Ambient conversion of CO2 to hydrocarbons by biogenic and synthetic [Fe4S4] clusters

Tailoring CO2 Adsorption Configuration with Spatial Confinement Switches Electroreduction Product from Formate to Acetate

Multi-proton-coupled electron transfer, multitudinous intermediates, and unavoidable competing hydrogen evolution reaction during CO2 electroreduction make it tricky to control high selectivity for specific products. Here, we present spatial confinement of Fe single atoms (FeN2S2) by adjacent FeS clusters (Fe4S4) to orientate the transition of CO2 adsorption configuration from C,O-side to O-end, which triggers a shift of activated CO2 from first-step protonation to C-C coupling, thus switching the target product from HCOOH in high Faraday efficiency (FE: 90.6%) on FeN2S2 to CH3COOH (FE: 82.3%) on Fe4S4/FeN2S2. The adsorption strength of *OCHO upon the solitary FeN2S2 site is linearly related to the coordination number of Fe-S, with HCOOH predominantly produced over single-atom FeN2S2 (ortho-substituted S atoms). Fe4S4 cluster functions as a switch for a specific reduction product, which can not only optimize the spatial and electronic structure of the neighboring FeN2S2 but also impel complete reduction of CO2 to the hydrocarbon intermediate *CH3, followed by coupling of CO2* and *CH3 via the single-atom cluster synergistic catalysis of Fe4S4/FeN2S2. This spatial confinement strategy provides a new avenue to modulate the reactant adsorption model for desirable reaction pathways, with potential applications in diverse multistep electrochemical processes of controlled selectivity.

Transformation of Distinct Superatoms to Superalkalis by Successive Ligation of Thymine Nucleobases

The ligation strategy has been widely used in the chemical synthesis of atomically precise clusters. A series of thymine (T)-ligated Al12M-Tn (M = Be, Al, C; n = 1-5) complexes have been studied to reveal the effect of DNA nucleobase ligands on the electronic structures of different superatoms in the present work. In addition to its protective role, the successive attachment of thymine ligands significantly lowers the adiabatic ionization energies (AIEs) of the studied Al12M superatoms with filled and unfilled electronic shells. The continuous decrease in the AIEs of Al12M-Tn is derived from the gradually raised highest occupied molecular orbital (HOMO) levels upon the addition of ligands. Interestingly, the lowering degree of AIEs for such nucleobase-protected superatoms is independent of the distinct shell fillings of Al12M superatoms but is significantly related to the types of nucleobases. Moreover, the obtained Al12M-T5 superalkalis not only exhibit excellent performance in activating the stable CO2 and O2 molecules but also have considerable nonlinear optical (NLO) responses. We, therefore, hope that this study could provide a viable strategy for synthesizing novel nucleobase-ligated superatom clusters with excellent reducing capability to enrich the family of multifunctional nanoclusters.

Biomimetic [MFe3S4]3+ Cubanes (M = V/Mo) as Catalysts for a Fischer-Tropsch-like Hydrocarbon Synthesis─A Computational Study

Nitrogenase is the enzyme primarily responsible for reducing atmospheric nitrogen to ammonia. There are three general forms of nitrogenase based on the metal ion present in the cofactor binding site, namely, molybdenum-dependent nitrogenases with the iron-molybdenum cofactor (FeMoco), the vanadium-dependent nitrogenases with FeVco, and the iron-only nitrogenases. It has been shown that the vanadium-dependent nitrogenases tend to have a lesser efficacy in reducing dinitrogen but a higher efficacy in binding and reducing carbon monoxide. In biomimetic chemistry, [MFe3S4] (M = Mo/V) cubanes have been synthesized, studied, and shown to be promising mimics of some of the geometric and electronic properties of the nitrogenase cofactors. In this work, a density functional theory (DFT) study is presented on Fischer-Tropsch catalysis by these cubane complexes by studying CO binding and reduction to hydrocarbons. Our work implies that molybdenum has stronger binding interactions with the iron-sulfur framework of the cubane, which results in easier reduction of substrates like N2H4. However, this inhibits the binding and activation of CO, and hence, the molybdenum-containing complexes are less suitable for Fischer-Tropsch catalysis than vanadium-containing complexes.

Activation of Strong π-Acids at [Fe4S4]+ Clusters Enabled by a Noncanonical Electronic Structure

Although Fe-S clusters are privileged metallocofactors for the reduction of N2, CO, and other π-acidic substrates, their constituent metal ions─high-spin Fe2+ and Fe3+─are typically not amenable to binding and activating strong π-acids. Here, we demonstrate that [Fe4S4]+ clusters can overcome this limitation by adopting a noncanonical electronic structure. Specifically, we report the synthesis and characterization of a series of 3:1 site-differentiated [Fe4S4]+ clusters in which the unique Fe site is bound by one of 10 electronically variable arylisocyanide ligands. Rather than being continuously tuned as a function of the arylisocyanides' electronic properties (e.g., as quantified by linear free energy relationships), the structures of the clusters are divided into two groups: (i) those with moderately π-acidic isocyanides, which adopt a "typical" structure characterized by standard bond metrics and geometric distortions from tetrahedral symmetry, and (ii) those with more strongly π-acidic isocyanides, which adopt a "contracted" structure with an unusually symmetric geometry and a compressed cluster core. Computational studies revealed that although the "typical" structure has a canonical electronic structure, the "contracted" structure has a noncanonical arrangement of spin density, with a full complement of π-backbonding electrons and more substantial Fe-Fe delocalization. These features of the "contracted" structure enable substantial C≡N bond weakening of the strongest π-acceptors in the series. More generally, the experimental characterization of the "contracted" electronic isomer suggests that other noncanonical electronic structures of Fe-S clusters remain to be discovered.

