influencing spin states, such as the size of the macrocycle cavity, the introduction of substituents, or the induction of out-of-plane deformation.

7.
J Thromb Thrombolysis ; 56(1): 121-127, 2023 Jul.
Article in English | MEDLINE | ID: mdl-37219825

ABSTRACT

Antiphospholipid syndrome (APS) is an acquired hypercoagulable state necessitating long-term anticoagulation for secondary thrombosis prevention. Anticoagulation guidelines are predominantly based on data in high risk, triple positive patients, and favor Vitamin K antagonists over other forms of anticoagulation. The efficacy of alternative anticoagulants for secondary thrombosis prevention in low risk, single and double positive APS remains uncertain. This study aimed to assess the incidence of recurrent thrombosis and major bleeding for patient with low risk APS on long-term anticoagulation. We performed a retrospective cohort study of patients who met revised criteria for thrombotic APS between January, 2001 and April, 2021 and received care through the Lifespan Health System. Primary outcomes included recurrent thrombosis and WHO Grades 3 and 4 major bleeding. A total of 190 patients were followed over a median duration of 3.1 years. At time of APS diagnosis, 89 patients were treated with warfarin and 59 patients with a direct oral anticoagulant (DOAC). There were similar rates of recurrent thrombosis in low risk patients on warfarin versus DOACs (adjusted IRR 6.91; 95% CI 0.90-53.40, p = 0.064). Major bleeding events only occurred in low risk patients on warfarin (n = 8, log-rank p = 0.13). In conclusion, despite the choice of anticoagulation, patients with low risk APS had similar rates of recurrent thrombosis suggesting DOACs may be a potential treatment option for this cohort. There was a non-significant increase in major bleeding rates in low risk patients on warfarin versus DOACs. Study limitations include a retrospective study design and small event numbers.


Subject(s)
Antiphospholipid Syndrome , Thrombosis , Humans , Antiphospholipid Syndrome/complications , Antiphospholipid Syndrome/drug therapy , Warfarin/adverse effects , Retrospective Studies , Anticoagulants/adverse effects , Hemorrhage/chemically induced , Hemorrhage/drug therapy , Thrombosis/drug therapy , Thrombosis/etiology , Thrombosis/prevention & control , Administration, Oral
8.
J Phys Chem A ; 125(17): 3579-3588, 2021 May 06.
Article in English | MEDLINE | ID: mdl-33904746

ABSTRACT

The alkaline earth metal trimer cluster dianions Be32- and Mg32- lie energetically above their respective monoanions and can therefore decay by electron autodetachment. Consequently, these dianions possess only short-lived resonance states, and here we study these states using regularized analytic continuation as well as complex absorbing potentials combined with a wide a variety of quantum chemistry methods including CCSD(T), SACCI, EOM-CCSD, CASPT2, and NEVPT2. For both Be32- and Mg32-, four low-energy resonance states corresponding to different occupation patterns of the two excess electrons in the two lowest p-σ and p-π orbitals are identified: Two states are dominated by doubly occupied configurations and can be characterized as showing σ and π aromatic character. The other two states correspond to the open-shell singlet/triplet pair. All dianion states are found to be highly unstable and to possess short lifetimes: They show resonance positions in the energy range 2.3-4.3 eV above the ground states of their respective monoanions and broad widths between 1 and 1.5 eV translating into femtosecond lifetimes. For both Be32- and Mg32-, the differences between the four states are small, but the triplet states tend to be slightly more stable than the three singlet states. Thus, in the case of the multicharged ion aromatic character of the excess electrons takes second stage while Coulomb repulsion takes front and center. In addition to the two isolated cluster dianions, model stabilization by small water clusters is explored. Our results show a dramatic drop in resonance position and width corresponding to a lifetime increase by 2 orders of magnitude. However, the "solvated" clusters are still resonances, and a more pronounced perturbation by, for example, yet larger water clusters or a ligand environment providing larger bond dipoles will be needed to fully stabilize two excess electrons localized on a small system such as an alkaline metal trimer.

