An examination of the metal ion content in the active sites of human endonucleases CPSF73 and INTS11.

Human cleavage and polyadenylation specificity factor (CPSF)73 (also known as CPSF3) is the endoribonuclease that catalyzes the cleavage reaction for the 3'-end processing of pre-mRNAs. The active site of CPSF73 is located at the interface between a metallo-ß-lactamase domain and a ß-CASP domain. Two metal ions are coordinated by conserved residues, five His and two Asp, in the active site, and they are critical for the nuclease reaction. The metal ions have long been thought to be zinc ions, but their exact identity has not been examined. Here we present evidence from inductively coupled plasma mass spectrometry and X-ray diffraction analyses that a mixture of metal ions, including Fe, Zn, and Mn, is present in the active site of CPSF73. The abundance of the various metal ions is different in samples prepared from different expression hosts. Zinc is present at less than 20% abundance in a sample expressed in insect cells, but the sample is active in cleaving a pre-mRNA substrate in a reconstituted canonical 3'-end processing machinery. Zinc is present at 75% abundance in a sample expressed in human cells, which has comparable endonuclease activity. We also observe a mixture of metal ions in the active site of the CPSF73 homolog INTS11, the endonuclease for Integrator. Taken together, our results provide further insights into the role of metal ions in the activity of CPSF73 and INTS11 for RNA 3'-end processing.

Highly Activated Terminal Carbon Monoxide Ligand in an Iron-Sulfur Cluster Model of FeMco with Intermediate Local Spin State at Fe.

Nitrogenases, the enzymes that convert N2 to NH3, also catalyze the reductive coupling of CO to yield hydrocarbons. CO-coordinated species of nitrogenase clusters have been isolated and used to infer mechanistic information. However, synthetic FeS clusters displaying CO ligands remain rare, which limits benchmarking. Starting from a synthetic cluster that models a cubane portion of the FeMo cofactor (FeMoco), including a bridging carbyne ligand, we report a heterometallic tungsten-iron-sulfur cluster with a single terminal CO coordination in two oxidation states with a high level of CO activation (νCO = 1851 and 1751 cm-1). The local Fe coordination environment (2S, 1C, 1CO) is identical to that in the protein making this system a suitable benchmark. Computational studies find an unusual intermediate spin electronic configuration at the Fe sites promoted by the presence the carbyne ligand. This electronic feature is partly responsible for the high degree of CO activation in the reduced cluster.

Reaction Discovery Using Spectroscopic Insights from an Enzymatic C-H Amination Intermediate.

Engineered hemoproteins can selectively incorporate nitrogen from nitrene precursors like hydroxylamine, O-substituted hydroxylamines, and organic azides into organic molecules. Although iron-nitrenoids are often invoked as the reactive intermediates in these reactions, their innate reactivity and transient nature have made their characterization challenging. Here we characterize an iron-nitrosyl intermediate generated from NH2OH within a protoglobin active site that can undergo nitrogen-group transfer catalysis, using UV-vis, electron paramagnetic resonance (EPR) spectroscopy, and high-resolution electrospray ionization mass spectrometry (HR-ESI-MS) techniques. The mechanistic insights gained led to the discovery of aminating reagents─nitrite (NO2-), nitric oxide (NO), and nitroxyl (HNO)─that are new to both nature and synthetic chemistry. Based on the findings, we propose a catalytic cycle for C-H amination inspired by the nitrite reductase pathway. This study highlights the potential of engineered hemoproteins to access natural nitrogen sources for sustainable chemical synthesis and offers a new perspective on the use of biological nitrogen cycle intermediates in biocatalysis.

Coordination Number in High-Spin-Low-Spin Equilibrium in Cluster Models of the S2 State of the Oxygen Evolving Complex.

The S2 state of the Oxygen Evolving Complex (OEC) of Photosystem II (PSII) shows high-spin (HS) and low-spin (LS) EPR signals attributed to distinct structures based on computation. Five-coordinate MnIII centers are proposed in these species but are absent in available spectroscopic model complexes. Herein, we report the synthesis, crystal structure, electrochemistry, SQUID magnetometry, and EPR spectroscopy of a MnIIIMnIV3O4 cuboidal complex featuring five-coordinate MnIII. This cluster displays a spin ground state of S = 5/2, while conversion to a six-coordinate Mn upon treatment with water results in a spin state change to S = 1/2. These results demonstrate that coordination number, without dramatic changes within the Mn4O4 core, has a substantial effect on spectroscopy.