The catalytic performance of (ZrO)n (n = 1-4, 12) clusters for Suzuki-Miyaura cross-coupling: a DFT study

Superatoms are special clusters with similar physicochemical properties to individual atoms in the periodic table, which open up new avenues for exploring inexpensive catalysts. Given that the ZrO superatom possesses the same number of valence electrons as a Pd atom, the mechanisms of the Suzuki-Miyaura reaction catalyzed by (ZrO)n (n = 1-4) clusters have been investigated and compared with the corresponding Pdn (n = 1-4) species to explore superatom-based catalysts for the formation of C-C bonds via a density functional theory (DFT) study. It was interesting to find that the catalytic activities of (ZrO)n (n = 1-4) towards the Suzuki-Miyaura reaction gradually improved as the cluster size increased. Therefore, to obtain more efficient catalysts, the catalytic activity of a well-designed (ZrO)12 nanocage towards this cross-coupling reaction has been further evaluated. Gratifyingly, this nanocage shows excellent catalytic performance for the considered coupling reaction, which is even comparable to that of the commonly used Pd catalyst and outperforms the corresponding Pd12 cluster. We hope this study can not only provide valuable guidance for the development of noble metal-like catalysts for C-C bond formation, but also expand the application of superatoms in the catalysis of organic reactions.

Atomic-level design of biomimetic iron-sulfur clusters for biocatalysis

Designing biomimetic materials with high activity and customized biological functions by mimicking the central structure of biomolecules has become an important avenue for the development of medical materials. As an essential electron carrier, the iron-sulfur (Fe-S) clusters have the advantages of simple structure and high electron transport capacity. To rationally design and accurately construct functional materials, it is crucial to clarify the electronic structure and conformational relationships of Fe-S clusters. However, due to the complex catalytic mechanism and synthetic process in vitro, it is hard to reveal the structure-activity relationship of Fe-S clusters accurately. This review introduces the main structural types of Fe-S clusters and their catalytic mechanisms first. Then, several typical structural design strategies of biomimetic Fe-S clusters are systematically introduced. Furthermore, the development of Fe-S clusters in the biocatalytic field is enumerated, including tumor treatment, antibacterial, virus inhibition and plant photoprotection. Finally, the problems and development directions of Fe-S clusters are summarized. This review aims to guide people to accurately understand and regulate the electronic structure of Fe-S at the atomic level, which is of great significance for designing biomimetic materials with specific functions and expanding their applications in biocatalysis.

Ammonia synthesis via an engineered nitrogenase assembly pathway in Escherichia coli

Heterologous expression of nitrogenase has been actively pursued because of the far-reaching impact of this enzyme on agriculture, energy and environment. Yet, isolation of an active two-component, metallocentre-containing nitrogenase from a non-diazotrophic host has yet to be accomplished. Here, we report the heterologous synthesis of an active Mo-nitrogenase by combining genes from Azotobacter vinelandii and Methanosarcina acetivorans in Escherichia coli. Metal, activity and EPR analyses demonstrate the integrity of the metallocentres in the purified nitrogenase enzyme; whereas growth, nanoSIMS and NMR experiments illustrate diazotrophic growth and 15N enrichment by the E. coli expression strain, as well as accumulation of extracellular ammonia upon deletion of the ammonia transporter that permits incorporation of thus-generated N into the cellular mass of a non-diazotrophic E. coli strain. As such, this study provides a crucial prototype system that could be optimized/modified to enable future transgenic expression and biotechnological adaptations of nitrogenase.

Structural comparison of (hyper-)thermophilic nitrogenase reductases from three marine Methanococcales

The nitrogenase reductase NifH catalyses ATP-dependent electron delivery to the Mo-nitrogenase, a reaction central to biological dinitrogen (N2) fixation. While NifHs have been extensively studied in bacteria, structural information about their archaeal counterparts is limited. Archaeal NifHs are considered more ancient, particularly those from Methanococcales, a group of marine hydrogenotrophic methanogens, which includes diazotrophs growing at temperatures near 92 °C. Here, we structurally and biochemically analyse NifHs from three Methanococcales, offering the X-ray crystal structures from meso-, thermo-, and hyperthermophilic methanogens. While NifH from Methanococcus maripaludis (37 °C) was obtained through heterologous recombinant expression, the proteins from Methanothermococcus thermolithotrophicus (65 °C) and Methanocaldococcus infernus (85 °C) were natively purified from the diazotrophic archaea. The structures from M. thermolithotrophicus crystallised as isolated exhibit high flexibility. In contrast, the complexes of NifH with MgADP obtained from the three methanogens are superposable, more rigid, and present remarkable structural conservation with their homologues. They retain key structural features of P-loop NTPases and share similar electrostatic profiles with the counterpart from the bacterial model organism Azotobacter vinelandii. In comparison to the NifH from the phylogenetically distant Methanosarcina acetivorans, these reductases do not cross-react significantly with Mo-nitrogenase from A. vinelandii. However, they associate with bacterial nitrogenase when ADP·AlF 4 - is added to mimic a transient reactive state. Accordingly, detailed surface analyses suggest that subtle substitutions would affect optimal binding during the catalytic cycle between the NifH from Methanococcales and the bacterial nitrogenase, implying differences in the N2-machinery from these ancient archaea.

