Structure of the [NiFe] Hydrogenase Active Site: Evidence for Biologically Uncommon Fe Ligands

Perspective: multi-configurational methods in bio-inorganic chemistry

Transition metal ions play crucial roles in the structure and function of numerous proteins, contributing to essential biological processes such as catalysis, electron transfer, and oxygen binding. However, accurately modeling the electronic structure and properties of metalloproteins poses significant challenges due to the complex nature of their electronic configurations and strong correlation effects. Multiconfigurational quantum chemistry methods are, in principle, the most appropriate tools for addressing these challenges, offering the capability to capture the inherent multi-reference character and strong electron correlation present in bio-inorganic systems. Yet their computational cost has long hindered wider adoption, making methods such as density functional theory (DFT) the method of choice. However, advancements over the past decade have substantially alleviated this limitation, rendering multiconfigurational quantum chemistry methods more accessible and applicable to a wider range of bio-inorganic systems. In this perspective, we discuss some of these developments and how they have already been used to answer some of the most important questions in bio-inorganic chemistry. We also comment on ongoing developments in the field and how the future of the field may evolve.

A Bioinspired Copper-Pair Catalyst in Metal-Organic Frameworks for Molecular Dioxygen Activation and Aerobic Oxidative C-N Coupling

Open Cu sites were loaded to the UiO-67 metal-organic framework (MOF) skeleton by introduction of flexible Cu-binding pyridylmethylamine (pyma) side chains to the biphenyldicarboxylate linkers. Distance between Cu centers in the MOF pores was tuned by controlling the density of metal-binding side chains. "Interacted" Cu-pair or "isolated" monomeric Cu sites were achieved with high and low (pyma)Cu side chain loading, respectively. Spectroscopic and theoretical studies indicate that "interacted" Cu pairs can effectively bind and activate molecular dioxygen to form Cu2O2 clusters, which showed high catalytic activity for aerobic oxidative C-N coupling. On the contrary, MOF catalyst bearing isolated monomeric Cu sites only showed modest catalytic activity. Enhancement in catalytic performance for the Cu-pair catalyst is attributed to the remote synergistic effect of the paired Cu site, which binds molecular dioxygen and cleaves the O═O bond in a collaborative manner. This work demonstrates that noncovalently interacted metal-pair sites can effectively activate inert small molecules and promote heterogeneous catalytic processes.

Selenium-More than Just a Fortuitous Sulfur Substitute in Redox Biology

Living organisms use selenium mainly in the form of selenocysteine in the active site of oxidoreductases. Here, selenium's unique chemistry is believed to modulate the reaction mechanism and enhance the catalytic efficiency of specific enzymes in ways not achievable with a sulfur-containing cysteine. However, despite the fact that selenium/sulfur have different physicochemical properties, several selenoproteins have fully functional cysteine-containing homologues and some organisms do not use selenocysteine at all. In this review, selected selenocysteine-containing proteins will be discussed to showcase both situations: (i) selenium as an obligatory element for the protein's physiological function, and (ii) selenium presenting no clear advantage over sulfur (functional proteins with either selenium or sulfur). Selenium's physiological roles in antioxidant defence (to maintain cellular redox status/hinder oxidative stress), hormone metabolism, DNA synthesis, and repair (maintain genetic stability) will be also highlighted, as well as selenium's role in human health. Formate dehydrogenases, hydrogenases, glutathione peroxidases, thioredoxin reductases, and iodothyronine deiodinases will be herein featured.

Novel concepts and engineering strategies for heterologous expression of efficient hydrogenases in photosynthetic microorganisms

Hydrogen is considered one of the key enablers of the transition towards a sustainable and net-zero carbon economy. When produced from renewable sources, hydrogen can be used as a clean and carbon-free energy carrier, as well as improve the sustainability of a wide range of industrial processes. Photobiological hydrogen production is considered one of the most promising technologies, avoiding the need for renewable electricity and rare earth metal elements, the demands for which are greatly increasing due to the current simultaneous electrification and decarbonization goals. Photobiological hydrogen production employs photosynthetic microorganisms to harvest solar energy and split water into molecular oxygen and hydrogen gas, unlocking the long-pursued target of solar energy storage. However, photobiological hydrogen production has to-date been constrained by several limitations. This review aims to discuss the current state-of-the art regarding hydrogenase-driven photobiological hydrogen production. Emphasis is placed on engineering strategies for the expression of improved, non-native, hydrogenases or photosynthesis re-engineering, as well as their combination as one of the most promising pathways to develop viable large-scale hydrogen green cell factories. Herein we provide an overview of the current knowledge and technological gaps curbing the development of photobiological hydrogenase-driven hydrogen production, as well as summarizing the recent advances and future prospects regarding the expression of non-native hydrogenases in cyanobacteria and green algae with an emphasis on [FeFe] hydrogenases.