MnIV4O4 Model of the S3 Intermediate of the Oxygen-Evolving Complex: Effect of the Dianionic Disiloxide Ligand.

Synthetic complexes provide useful models to study the interplay between the structure and spectroscopy of the different Sn-state intermediates of the oxygen-evolving complex (OEC) of photosystem II (PSII). Complexes containing the MnIV4 core corresponding to the S3 state, the last observable intermediate prior to dioxygen formation, remain very rare. Toward the development of synthetic strategies to stabilize highly oxidized tetranuclear complexes, ligands with increased anion charge were pursued. Herein, we report the synthesis, electrochemistry, SQUID magnetometry, and electron paramagnetic resonance spectroscopy of a stable MnIV4O4 cuboidal complex supported by a disiloxide ligand. The substitution of an anionic acetate or amidate ligand with a dianionic disiloxide ligand shifts the reduction potential of the MnIIIMnIV3/MnIV4 redox couple by up to ∼760 mV, improving stability. The S = 3 spin ground state of the siloxide-ligated MnIV4O4 complex matches the acetate and amidate variants, in corroboration with the MnIV4 assignment of the S3 state of the OEC.

Photogenerated Ni(I)-Bipyridine Halide Complexes: Structure-Function Relationships for Competitive C(sp2)-Cl Oxidative Addition and Dimerization Reactivity Pathways.

We report the facile photochemical generation of a library of Ni(I)-bpy halide complexes (Ni(I)(Rbpy)X (R = t-Bu, H, MeOOC; X = Cl, Br, I) and benchmark their relative reactivity toward competitive oxidative addition and off-cycle dimerization pathways. Structure-function relationships between the ligand set and reactivity are developed, with particular emphasis on rationalizing previously uncharacterized ligand-controlled reactivity toward high energy and challenging C(sp2)-Cl bonds. Through a dual Hammett and computational analysis, the mechanism of the formal oxidative addition is found to proceed through an SNAr-type pathway, consisting of a nucleophilic two-electron transfer between the Ni(I) 3d(z2) orbital and the Caryl-Cl σ* orbital, which contrasts the mechanism previously observed for activation of weaker C(sp2)-Br/I bonds. The bpy substituent provides a strong influence on reactivity, ultimately determining whether oxidative addition or dimerization even occurs. Here, we elucidate the origin of this substituent influence as arising from perturbations to the effective nuclear charge (Zeff) of the Ni(I) center. Electron donation to the metal decreases Zeff, which leads to a significant destabilization of the entire 3d orbital manifold. Decreasing the 3d(z2) electron binding energies leads to a powerful two-electron donor to activate strong C(sp2)-Cl bonds. These changes also prove to have an analogous effect on dimerization, with decreases in Zeff leading to more rapid dimerization. Ligand-induced modulation of Zeff and the 3d(z2) orbital energy is thus a tunable target by which the reactivity of Ni(I) complexes can be altered, providing a direct route to stimulate reactivity with even stronger C-X bonds and potentially unveiling new ways to accomplish Ni-mediated photocatalytic cycles.

Boronated Cyanometallates.