9.
Inorg Chem ; 59(16): 11493-11502, 2020 Aug 17.
Article in English | MEDLINE | ID: mdl-32799474

ABSTRACT

An elaborate study with multireference second-order perturbation theory has been performed to elucidate the electronic structure and relative energy of three relevant states of FeNO corroles, namely the S = 0 ground state, the lowest S = 1 state, and the anion S = 1/2 state. On the basis of CASSCF and DMRG calculations with an active space including up to 37 orbitals, the electronic structure of the ground state was analyzed, with special emphasis on the diradical nature of the Fe-corrole and Fe-NO bonds. The results essentially confirm an earlier suggestion from B3LYP of a non-innocent corrole•2- bound to an {FeNO}7 unit, although the contribution of diradical character to the iron-corrole bond is found to be limited to 35%. This limited diradical character explains the high relative energy (16.5 kcal/mol) of the corresponding triplet state, where the corrole•2- is ferromagnetically coupled to the S = 1/2 {FeNO}7 unit. Consistent with experimental findings, reduction is found to take place at the corrole ligand, with a calculated electron affinity of 52.5 kcal/mol. The results obtained from the correlated calculations were also compared to DFT with a broad range of functionals.

10.
Phys Chem Chem Phys ; 22(46): 27037-27052, 2020 Dec 07.
Article in English | MEDLINE | ID: mdl-33215620

ABSTRACT

A recently introduced framework incorporating the Projector Augmented Wave method and Gauss-type function (GTF-PAW) [X.-G. Xiong and T. Yanai, J. Chem. Theory Comput., 2017, 13, 3236-3249] opens alternative possibilities for performing low-cost molecular computational chemistry calculations. In this work, we present our first attempt to expand the applicability of this method by developing a family of compact general contracted polarization consistent basis sets (PAW-Ln) as an optimized GTF basis in combination with PAW. The results show that PAW-Ln, despite having small numbers of primitives, can provide not only better performance than effective core potential (ECP) but also good accuracy and desirable systematic convergence compared to larger all-electron basis sets. This demonstrates that GTF-PAW using the PAW-Ln basis sets could be a better alternative to both conventional all-electron- and ECP-based approaches for routine DFT calculations.

11.
J Chem Phys ; 152(21): 214117, 2020 Jun 07.
Article in English | MEDLINE | ID: mdl-32505150

ABSTRACT

MOLCAS/OpenMolcas is an ab initio electronic structure program providing a large set of computational methods from Hartree-Fock and density functional theory to various implementations of multiconfigurational theory. This article provides a comprehensive overview of the main features of the code, specifically reviewing the use of the code in previously reported chemical applications as well as more recent applications including the calculation of magnetic properties from optimized density matrix renormalization group wave functions.

12.
Chemistry ; 25(54): 12491-12496, 2019 Sep 25.
Article in English | MEDLINE | ID: mdl-31313861

ABSTRACT

Density functional theory (DFT) and an advanced ab initio technique based on density matrix renormalization group (DMRG-CASPT2) were employed to investigate a reactive N-bridged high-valent diiron-oxo species involved in H-abstraction reactions. We studied in detail two important doublet states, the ground state with two iron(IV) centers and a mixed valence FeV -FeIV excited state. We found that the latter state is low-lying. Furthermore, its electronic structure and spin density imply that it has significantly higher H-abstraction reactivity than the ground state. This low-lying excited state might be the reason behind the high oxidation reactivity of this diiron-oxo species towards methane.