Catalytic, Spectroscopic, and Theoretical Studies of Fe4S4-Based Coordination Polymers as Heterogenous Coupled Proton-Electron Transfer Mediators for Electrocatalysis

Iron-sulfur clusters play essential roles in biological systems, and thus synthetic [Fe4S4] clusters have been an area of active research. Recent studies have demonstrated that soluble [Fe4S4] clusters can serve as net H atom transfer mediators, improving the activity and selectivity of a homogeneous Mn CO2 reduction catalyst. Here, we demonstrate that incorporating these [Fe4S4] clusters into a coordination polymer enables heterogeneous H atom transfer from an electrode surface to a Mn complex dissolved in solution. A previously reported solution-processable Fe4S4-based coordination polymer was successfully deposited on the surfaces of different electrodes. The coated electrodes serve as H atom transfer mediators to a soluble Mn CO2 reduction catalyst displaying good product selectivity for formic acid. Furthermore, these electrodes are recyclable with a minimal decrease in activity after multiple catalytic cycles. The heterogenization of the mediator also enables the characterization of solution-phase and electrode surface species separately. Surface enhanced infrared absorption spectroscopy (SEIRAS) reveals spectroscopic signatures for an in situ generated active Mn-H species, providing a more complete mechanistic picture for this system. The active species, reaction mechanism, and the protonation sites on the [Fe4S4] clusters were further confirmed by density functional theory calculations. The observed H atom transfer reactivity of these coordination polymer-coated electrodes motivates additional applications of this composite material in reductive H atom transfer electrocatalysis.

Heterologous expression of a fully active Azotobacter vinelandii nitrogenase Fe protein in Escherichia coli

IMPORTANCE

The heterologous expression of a fully active Azotobacter vinelandii Fe protein (AvNifH) has never been accomplished. Given the functional importance of this protein in nitrogenase catalysis and assembly, the successful expression of AvNifH in Escherichia coli as reported herein supplies a key element for the further development of heterologous expression systems that explore the catalytic versatility of the Fe protein, either on its own or as a key component of nitrogenase, for nitrogenase-based biotechnological applications in the future. Moreover, the "clean" genetic background of the heterologous expression host allows for an unambiguous assessment of the effect of certain nif-encoded protein factors, such as AvNifM described in this work, in the maturation of AvNifH, highlighting the utility of this heterologous expression system in further advancing our understanding of the complex biosynthetic mechanism of nitrogenase.

Insight into the Fe atom-FeS cluster synergistic catalysis mechanism for the oxygen evolution reaction in NiS2-based electrocatalysts

The development of highly active oxygen evolution reaction (OER) catalysts with fast kinetics is crucial for the advancement of clean energy and fuel conversion to achieve a sustainable energy future. Recently, the synergistic effect of single-atom doping and multicomponent clusters has been demonstrated to significantly improve the catalytic activity of materials. However, such synergistic effects involving multi-electron and proton transfer processes are quite complex and many crucial mechanistic details need be well comprehended. We ingeniously propose a catalyst, (Fed-FeSc)@NiS2 (d stands for doping and c stands for clustering), with Fe and FeS acting synergistically on a NiS2 substrate. Specifically, fully dynamic monitoring of multiple active sites at the (Fed-FeSc)@NiS2 interface using metadynamics is innovatively performed. The results show that the rate determining step value at the overpotential of 1.23 V for the synergistic (Fed-FeSc)@NiS2 is 1.55 V, decreased by 6.67% and 35.29% compared to those of the independently acting single-atom doping and multi-clusters. The unique synergistic structure dramatically increases the d-band centre of the Fe site (-1.45 eV), endowing (Fed-FeSc)@NiS2 with more activity than conventional commercial Ir-C catalysts. This study provides insights into the synergistic effects of single-atom doping and multi-component clusters, leading to exploratory inspiration for the design of highly efficient OER catalysts.

Enzymatic Fischer-Tropsch-Type Reactions

The Fischer-Tropsch (FT) process converts a mixture of CO and H2 into liquid hydrocarbons as a major component of the gas-to-liquid technology for the production of synthetic fuels. Contrary to the energy-demanding chemical FT process, the enzymatic FT-type reactions catalyzed by nitrogenase enzymes, their metalloclusters, and synthetic mimics utilize H+ and e- as the reducing equivalents to reduce CO, CO2, and CN- into hydrocarbons under ambient conditions. The C1 chemistry exemplified by these FT-type reactions is underscored by the structural and electronic properties of the nitrogenase-associated metallocenters, and recent studies have pointed to the potential relevance of this reactivity to nitrogenase mechanism, prebiotic chemistry, and biotechnological applications. This review will provide an overview of the features of nitrogenase enzymes and associated metalloclusters, followed by a detailed discussion of the activities of various nitrogenase-derived FT systems and plausible mechanisms of the enzymatic FT reactions, highlighting the versatility of this unique reactivity while providing perspectives onto its mechanistic, evolutionary, and biotechnological implications.