Thirteen boronated cyanometallates [M(CN-BR3)6]3/4/5- [M = Cr, Mn, Fe, Ru, Os; BR3 = BPh3, B(2,4,6,-F3C6H2)3, B(C6F5)3] and one metalloboratonitrile [Cr(NC-BPh3)6]3- have been characterized by X-ray crystallography and spectroscopy [UV-vis-near-IR, NMR, IR, spectroelectrochemistry, and magnetic circular dichroism (MCD)]; CASSCF+NEVPT2 methods were employed in calculations of electronic structures. For (t2g)5 electronic configurations, the lowest-energy ligand-to-metal charge-transfer (LMCT) absorptions and MCD C-terms in the spectra of boronated species have been assigned to transitions from cyanide π + B-C borane σ orbitals. CASSCF+NEVPT2 calculations including t1u and t2u orbitals reproduced t1u/t2u → t2g excitation energies. Many [M(CN-BR3)6]3/4- complexes exhibited highly electrochemically reversible redox couples. Notably, the reduction formal potentials of all five [M(CN-B(C6F5)3)6]3- anions scale with the LMCT energies, and Mn(I) and Cr(II) compounds, [K(18-crown-6)]5[Mn(CN-B(C6F5)3)6] and [K(18-crown-6)]4[Cr(CN-B(C6F5)3)6], are surprisingly stable. Continuous-wave and pulsed electron paramagnetic resonance (EPR; hyperfine sublevel correlation) spectra were collected for all Cr(III) complexes; as expected, 14N hyperfine splittings are greater for (Ph4As)3[Cr(NC-BPh3)6] than for (Ph4As)3[Cr(CN-BPh3)6].

High-Spin and Reactive Fe13 Cluster with Exposed Metal Sites.

Atomically defined large metal clusters have applications in new reaction development and preparation of materials with tailored properties. Expanding the synthetic toolbox for reactive high nuclearity metal complexes, we report a new class of Fe clusters, Tp*4 W4 Fe13 S12 , displaying a Fe13 core with M-M bonds that has precedent only in main group and late metal chemistry. M13 clusters with closed shell electron configurations can show significant stability and have been classified as superatoms. In contrast, Tp*4 W4 Fe13 S12 displays a large spin ground state of S=13. This compound performs small molecule activations involving the transfer of up to 12 electrons resulting in significant cluster rearrangements.

Photoinduced, Copper-Catalyzed Enantioconvergent Alkylations of Anilines by Racemic Tertiary Electrophiles: Synthesis and Mechanism.

Transition-metal catalysis of substitution reactions of alkyl electrophiles by nitrogen nucleophiles is beginning to emerge as a powerful strategy for synthesizing higher-order amines, as well as controlling their stereochemistry. Herein, we report that a readily accessible chiral copper catalyst (commercially available components) can achieve the photoinduced, enantioconvergent coupling of a variety of racemic tertiary alkyl electrophiles with aniline nucleophiles to generate a new C-N bond with good ee at the fully substituted stereocenter of the product; whereas this photoinduced, copper-catalyzed coupling proceeds at -78 °C, in the absence of light and catalyst, virtually no C-N bond formation is observed even upon heating to 80 °C. The mechanism of this new catalytic enantioconvergent substitution process has been interrogated with the aid of a wide array of tools, including the independent synthesis of proposed intermediates and reactivity studies, spectroscopic investigations featuring photophysical and EPR data, and DFT calculations. These studies led to the identification of three copper-based intermediates in the proposed catalytic cycle, including a chiral three-coordinate formally copper(II)-anilido (DFT analysis points to its formulation as a copper(I)-anilidyl radical) complex that serves as a persistent radical that couples with a tertiary organic radical to generate the desired C-N bond with good enantioselectivity.

17O Electron Nuclear Double Resonance Analysis of Compound I: Inverse Correlation between Oxygen Spin Population and Electron Donation.

Although the activation of inert C-H bonds by metal-oxo complexes has been widely studied, important questions remain, particularly regarding the role of oxygen spin population (i.e., unpaired electrons on the oxo ligand) in facilitating C-H bond cleavage. In order to shed light on this issue, we have utilized 17O electron nuclear double resonance spectroscopy to measure the oxygen spin populations of three compound I intermediates in heme enzymes with different reactivities toward C-H bonds: chloroperoxidase, cytochrome P450, and a selenolate (selenocysteinyl)-ligated cytochrome P450. The experimental data suggest an inverse correlation between oxygen spin population and electron donation from the axial ligand. We have explored the implications of this result using a Hückel-type molecular orbital model and constrained density functional theory calculations. These investigations have allowed us to examine the relationship between oxygen spin population, oxygen charge, electron donation from the axial ligand, and reactivity.

Investigation of the C-N Bond-Forming Step in a Photoinduced, Copper-Catalyzed Enantioconvergent N-Alkylation: Characterization and Application of a Stabilized Organic Radical as a Mechanistic Probe.