13.
Alcohol Clin Exp Res ; 43(5): 927-936, 2019 05.
Article in English | MEDLINE | ID: mdl-30817019

ABSTRACT

BACKGROUND: Delay discounting refers to the devaluation of a reward given increasing delays to delivery. Similarly, effort discounting refers to the devaluation of a reward given increasing effort required to obtain it. Individuals with substance use disorder show higher rates of delay discounting, exacerbating short-term positive reinforcement at the expense of long-term consequences. This study explores how effort discounting compares to delay discounting behavior among alcohol users as well as how these preferences change between monetary and alcohol rewards. METHODS: A total of 100 participants completed an online survey through Amazon Mechanical Turk. Participant alcohol use was evaluated using DSM-5 and the Alcohol Use Disorders Identification Test criteria. All participants completed 4 randomized discounting tasks involving delay or effort discounting, in which the reward was money or alcohol. A follow-up experiment (n = 423) added the alcohol purchase task to assess alcohol valuation. RESULTS: Individuals with greater alcohol use disorder (AUD) severity discounted future money and alcohol significantly more than those with less AUD. However, individuals meeting more DSM-5 criteria were only willing to perform more effort for alcohol. The follow-up experiment replicated these findings and demonstrated that individuals with greater AUD also showed an increased valuation of alcohol and alcohol value-mediated effort discounting. CONCLUSIONS: These results suggest that individuals with greater AUD were less willing to wait for money or alcohol. While all participants were willing to work for money regardless of AUD severity, individuals with greater AUD showed increased valuation of alcohol drinks and were willing to exert more effort to obtain alcohol. Together, these results paint a picture of individuals with increased AUD as both more impulsive and willing to work to obtain alcohol, contributing to our understanding of decision making among individuals who abuse substances.


Subject(s)
Alcoholism/psychology , Decision Making/physiology , Delay Discounting/physiology , Impulsive Behavior/physiology , Reinforcement, Psychology , Surveys and Questionnaires , Alcoholism/physiopathology , Female , Humans , Male , Random Allocation , Time Factors
14.
Inorg Chem ; 58(11): 7345-7356, 2019 Jun 03.
Article in English | MEDLINE | ID: mdl-31117625

ABSTRACT

The Mn-oxo porphyrin (MnOP) mechanism for substrate hydroxylation is computationally studied with the aim to better understand reactivity in these systems. Theoretical studies suggest Mn(V)OP species to be very reactive intermediates with thermally accessible reaction barriers represented by low-spin/high-spin-crossover occurring in the Mn(V)OP oxidant, and kinetics for selected Mn(V)OP species indeed find high reactivity. On the other hand, MnOP complexes lead to modest yields in hydroxylation reactions of several different substrates, implying low rate constants and high reaction barriers. The resolution of this inconsistency is very important to understand the reactivity of Mn-oxo porphyrins and to improve the catalytic conditions. In this work we use the toluene hydroxylation by the Mn(V)OP(H2O)+ complex as a case study to gain deep insight into the reaction mechanism. Minimum energy crossing point (MECP) results on the H-abstraction process from toluene indicate a first crossover from a singlet to a triplet spin state of the Mn(V)OP(H2O)+ species with a thermally accessible barrier, followed by a very facile H-abstraction by the triplet complex. Issues concerning (i) the validation of the level of the density functional theory employed (BP86) to describe the singlet-triplet energy gap in the Mn(V)OP(H2O)+ system versus highly accurate DMRG-CASPT2/CC calculations, and (ii) the influence of the axial ligand (X = none, Cl-, CH3CN, OH-, and O2-) on MnOP reactivity, which models the different experimental conditions, are addressed. The ligand trans influence mainly controls the reactivity through the singlet-triplet energy gap modulation, with the porphyrin ruffling distortion also finely tuning it. Finally, a stepwise model for the H-abstraction process is proposed which allows a direct comparison between the calculated and experimentally measured Gibbs free activation energy barriers ( Zhang et al. J. Am. Chem. Soc. 2005 , 127 , 6573 - 6582 ). The low yields in catalysis are shown not to be due to low reactivity of Mn(V).

15.
Chemistry ; 24(20): 5183-5190, 2018 Apr 06.
Article in English | MEDLINE | ID: mdl-29068107

ABSTRACT

The structures and spin-state energetics of two di-iron(II) complexes based on thiadiazole and oxadiazole ligands in different crystals were studied by using density functional theory and second-order perturbation theory based on the density matrix renormalization group approach (DMRG-CASPT2). When taking into account all different contributions to the relative energy, our theoretical approach is capable of providing results that are in excellent agreement with established experimental data. In all cases, we correctly describe the ground state of the complexes as well as predict their spin-crossover behavior. A comparison between the two complexes in the gas phase and in different crystals shows how the structures change by moving from the gas phase to different crystals and reveals a large impact of the crystal stabilization on the relative spin-state energy. This theoretical work also demonstrates the applicability of the DMRG-CASPT2 approach to quantitatively study the spin-state energetics of multinuclear transition-metal complexes.