Engineering an Oxygen-Binding Protein for Photocatalytic CO2 Reductions in Water

While native CO2 -reducing enzymes display remarkable catalytic efficiency and product selectivity, few artificial biocatalysts have been engineered to allow understanding how the native enzymes work. To address this issue, we report cobalt porphyrin substituted myoglobin (CoMb) as a homogeneous catalyst for photo-driven CO2 to CO conversion in water. The activity and product selectivity were optimized by varying pH and concentrations of the enzyme and the photosensitizer. Up to 2000 TON(CO) was attained at low enzyme concentrations with low product selectivity (15 %), while a product selectivity of 74 % was reached by increasing the enzyme loading but with a compromised TON(CO). The efficiency of CO generation and overall TON(CO) were further improved by introducing positively charged residues (Lys or Arg) near the active stie of CoMb, which demonstrates the value of tuning the enzyme secondary coordination sphere to enhance the CO2 -reducing performance of a protein-based photocatalytic system.

Nitrogenase Fe Protein: A Multi-Tasking Player in Substrate Reduction and Metallocluster Assembly

The Fe protein of nitrogenase plays multiple roles in substrate reduction and metallocluster assembly. Best known for its function to transfer electrons to its catalytic partner during nitrogenase catalysis, the Fe protein is also a key player in the biosynthesis of the complex metalloclusters of nitrogenase. In addition, it can function as a reductase on its own and affect the ambient reduction of CO₂ or CO to hydrocarbons. This review will provide an overview of the properties and functions of the Fe protein, highlighting the relevance of this unique FeS enzyme to areas related to the catalysis, biosynthesis, and applications of the fascinating nitrogenase system.

Evidence for Low-Valent Electronic Configurations in Iron-Sulfur Clusters

Although biological iron-sulfur (Fe-S) clusters perform some of the most difficult redox reactions in nature, they are thought to be composed exclusively of Fe²⁺ and Fe³⁺ ions, as well as mixed-valent pairs with average oxidation states of Fe^2.5+. We herein show that Fe-S clusters formally composed of these valences can access a wider range of electronic configurations─in particular, those featuring low-valent Fe¹⁺ centers. We demonstrate that CO binding to a synthetic [Fe₄S₄]⁰ cluster supported by N-heterocyclic carbene ligands induces the generation of Fe¹⁺ centers via intracluster electron transfer, wherein a neighboring pair of Fe²⁺ sites reduces the CO-bound site to a low-valent Fe¹⁺ state. Similarly, CO binding to an [Fe₄S₄]⁺ cluster induces electron delocalization with a neighboring Fe site to form a mixed-valent Fe^1.5+Fe^2.5+ pair in which the CO-bound site adopts partial low-valent character. These low-valent configurations engender remarkable C-O bond activation without having to traverse highly negative and physiologically inaccessible [Fe₄S₄]⁰/[Fe₄S₄]^- redox couples.

Characterization of a Nitrogenase Iron Protein Substituted with a Synthetic [Fe4 Se4 ] Cluster

The Fe protein of nitrogenase plays multiple roles in substrate reduction and cluster maturation via its redox-active [Fe4 S4 ] cluster. Here we report the synthesis and characterization of a water-soluble [Fe4 Se4 ] cluster that is used to substitute the [Fe4 S4 ] cluster of the Azotobacter vinelandii Fe protein (AvNifH). Biochemical, EPR and XAS/EXAFS analyses demonstrate the ability of the [Fe4 Se4 ] cluster to adopt the super-reduced, all-ferrous state upon its incorporation into AvNifH. Moreover, these studies reveal that the [Fe4 Se4 ] cluster in AvNifH already assumes a partial all-ferrous state ([Fe4 Se4 ]0 ) in the presence of dithionite, where its [Fe4 S4 ] counterpart in AvNifH exists solely in the reduced state ([Fe4 S4 ]1+ ). Such a discrepancy in the redox properties of the AvNifH-associated [Fe4 Se4 ] and [Fe4 S4 ] clusters can be used to distinguish the differential redox requirements for the substrate reduction and cluster maturation of nitrogenase, pointing to the utility of chalcogen-substituted FeS clusters in future mechanistic studies of nitrogenase catalysis and assembly.

The Conversion of Carbon Monoxide and Carbon Dioxide by Nitrogenases

Nitrogenases are the only known family of enzymes that catalyze the reduction of molecular nitrogen (N2 ) to ammonia (NH3 ). The N2 reduction drives biological nitrogen fixation and the global nitrogen cycle. Besides the conversion of N2 , nitrogenases catalyze a whole range of other reductions, including the reduction of the small gaseous substrates carbon monoxide (CO) and carbon dioxide (CO2 ) to hydrocarbons. However, it remains an open question whether these 'side reactivities' play a role under environmental conditions. Nonetheless, these reactivities and particularly the formation of hydrocarbons have spurred the interest in nitrogenases for biotechnological applications. There are three different isozymes of nitrogenase: the molybdenum and the alternative vanadium and iron-only nitrogenase. The isozymes differ in their metal content, structure, and substrate-dependent activity, despite their homology. This minireview focuses on the conversion of CO and CO2 to methane and higher hydrocarbons and aims to specify the differences in activity between the three nitrogenase isozymes.