Whereas photoinduced, copper-catalyzed couplings of nitrogen nucleophiles with alkyl electrophiles have recently been shown to provide an attractive approach to achieving a variety of enantioselective C-N bond constructions, mechanistic studies of these transformations have lagged the advances in reaction development. Herein we provide mechanistic insight into a previously reported photoinduced, copper-catalyzed enantioconvergent C-N coupling of a carbazole nucleophile with a racemic tertiary α-haloamide electrophile. Building on the isolation of a copper(II) model complex whose EPR parameters serve as a guide, we independently synthesize two key intermediates in the proposed catalytic cycle, a copper(II) metalloradical (L*CuII(carb')2) (L* = a monodentate chiral phosphine ligand; carb' = a carbazolide ligand), as well as a tertiary α-amide organic radical (R·); the generation and characterization of R· was guided by DFT calculations, which suggested that it would be stable to homocoupling. Continuous-wave (CW) and pulse EPR studies, along with corresponding DFT calculations, are among the techniques used to characterize these reactive radicals. We establish that these two radicals do indeed combine to furnish the C-N coupling product in good yield and with significant enantiomeric excess (77% yield, 55% ee), thereby supporting the chemical competence of these proposed intermediates. DFT calculations are consistent with R· initially binding to copper(II) via a dative interaction from the closed-shell carbonyl oxygen atom of the radical, which positions the α-carbon for direct reaction with the copper(II)-bound carbazole N atom, to generate the C-N bond with enantioselectivity, without the formation of an alkylcopper(III) intermediate.

Copper(II) Binding to the Intrinsically Disordered C-Terminal Peptide of SARS-CoV-2 Virulence Factor Nsp1.

The first encoded SARS-CoV-2 protein (Nsp1) binds to the human 40S ribosome and blocks synthesis of host proteins, thereby inhibiting critical elements of the innate immune response. The final 33 residues of the natively unstructured Nsp1 C-terminus adopt a helix-turn-helix geometry upon binding to the ribosome. We have characterized the fluctuating conformations of this peptide using circular dichroism spectroscopy along with measurements of tryptophan fluorescence and energy transfer. Tryptophan fluorescence decay kinetics reveal that copper(II) binds to the peptide at micromolar concentrations, and electron paramagnetic resonance spectroscopy indicates that the metal ion coordinates to the lone histidine residue.

Characterization of a Proposed Terminal Iron(III) Nitride Intermediate of Nitrogen Fixation Stabilized by a Trisphosphine-Borane Ligand.

Terminal iron nitrides (Fe≡N) have been proposed as intermediates of Fe-mediated nitrogen fixation, and well-defined synthetic iron nitrides have been characterized in high oxidation states, including FeIV , FeV , and FeVI . This study reports the generation and low temperature characterization of a terminally bound iron(III) nitride, P3 B Fe(N) (P3 B =tris(o-diisopropylphosphinophenyl)borane), which is a proposed intermediate of iron-mediated nitrogen fixation by the P3 B Fe-catalyst system. CW- and pulse EPR spectroscopy (HYSCORE and ENDOR), supported by DFT calculations, help to define a 2 A ground state electronic structure of this C3 -symmetric nitride species, placing the unpaired spin in a sigma orbital along the B-Fe-N vector; this electronic structure is distinct for an iron nitride. The unusual d5 -configuration is stabilized by significant delocalization (≈50 %) of the unpaired electron onto the axial boron and nitrogen ligands, with a majority of the spin residing on boron.

Terminal, Open-Shell Mo Carbide and Carbyne Complexes: Spin Delocalization and Ligand Noninnocence.