16.
Inorg Chem ; 57(24): 15289-15298, 2018 Dec 17.
Article in English | MEDLINE | ID: mdl-30500163

ABSTRACT

[NiFe] hydrogenases catalyze the reversible conversion of molecular hydrogen to protons and electrons. This seemingly simple reaction has attracted much attention because of the prospective use of H2 as a clean fuel. In this paper, we have studied the full reaction mechanism of this enzyme with various computational methods. Geometries were obtained with combined quantum mechanical and molecular mechanics (QM/MM) calculations. To get more accurate energies and obtain a detailed account of the surroundings, we performed big-QM calculations with 819 atoms in the QM region. Moreover, QM/MM thermodynamic cycle perturbation calculations were performed to obtain free energies. Finally, density matrix renormalisation group complete active space self-consistent field calculations were carried out to study the electronic structures of the various states in the reaction mechanism. Our calculations indicate that the Ni-L state is not involved in the reaction mechanism. Instead, the Ni-C state is reduced by one electron and then the bridging hydride ion is transferred to the sulfur atom of Cys546 as a proton and the two electrons transfer to the Ni ion. This step turned out to be rate-determining with an energy barrier of 58 kJ/mol, which is consistent with the experimental rate of 750 ± 90 s-1 (corresponding to ∼52 kJ/mol). The cleavage of the H-H bond is facile with an energy barrier of 33 kJ/mol, according to our calculations. We also find that the reaction energies are sensitive to the size of the QM system, the basis set, and the density functional theory method, in agreement with previous studies.


Subject(s)
Density Functional Theory , Hydrogenase/metabolism , Quantum Theory , Biocatalysis , Desulfovibrio vulgaris/enzymology , Electrons , Hydrogen/chemistry , Hydrogen/metabolism , Hydrogenase/chemistry , Models, Molecular , Molecular Structure , Protons
17.
Inorg Chem ; 57(23): 14603-14616, 2018 Dec 03.
Article in English | MEDLINE | ID: mdl-30418750

ABSTRACT

The iron(II) complexes of two structural isomers of 2-(1 H-imidazol-2-yl)diazine reveal how ligand design can be a successful strategy to control the electronic and magnetic properties of complexes by fine-tuning their ligand field. The two isomers only differ in the position of a single diazinic nitrogen atom, having either a pyrazine (Z) or a pyrimidine (M) moiety. However, [Fe(M)3](ClO4)2 is a spin-crossover complex with a spin transition at 241 K, whereas [Fe(Z)3](ClO4)2 has a stable magnetic behavior between 2 and 300 K. This is corroborated by temperature-dependent Mössbauer spectra showing the presence of a quintet and a singlet state in equilibrium. The temperature-dependent single-crystal X-ray diffraction results relate the spin-crossover observed in [Fe(M)3](ClO4)2 to changes in the bond distances and angles of the coordination sphere of iron(II), hinting at a stronger σ donation of ligand Z in comparison to ligand M. The UV/vis spectra of both complexes are solved by means of the multiconfigurational wave-function-based method CASPT2 and confirm their different spin multiplicities at room temperature, as observed in the Mössbauer spectra. Calculations show larger stabilization of the singlet state in [Fe(Z)3]2+ than in [Fe(M)3]2+, stemming from the slightly stronger ligand field of the former (506 cm-1 in the singlet). This relatively weak effect is indeed capable of changing the spin multiplicity of the complexes and causes the appearance of the spin transition in the M complex.