Synthesis and disassembly of an organometallic polymer comprising redox-active Co4S4 clusters and Janus biscarbene linkers

Here, we show for the first time that main-chain organometallic polymers (MCOPs) can be prepared from Janus N-heterocyclic carbene (NHC) linkers and polynuclear cluster nodes. The crosslinked framework Co₄S₄-MCOP is synthesized via ligand displacement reactions and undergoes reversible electron transfer in the solid state. Discrete molecular cluster species can be excised from the framework by digesting the solid in solutions of excess monocarbene. Finally, we demonstrate a synthetic route to monodisperse framework particles via coordination modulation.

Inverse Design of Nanoclusters for Light-Controlled CO2-HCOOH Interconversion

With global push of hydrogen economy, efficient scenarios for hydrogen storage, transportation, and generation are indispensable. Here we devise a strategy for controllable hydrogen fuel storage and retrieval via light-switched CO₂-to-HCOOH interconversion. To realize it, palladium sulfide nanocluster catalysts with multiple specific functionalities are directly searched by our home-developed inverse design approach based on genetic algorithm (IDOGA) and ab initio calculations. Over 500 low-energy Pd_xS_y (x + y ≤ 30) clusters are sieved through a multiobjective function combining stability, activity, optical absorption, and reduction capability of photocarriers. The structure-property relationships and key factors governing the trade-off among these stringent criteria are disclosed. Finally, 14 candidate Pd_xS_y clusters with proper sulfidation degree and high stability in an aqueous environment have been screened. Our IDOGA program provides a general approach for inverse search of nanoclusters with any designated elemental compositions and functionalities for any device applications.

Testing Abiotic Reduction of NAD+ Directly Mediated by Iron/Sulfur Minerals

Life emerged in a geochemical context, possibly in the midst of mineral substrates. However, it is not known to what extent minerals and dissolved inorganic ions could have facilitated the evolution of biochemical reactions. Herein, we have experimentally shown that iron sulfide minerals can act as electron transfer agents for the reduction of the ubiquitous biological protein cofactor nicotinamide adenine dinucleotide (NAD⁺) under anaerobic prebiotic conditions, observing the NAD⁺/NADH redox transition by using ultraviolet-visible spectroscopy and ¹H nuclear magnetic resonance. This reaction was mediated with iron sulfide minerals, which were likely abundant on early Earth in seafloor and hydrothermal settings; and the NAD⁺/NADH redox reaction occurred in the absence of UV light, peptide ligand(s), or dissolved mediators. To better understand this reaction, thermodynamic modeling was also performed. The ability of an iron sulfide mineral to transfer electrons to a biochemical cofactor that is found in every living cell demonstrates how geologic materials could have played a direct role in the evolution of certain cofactor-driven metabolic pathways.

Abiotic-biotic hybrid for CO2 biomethanation: From electrochemical to photochemical process

Converting CO₂ into sustainable fuels (e.g., CH₄) has great significance to solve carbon emission and energy crisis. Generally, CO₂ methanation needs abundant of energy input to overcome the eight-electron-transfer barrier. Abiotic-biotic hybrid system represents one of the cutting-edge technologies that use renewable electric/solar energy to realize eight-electron-transfer CO₂ biomethanation. However, the incompatible abiotic-biotic hybrid can result in low efficiency of electron transfer and CO₂ biomethanation. Herein, we present the comprehensive review to highlight how to design abiotic-biotic hybrid for electric/solar-driven CO₂ biomethanation. We primarily introduce the CO₂ biomethanation mechanism, and further summarize state-of-the-art electrochemical and photochemical CO₂ biomethanation in hybrid systems. We also propose excellent synthetic biology strategies, which are useful to design tunable methanogenic microorganisms or enzymes when cooperating with electrode/semiconductor in hybrid systems. This review provides theoretical guidance of abiotic-biotic hybrid and also shows the bright future of sustainable fuel production in the form of CO₂ biomethanation.

Spontaneous assembly of redox-active iron-sulfur clusters at low concentrations of cysteine

Iron-sulfur (FeS) proteins are ancient and fundamental to life, being involved in electron transfer and CO₂ fixation. FeS clusters have structures similar to the unit-cell of FeS minerals such as greigite, found in hydrothermal systems linked with the origin of life. However, the prebiotic pathway from mineral surfaces to biological clusters is unknown. Here we show that FeS clusters form spontaneously through interactions of inorganic Fe²⁺/Fe³⁺ and S^2- with micromolar concentrations of the amino acid cysteine in water at alkaline pH. Bicarbonate ions stabilize the clusters and even promote cluster formation alone at concentrations >10 mM, probably through salting-out effects. We demonstrate robust, concentration-dependent formation of [4Fe4S], [2Fe2S] and mononuclear iron clusters using UV-Vis spectroscopy, ⁵⁷Fe-Mössbauer spectroscopy and ¹H-NMR. Cyclic voltammetry shows that the clusters are redox-active. Our findings reveal that the structures responsible for biological electron transfer and CO₂ reduction could have formed spontaneously from monomers at the origin of life.

Residues surrounding the active centre of carbon monoxide dehydrogenase are key in converting CO2 to CO

The enzyme carbon monoxide dehydrogenase is capable of efficiently convertingCO 2 to CO and, therefore, can enable an affordableCO 2 recycling strategy. The reduction ofCO 2 occurs at a peculiar nickel-iron-sulfur cluster, following a mechanism that remains little understood. In this study, we have used ab initio molecular dynamics simulations to explore the free energy landscape of the reaction. We predict the existence of a COOH ligand that strongly interacts with the surrounding protein residues and favours a mechanism where aH 2 O molecule is eliminated before CO. We have taken advantages of the insights offered by our simulations to revisit the catalytic mechanism and the role of the residues surrounding the active centre in particular, thus assisting in the design of inorganic catalysts that mimic the enzyme.