Open-shell compounds bearing metal-carbon triple bonds, such as carbides and carbynes, are of significant interest as plausible intermediates in the reductive catenation of C1 oxygenates. Despite the abundance of closed-shell carbynes reported, open-shell variants are very limited, and an open-shell carbide has yet to be reported. Herein, we report the synthesis of the first terminal, open-shell carbide complexes, [K][1] and [1][BArF4] (1 = P2Mo(≡C:)(CO), P2 = a terphenyl diphosphine ligand), which differ by two redox states, as well as a series of related open-shell carbyne complexes. The complexes are characterized by single-crystal X-ray diffraction and NMR, EPR, and IR spectroscopies, while the electronic structures are probed by EPR studies and DFT calculations to assess spin delocalization. In the d1 complexes, the spin is primarily localized on the metal (∼55-77% Mo dxy) with delocalization on the triply bonded carbon of ∼0.05-0.09 e-. In the reduced carbide [K][1], a direct metal-arene interaction enables ancillary ligand reduction, resulting in reduced radical character on the terminal carbide (⩽0.02 e-). Reactivity studies with [K][1] reveal the formation of mixed-valent C-C coupled products at -40 °C, illustrating how productive reactivity manifolds can be engendered through the manipulation of redox states. Combined, the results inform on the electronic structure and reactivity of a new and underrepresented class of compounds with potential significance to a wide array of reactions involving open-shell species.

Structural and mechanistic analysis of the arsenate respiratory reductase provides insight into environmental arsenic transformations.

Arsenate respiration by bacteria was discovered over two decades ago and is catalyzed by diverse organisms using the well-conserved Arr enzyme complex. Until now, the mechanisms underpinning this metabolism have been relatively opaque. Here, we report the structure of an Arr complex (solved by X-ray crystallography to 1.6-Å resolution), which was enabled by an improved Arr expression method in the genetically tractable arsenate respirer Shewanella sp. ANA-3. We also obtained structures bound with the substrate arsenate (1.8 Å), the product arsenite (1.8 Å), and the natural inhibitor phosphate (1.7 Å). The structures reveal a conserved active-site motif that distinguishes Arr [(R/K)GRY] from the closely related arsenite respiratory oxidase (Arx) complex (XGRGWG). Arr activity assays using methyl viologen as the electron donor and arsenate as the electron acceptor display two-site ping-pong kinetics. A Mo(V) species was detected with EPR spectroscopy, which is typical for proteins with a pyranopterin guanine dinucleotide cofactor. Arr is an extraordinarily fast enzyme that approaches the diffusion limit (Km = 44.6 ± 1.6 µM, kcat = 9,810 ± 220 seconds-1), and phosphate is a competitive inhibitor of arsenate reduction (Ki = 325 ± 12 µM). These observations, combined with knowledge of typical sedimentary arsenate and phosphate concentrations and known rates of arsenate desorption from minerals in the presence of phosphate, suggest that (i) arsenate desorption limits microbiologically induced arsenate reductive mobilization and (ii) phosphate enhances arsenic mobility by stimulating arsenate desorption rather than by inhibiting it at the enzymatic level.

Probing Redox Non-Innocence in Iron-Carbene Complexes {Fe=C(H)Ar}10-11 by 1,2 H and 13 C Pulse Electron Paramagnetic Resonance.

We report the synthesis and spectroscopic characterization of a series of iron-carbene complexes in redox states {Fe=C(H)Ar}10-11 . Pulse EPR studies of the 1,2 H and 13 C isotopologues of {Fe=C(H)Ar}11 reveal the high covalency of the Fe-carbene bonding, leading to a more even spin distribution than commonly observed for reduced Fischer carbenes.

Hydrazine Formation via Coupling of a Nickel(III)-NH2 Radical.

M(NHx ) intermediates involved in N-N bond formation are central to ammonia oxidation (AO) catalysis, an enabling technology to ultimately exploit ammonia (NH3 ) as an alternative fuel source. While homocoupling of a terminal amide species (M-NH2 ) to form hydrazine (N2 H4 ) has been proposed, well-defined examples are without precedent. Herein, we discuss the generation and electronic structure of a NiIII -NH2 species that undergoes bimolecular coupling to generate a NiII 2 (N2 H4 ) complex. This hydrazine adduct can be further oxidized to a structurally unusual Ni2 (N2 H2 ) species; this releases N2 in the presence of NH3 , thus establishing a synthetic cycle for Ni-mediated AO. Distribution of the redox load for H2 N-NH2 formation via NH2 coupling between two metal centers presents an attractive strategy for AO catalysis using Earth-abundant, late first-row metals.