18.
Phys Chem Chem Phys ; 20(25): 17009-17019, 2018 Jun 27.
Article in English | MEDLINE | ID: mdl-29901049

ABSTRACT

In this paper, we present a thorough study of the electronic structures and binding energies of O2 to iron and manganese porphyrins (FeP and MnP), employing a state-of-the-art computational technique known as second-order perturbation theory based on density matrix renormalization group (DMRG-CASPT2). By investigating an extensive list of different binding modes and spin states, we provide a clear and conclusive description of the ground state of MnP-O2, confirming available experimental evidences. Our results show that MnP-O2 favours a side-on quartet structure, with strong charge transfer between MnP and O2. We also calculated the standard binding enthalpies of O2 to different metal porphyrins and showed that an agreement between calculated results and experimental data to within 2 kcal mol-1 can be achieved. Our calculations confirm the experimental observation that the binding of O2 to manganese porphyrin is stronger by around 4-6 kcal mol-1 than to the corresponding ferrous porphyrin.

19.
Phys Chem Chem Phys ; 19(16): 10590-10601, 2017 Apr 19.
Article in English | MEDLINE | ID: mdl-28397891

ABSTRACT

[NiFe] hydrogenases catalyse the reversible conversion of molecular hydrogen to protons and electrons. This seemingly simple reaction has attracted much attention because of the prospective use of H2 as a clean fuel. In this paper, we have studied how H2 binds to the active site of this enzyme. Combined quantum mechanical and molecular mechanics (QM/MM) optimisation was performed to obtain the geometries, using both the TPSS and B3LYP density-functional theory (DFT) methods and considering both the singlet and triplet states of the Ni(ii) ion. To get more accurate energies and obtain a detailed account of the surroundings, we performed calculations with 819 atoms in the QM region. Moreover, coupled-cluster calculations with singles, doubles, and perturbatively treated triples (CCSD(T)) and cumulant-approximated second-order perturbation theory based on the density-matrix renormalisation group (DMRG-CASPT2) were carried out using three models to decide which DFT methods give the most accurate structures and energies. Our calculations show that H2 binding to Ni in the singlet state is the most favourable by at least 47 kJ mol-1. In addition, the TPSS functional gives more accurate energies than B3LYP for this system.


Subject(s)
Hydrogen/chemistry , Hydrogenase/chemistry , Catalytic Domain , Hydrogen/metabolism , Hydrogenase/metabolism , Models, Molecular , Nickel/chemistry , Quantum Theory , Thermodynamics
20.
Inorg Chem ; 55(11): 5168-79, 2016 06 06.
Article in English | MEDLINE | ID: mdl-26901395

ABSTRACT

Important electromeric states in manganese-oxo porphyrins MnO(P)(+) and MnO(PF4)(+) (porphyrinato or meso-tetrafluoroporphyrinato) have been investigated with correlated ab initio methods (CASPT2, RASPT2), focusing on their possible role in multistate reactivity patterns in oxygen transfer (OAT) reactions. Due to the lack of oxyl character, the Mn(V) singlet ground state is kinetically inert. OAT reactions should therefore rather proceed through thermally accessible triplet and quintet states that have a more pronounced oxyl character. Two states have been identified as possible candidates: a Mn(V) triplet state and a Mn(IV)O(L(•)a2u)(+) quintet state. The latter state is high-lying in MnO(P)(+) but is stabilized by the substitutions of H by F at the meso carbons (where the a2u orbital has a significant amplitude). Oxyl character and Mn-O bond weakening in these two states stems from the fact that the Mn-O π* orbitals become singly (triplet) or doubly occupied (quintet). Moreover, an important role for the reactivity of the triplet state is also likely to be played by the π bond that has an empty π* orbital, because of the manifest diradical character of this π bond, revealed by the CASSCF wave function. Interestingly, the diradical character of this bond increases when the Mn-O bond is stretched, while the singly occupied π* orbital looses its oxygen radical contribution. The RASPT2 results were also used as a benchmark for the description of excited state energetics and Mn-O oxyl character with a wide range of pure and hybrid density functionals. With the latter functionals both the Mn(V) → Mn(IV) promotion energy and the diradical character of the π bond (with empty π*) are found to be extremely dependent on the contribution of exact exchange. For this reason, pure functionals are to be preferred.

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