Probing the All-Ferrous States of Methanogen Nitrogenase Iron Proteins

The Fe protein of nitrogenase reduces two C1 substrates, CO₂ and CO, under ambient conditions when its [Fe₄S₄] cluster adopts the all-ferrous [Fe₄S₄]⁰ state. Here, we show disparate reactivities of the nifH- and vnf-encoded Fe proteins from Methanosarcina acetivorans (designated MaNifH and MaVnfH) toward C1 substrates in the all-ferrous state, with the former capable of reducing both CO₂ and CO to hydrocarbons, and the latter only capable of reducing CO to hydrocarbons at substantially reduced yields. EPR experiments conducted at varying solution potentials reveal that MaVnfH adopts the all-ferrous state at a more positive reduction potential than MaNifH, which could account for the weaker reactivity of the MaVnfH toward C1 substrates than MaNifH. More importantly, MaVnfH already displays the g = 16.4 parallel-mode EPR signal that is characteristic of the all-ferrous [Fe₄S₄]⁰ cluster at a reduction potential of -0.44 V, and the signal reaches 50% maximum intensity at a reduction potential of -0.59 V, suggesting the possibility of this Fe protein to access the all-ferrous [Fe₄S₄]⁰ state under physiological conditions. These results bear significant relevance to the long-lasting debate of whether the Fe protein can utilize the [Fe₄S₄]^0/2+ redox couple to support a two-electron transfer during substrate turnover which, therefore, is crucial for expanding our knowledge of the reaction mechanism of nitrogenase and the cellular energetics of nitrogenase-based processes.

Electron Transfer in Nitrogenase

Nitrogenase is the only enzyme capable of reducing N2 to NH3. This challenging reaction requires the coordinated transfer of multiple electrons from the reductase, Fe-protein, to the catalytic component, MoFe-protein, in an ATP-dependent fashion. In the last two decades, there have been significant advances in our understanding of how nitrogenase orchestrates electron transfer (ET) from the Fe-protein to the catalytic site of MoFe-protein and how energy from ATP hydrolysis transduces the ET processes. In this review, we summarize these advances, with focus on the structural and thermodynamic redox properties of nitrogenase component proteins and their complexes, as well as on new insights regarding the mechanism of ET reactions during catalysis and how they are coupled to ATP hydrolysis. We also discuss recently developed chemical, photochemical, and electrochemical methods for uncoupling substrate reduction from ATP hydrolysis, which may provide new avenues for studying the catalytic mechanism of nitrogenase.

Reactivity, Mechanism, and Assembly of the Alternative Nitrogenases

Biological nitrogen fixation is catalyzed by the enzyme nitrogenase, which facilitates the cleavage of the relatively inert triple bond of N2. Nitrogenase is most commonly associated with the molybdenum-iron cofactor called FeMoco or the M-cluster, and it has been the subject of extensive structural and spectroscopic characterization over the past 60 years. In the late 1980s and early 1990s, two "alternative nitrogenase" systems were discovered, isolated, and found to incorporate V or Fe in place of Mo. These systems are regulated by separate gene clusters; however, there is a high degree of structural and functional similarity between each nitrogenase. Limited studies with the V- and Fe-nitrogenases initially demonstrated that these enzymes were analogously active as the Mo-nitrogenase, but more recent investigations have found capabilities that are unique to the alternative systems. In this review, we will discuss the reactivity, biosynthetic, and mechanistic proposals for the alternative nitrogenases as well as their electronic and structural properties in comparison to the well-characterized Mo-dependent system. Studies over the past 10 years have been particularly fruitful, though key aspects about V- and Fe-nitrogenases remain unexplored.

Structural and Mechanistic Insights into CO2 Activation by Nitrogenase Iron Protein

The Fe protein of nitrogenase catalyzes the ambient reduction of CO₂ when its cluster is present in the all-ferrous, [Fe₄ S₄ ]⁰ oxidation state. Here, we report a combined structural and theoretical study that probes the unique reactivity of the all-ferrous Fe protein toward CO₂ . Structural comparisons of the Azotobacter vinelandii Fe protein in the [Fe₄ S₄ ]⁰ and [Fe₄ S₄ ]⁺ states point to a possible asymmetric functionality of a highly conserved Arg pair in CO₂ binding and reduction. Density functional theory (DFT) calculations provide further support for the asymmetric coordination of O by the "proximal" Arg and binding of C to a unique Fe atom of the all-ferrous cluster, followed by donation of protons by the proximate guanidinium group of Arg that eventually results in the scission of a C-O bond. These results provide important mechanistic and structural insights into CO₂ activation by a surface-exposed, scaffold-held [Fe₄ S₄ ] cluster.