Bioinspired Framework Catalysts: From Enzyme Immobilization to Biomimetic Catalysis

Enzymatic catalysis has fueled considerable interest from chemists due to its high efficiency and selectivity. However, the structural complexity and vulnerability hamper the application potentials of enzymes. Driven by the practical demand for chemical conversion, there is a long-sought quest for bioinspired catalysts reproducing and even surpassing the functions of natural enzymes. As nanoporous materials with high surface areas and crystallinity, metal-organic frameworks (MOFs) represent an exquisite case of how natural enzymes and their active sites are integrated into porous solids, affording bioinspired heterogeneous catalysts with superior stability and customizable structures. In this review, we comprehensively summarize the advances of bioinspired MOFs for catalysis, discuss the design principle of various MOF-based catalysts, such as MOF-enzyme composites and MOFs embedded with active sites, and explore the utility of these catalysts in different reactions. The advantages of MOFs as enzyme mimetics are also highlighted, including confinement, templating effects, and functionality, in comparison with homogeneous supramolecular catalysts. A perspective is provided to discuss potential solutions addressing current challenges in MOF catalysis.

How Metal Nuclearity Impacts Electrocatalytic H2 Production in Thiocarbohydrazone-Based Complexes

Thiocarbohydrazone-based catalysts feature ligands that are potentially electrochemically active. From the synthesis point of view, these ligands can be easily tailored, opening multiple strategies for optimization, such as using different substituent groups or metal substitution. In this work, we show the possibility of a new strategy, involving the nuclearity of the system, meaning the number of metal centers. We report the synthesis and characterization of a trinuclear nickel-thiocarbohydrazone complex displaying an improved turnover rate compared with its mononuclear counterpart. We use DFT calculations to show that the mechanism involved is metal-centered, unlike the metal-assisted ligand-centered mechanism found in the mononuclear complex. Finally, we show that two possible mechanisms can be assigned to this catalyst, both involving an initial double reduction of the system.

Functionalized nickel(II)-iron(II) dithiolates as biomimetic models of [NiFe]-H2ases

To develop the structural and functional modeling chemistry of [NiFe]-H₂ases, a series of new biomimetics for the active site of [NiFe]-H₂ases have been prepared by various synthetic methods. Treatment of the mononuclear Ni complex (pnp)NiCl₂ (pnp = (Ph₂PCH₂)₂NPh) with (dppv)Fe(CO)₂(pdt) (dppv = 1,2-(Ph₂P)₂C₂H₂, pdt = 1,3-propanedithiolate) and KPF₆ gave the dicarbonyl complex [(pnp)Ni(pdt)Fe(CO)₂(dppv)](PF₆)₂ ([1](PF₆)₂). Further treatment of [1](PF₆)₂ and [(dppe)Ni(pdt)Fe(CO)₂(dppv)](BF₄)₂ (dppe = 1,2-(Ph₂P)₂C₂H₄) with the decarbonylation agent Me₃NO and pyridine afforded the novel sp³ C-Fe bond-containing complexes [(pnp)Ni(SCH₂CH₂CHS)Fe(CO)(dppv)]PF₆ ([2]PF₆) and [(dppe)Ni(SCH₂CH₂CHS)Fe(CO)(dppv)]BF₄ ([3]BF₄). More interestingly, the first t-carboxylato complexes [(pnp)Ni(pdt)Fe(CO)(t-O₂CR)(dppv)]PF₆ ([4]PF₆, R = H; [5]PF₆, R = Me; [6]PF₆, R = Ph) could be prepared by reactions of [1]PF₆ with the corresponding carboxylic acids RCO₂H in the presence of Me₃NO, whereas further reactions of [4]PF₆-[6]PF₆ with aqueous HPF₆ and 1.5 MPa H₂ gave rise to the μ-hydride complex [(pnp)Ni(pdt)Fe(CO)(μ-H)(dppv)]PF₆ ([7]PF₆). Except for H₂ activation by t-carboxylato complexes [4]PF₆-[6]PF₆ to give a μ-hydride complex ([7]PF₆), the sp³ C-Fe bond-containing complex [2]PF₆ was found to be a catalyst for proton reduction to H₂ under CV conditions. Furthermore, the chemical reactivity of the μ-hydride complex [7]PF₆ displayed in the e^- transfer reaction with FcPF₆ in the presence of CO, the H₂ evolution reaction with the protonic acid HCl, and the H^- transfer reaction with N-methylacridinium hexafluorophosphate ([NMA]PF₆) was systematically studied. As a result, a series of the expected products such as H₂, ferrocene, the dicarbonyl complex [1](PF₆)₂, the μ-chloro complex [(pnp)Ni(pdt)Fe(CO)(μ-Cl)(dppv)]PF₆ ([8]PF₆), the t-MeCN-coordinated complex [(pnp)Ni(pdt)Fe(CO)(t-MeCN)(dppv)](PF₆)₂ ([9](PF₆)₂) and the H^- transfer product AcrH₂ were produced. While all the newly prepared model complexes were structurally characterized by spectroscopic methods, the molecular structures of some of their representatives were confirmed by X-ray crystallography.