CaMn3IV O4 Cubane Models of the Oxygen-Evolving Complex: Spin Ground States S<9/2 and the Effect of Oxo Protonation.

We report the single crystal XRD and MicroED structure, magnetic susceptibility, and EPR data of a series of CaMn3IV O4 and YMn3IV O4 complexes as structural and spectroscopic models of the cuboidal subunit of the oxygen-evolving complex (OEC). The effect of changes in heterometal identity, cluster geometry, and bridging oxo protonation on the spin-state structure was investigated. In contrast to previous computational models, we show that the spin ground state of CaMn3IV O4 complexes and variants with protonated oxo moieties need not be S=9/2. Desymmetrization of the pseudo-C3 -symmetric Ca(Y)Mn3IV O4 core leads to a lower S=5/2 spin ground state. The magnitude of the magnetic exchange coupling is attenuated upon oxo protonation, and an S=3/2 spin ground state is observed in CaMn3IV O3 (OH). Our studies complement the observation that the interconversion between the low-spin and high-spin forms of the S2 state is pH-dependent, suggesting that the (de)protonation of bridging or terminal oxygen atoms in the OEC may be connected to spin-state changes.

Generating Potent C-H PCET Donors: Ligand-Induced Fe-to-Ring Proton Migration from a Cp*FeIII-H Complex Demonstrates a Promising Strategy.

Highly reactive organometallic species that mediate reductive proton-coupled electron transfer (PCET) reactions are an exciting area for development in catalysis, where a key objective focuses on tuning the reactivity of such species. This work pursues ligand-induced activation of a stable organometallic complex toward PCET reactivity. This is studied via the conversion of a prototypical Cp*FeIII-H species, [FeIII(η5-Cp*)(dppe)H]+ (Cp* = C5Me5-, dppe = 1,2-bis(diphenylphosphino)ethane), to a highly reactive, S = 1/2 ring-protonated endo-Cp*H-Fe relative, triggered by the addition of CO. Our assignment of the latter ring-protonated species contrasts with its previous reported formulation, which instead assigned it as a hypervalent 19-electron hydride, [FeIII(η5-Cp*)(dppe)(CO)H]+. Herein, pulse EPR spectroscopy (1,2H HYSCORE, ENDOR) and X-ray crystallography, with corresponding DFT studies, cement its assignment as the ring-protonated isomer, [FeI(endo-η4-Cp*H)(dppe)(CO)]+. A less sterically shielded and hence more reactive exo-isomer can be generated through oxidation of a stable Fe0(exo-η4-Cp*H)(dppe)(CO) precursor. Both endo- and exo-ring-protonated isomers are calculated to have an exceptionally low bond dissociation free energy (BDFEC-H ≈ 29 kcal mol-1 and 25 kcal mol-1, respectively) cf. BDFEFe-H of 56 kcal mol-1 for [FeIII(η5-Cp*)(dppe)H]+. These weak C-H bonds are shown to undergo proton-coupled electron transfer (PCET) to azobenzene to generate diphenylhydrazine and the corresponding closed-shell [FeII(η5-Cp*)(dppe)CO]+ byproduct.

H2 Evolution from a Thiolate-Bound Ni(III) Hydride.

Terminal NiIII hydrides are proposed intermediates in proton reduction catalyzed by both molecular electrocatalysts and metalloenzymes, but well-defined examples of paramagnetic nickel hydride complexes are largely limited to bridging hydrides. Herein, we report the synthesis of an S = 1/2, terminally bound thiolate-NiIII-H complex. This species and its terminal hydride ligand in particular have been thoroughly characterized by vibrational and EPR techniques, including pulse EPR studies. Corresponding DFT calculations suggest appreciable spin leakage onto the thiolate ligand. The hyperfine coupling to the terminal hydride ligand of the thiolate-NiIII-H species is comparable to that of the hydride ligand proposed for the Ni-C hydrogenase intermediate (NiIII-H-FeII). Upon warming, the featured thiolate-NiIII-H species undergoes bimolecular reductive elimination of H2. Associated kinetic studies are discussed and compared with a structurally related FeIII-H species that has also recently been reported to undergo bimolecular H-H coupling.