A Synthetic Model of Enzymatic [Fe4S4]-Alkyl Intermediates

Although alkyl complexes of [Fe₄S₄] clusters have been invoked as intermediates in a number of enzymatic reactions, obtaining a detailed understanding of their reactivity patterns and electronic structures has been difficult owing to their transient nature. To address this challenge, we herein report the synthesis and characterization of a 3:1 site-differentiated [Fe₄S₄]²⁺–alkyl cluster. Whereas [Fe₄S₄]²⁺ clusters typically exhibit pairwise delocalized electronic structures in which each Fe has a formal valence of 2.5+, Mössbauer spectroscopic and computational studies suggest that the highly electron-releasing alkyl group partially localizes the charge distribution within the cubane, an effect that has not been previously observed in tetrahedrally coordinated [Fe₄S₄] clusters.

Rational Design of Artificial Metalloproteins and Metalloenzymes with Metal Clusters

Metalloproteins and metalloenzymes play important roles in biological systems by using the limited metal ions, complexes, and clusters that are associated with the protein matrix. The design of artificial metalloproteins and metalloenzymes not only reveals the structure and function relationship of natural proteins, but also enables the synthesis of artificial proteins and enzymes with improved properties and functions. Acknowledging the progress in rational design from single to multiple active sites, this review focuses on recent achievements in the design of artificial metalloproteins and metalloenzymes with metal clusters, including zinc clusters, cadmium clusters, iron-sulfur clusters, and copper-sulfur clusters, as well as noble metal clusters and others. These metal clusters were designed in both native and de novo protein scaffolds for structural roles, electron transfer, or catalysis. Some synthetic metal clusters as functional models of native enzymes are also discussed. These achievements provide valuable insights for deep understanding of the natural proteins and enzymes, and practical clues for the further design of artificial enzymes with functions comparable or even beyond those of natural counterparts.

Structural Analysis of a Nitrogenase Iron Protein from Methanosarcina acetivorans: Implications for CO2 Capture by a Surface-Exposed [Fe4S4] Cluster

This work reports the crystal structure of a previously uncharacterized Fe protein from a methanogenic organism, which provides important insights into the structural properties of the less-characterized, yet highly interesting archaeal nitrogenase enzymes. Moreover, the structure-derived implications for CO₂ capture by a surface-exposed [Fe₄S₄] cluster point to the possibility of developing novel strategies for CO₂ sequestration while providing the initial insights into the unique mechanism of FeS-based CO₂ activation.

Nitrogenase iron (Fe) proteins reduce CO₂ to CO and/or hydrocarbons under ambient conditions. Here, we report a 2.4-Å crystal structure of the Fe protein from Methanosarcina acetivorans (MaNifH), which is generated in the presence of a reductant, dithionite, and an alternative CO₂ source, bicarbonate. Structural analysis of this methanogen Fe protein species suggests that CO₂ is possibly captured in an unactivated, linear conformation near the [Fe₄S₄] cluster of MaNifH by a conserved arginine (Arg) pair in a concerted and, possibly, asymmetric manner. Density functional theory calculations and mutational analyses provide further support for the capture of CO₂ on MaNifH while suggesting a possible role of Arg in the initial coordination of CO₂ via hydrogen bonding and electrostatic interactions. These results provide a useful framework for further mechanistic investigations of CO₂ activation by a surface-exposed [Fe₄S₄] cluster, which may facilitate future development of FeS catalysts for ambient conversion of CO₂ into valuable chemical commodities.

Reactivity of [Fe4S4] Clusters toward C1 Substrates: Mechanism, Implications, and Potential Applications

FeS proteins are metalloproteins prevalent in the metabolic pathways of most organisms, playing key roles in a wide range of essential cellular processes. A member of this protein family, the Fe protein of nitrogenase, is a homodimer that contains a redox-active [Fe₄S₄] cluster at the subunit interface and an ATP-binding site within each subunit. During catalysis, the Fe protein serves as the obligate electron donor for its catalytic partner, transferring electrons concomitant with ATP hydrolysis to the cofactor site of the catalytic component to enable substrate reduction. The effectiveness of Fe protein in electron transfer is reflected by the unique reactivity of nitrogenase toward small-molecule substrates. Most notably, nitrogenase is capable of catalyzing the ambient reduction of N₂ and CO into NH₄⁺ and hydrocarbons, respectively, in reactions that parallel the important industrial Haber-Bosch and Fischer-Tropsch processes. Other than participating in nitrogenase catalysis, the Fe protein also functions as an essential factor in nitrogenase assembly, which again highlights its capacity as an effective, ATP-dependent electron donor. Recently, the Fe protein of a soil bacterium, Azotobacter vinelandii, was shown to act as a reductase on its own and catalyze the ambient conversion of CO₂ to CO at its [Fe₄S₄] cluster either under in vitro conditions when a strong reductant is supplied or under in vivo conditions through the action of an unknown electron donor(s) in the cell. Subsequently, the Fe protein of a mesophilic methanogenic organism, Methanosarcina acetivorans, was shown to catalyze the in vitro reduction of CO₂ and CO into hydrocarbons under ambient conditions, illustrating an impact of protein scaffold on the redox properties of the [Fe₄S₄] cluster and the reactivity of the cluster toward C1 substrates. This reactivity was further traced to the [Fe₄S₄] cluster itself, as a synthetic [Fe₄S₄] compound was shown to catalyze the reduction of CO₂ and CO to hydrocarbons in solutions in the presence of a strong reductant. Together, these observations pointed to an inherent ability of the [Fe₄S₄] clusters and, possibly, the FeS clusters in general to catalyze C1-substrate reduction. Theoretical calculations have led to the proposal of a plausible reaction pathway that involves the formation of hydrocarbons via aldehyde-like intermediates, providing an important framework for further mechanistic investigations of FeS-based activation and reduction of C1 substrates. In this Account, we summarize the recent work leading to the discovery of C1-substrate reduction by protein-bound and free [Fe₄S₄] clusters as well as the current mechanistic understanding of this FeS-based reactivity. In addition, we briefly discuss the evolutionary implications of this discovery and potential applications that could be developed to enable FeS-based strategies for the ambient recycling of unwanted C1 waste into useful chemical commodities.

Computational Methods for Modeling Metalloproteins

Metalloproteins are challenging objects if we want to investigate their chemical reactivity with theoretical approaches such as density functional theory (DFT). The complexity of these biomolecules often requires us to find a compromise between accuracy and feasibility, one that is tailored to the questions we set out to answer. In this chapter, we discuss computational approaches to studying chemical reactions in metalloproteins and how to utilize the information hidden in homologous proteins.

Selective Synthesis of Site-Differentiated Fe4S4 and Fe6S6 Clusters

Obtaining rational control over the structure and nuclearity of metalloclusters is an ongoing challenge in synthetic Fe-S cluster chemistry. We report a new family of tridentate imidazolin-2-imine ligands L(NIm^R)₃ that can bind [Fe₄S₄]²⁺ or [Fe₆S₆]³⁺ clusters, depending on the steric profile of the ligand and the reaction stoichiometry. A high-yielding synthetic route to L(NIm^R)₃ ligands (where R is the imidazolyl N substituents) from trianiline and 2-chloroimidazolium precursors is described. For L(NIm^Me)₃ (tris(1,3,5-(3-( N, N-dimethyl-4,5-diphenylimidazolin-2-imino)phenylmethyl))benzene), metalation with 1 equiv of [Ph₄P]₂[Fe₄S₄Cl₄] and 3 equiv of NaBPh₄ furnishes a mixture of products, but adjusting the stoichiometry to 1.5 equiv of [Ph₄P]₂[Fe₄S₄Cl₄] provides (L(NIm^Me)₃)Fe₆S₆Cl₆ in high yield. Formation of an [Fe₆S₆]³⁺ cluster using L(NIm^Tol)₃ (tris(1,3,5-(3-( N, N-bis(4-methylphenyl)-4,5-diphenylimidazolin-2-imino)phenylmethyl))benzene) is not observed; instead, the [Fe₄S₄]²⁺ cluster [(L(NIm^Tol)₃)(Fe₄S₄Cl)][BPh₄] is cleanly generated when 1 equiv of [Ph₄P]₂[Fe₄S₄Cl₄] is employed. The selectivity for cluster nuclearity is rationalized by the orientation of the imidazolyl rings whereby long N-imidazolyl substituents preclude formation of [Fe₆S₆]³⁺ clusters but not [Fe₄S₄]²⁺ clusters. Thus, the structure and nuclearity of L(NIm^R)₃-bound Fe-S clusters may be selectively controlled through rational modification the ligand's substituents.

Cubane-Type [Mo3 S4 M] Clusters with First-Row Groups 4-10 Transition-Metal Halides Supported by C5 Me5 Ligands on Molybdenum

A synthetic protocol was developed for a series of cubane-type [Mo₃ S₄ M] clusters that incorporate halides of first-row transition metals (M) from Groups 4-10. This protocol is based on the anionic cluster platform [Cp*₃ Mo₃ S₄ ]^- ([1]^- ; Cp*=η⁵ -C₅ Me₅ ), which crystallizes when K(18-crown-6) is used as the counter cation. Treatment of in situ-generated [1]^- with such transition-metal halides led to the formation of [Mo₃ S₄ M] clusters, in which the M/halide ratio gradually changes from 1:2 to 1:1.5 and to 1:1, when moving from early to late transition metals. This trend suggests a tendency for early transition metals to tolerate higher oxidation states and adopt larger ionic radii relative to late transition metals. The properties of the [Mo₃ S₄ Fe] cluster 6 a were investigated in detail by using ⁵⁷ Fe Mössbauer spectroscopy and computational methods.

Reduction and Condensation of Aldehydes by the Isolated Cofactor of Nitrogenase

Isolated nitrogenase cofactors can reduce CO, CN^-, and CO₂ to short-chain hydrocarbons in reactions driven by a strong reductant. Here, we use activity analyses and isotope labeling experiments to show that formaldehyde and acetaldehydes can be reduced as-is or reductively condensed into alkanes and alkenes by the isolated cofactor of Mo-nitrogenase in the presence of Eu^II-diethylenetriamine pentaacetate (DTPA). Further, we demonstrate that aldehydes can be condensed with CO by the isolated cofactor under the same reaction conditions, pointing to aldehyde-derived species as possible intermediates of nitrogenase-catalyzed CO reduction. Our deuterium labeling experiments suggest the formation of a cofactor-bound hydroxymethyl intermediate upon activation of the formaldehyde, as well as the release of C₂H₄ as a product upon β-hydride elimination of an acetaldehyde-derived hydroxyethyl intermediate. These findings establish the reductive condensation of aldehydes as a previously unobserved reactivity of a biogenic catalyst while at the same time shed light on the mechanism of enzymatic CO reduction and C-C bond formation, thereby providing a useful framework for further exploration of the unique reactivity and potential applications of nitrogenase-based reactions.