Heterometallic bond activation enabled by unsymmetrical ligand scaffolds: bridging the opposites

Heterobi- and multimetallic complexes providing close proximity between several metal centers serve as active species in artificial and enzymatic catalysis, and in model systems, showing unique modes of metal-metal cooperative bond activation. Through the rational design of well-defined, unsymmetrical ligand scaffolds, we create a convenient approach to support the assembly of heterometallic species in a well-defined and site-specific manner, preventing them from scrambling and dissociation. In this perspective, we will outline general strategies for the design of unsymmetrical ligands to support heterobi- and multimetallic complexes that show reactivity in various types of heterometallic cooperative bond activation.

Reversible Glutamate Coordination to High-Valent Nickel Protects the Active Site of a [NiFe] Hydrogenase from Oxygen

NAD⁺-reducing [NiFe] hydrogenases are valuable biocatalysts for H₂-based energy conversion and the regeneration of nucleotide cofactors. While most hydrogenases are sensitive toward O₂ and elevated temperatures, the soluble NAD⁺-reducing [NiFe] hydrogenase from Hydrogenophilus thermoluteolus (HtSH) is O₂-tolerant and thermostable. Thus, it represents a promising candidate for biotechnological applications. Here, we have investigated the catalytic activity and active-site structure of native HtSH and variants in which a glutamate residue in the active-site cavity was replaced by glutamine, alanine, and aspartate. Our biochemical, spectroscopic, and theoretical studies reveal that at least two active-site states of oxidized HtSH feature an unusual architecture in which the glutamate acts as a terminal ligand of the active-site nickel. This observation demonstrates that crystallographically observed glutamate coordination represents a native feature of the enzyme. One of these states is diamagnetic and characterized by a very high stretching frequency of an iron-bound active-site CO ligand. Supported by density-functional-theory calculations, we identify this state as a high-valent species with a biologically unprecedented formal Ni(IV) ground state. Detailed insights into its structure and dynamics were obtained by ultrafast and two-dimensional infrared spectroscopy, demonstrating that it represents a conformationally strained state with unusual bond properties. Our data further show that this state is selectively and reversibly formed under oxic conditions, especially upon rapid exposure to high O₂ levels. We conclude that the kinetically controlled formation of this six-coordinate high-valent state represents a specific and precisely orchestrated stereoelectronic response toward O₂ that could protect the enzyme from oxidative damage.

Understanding 2D-IR Spectra of Hydrogenases: A Descriptive and Predictive Computational Study

[NiFe] hydrogenases are metalloenzymes that catalyze the reversible cleavage of dihydrogen (), a clean future fuel. Understanding the mechanism of these biocatalysts requires spectroscopic techniques that yield insights into the structure and dynamics of the [NiFe] active site. Due to the presence of CO and ligands at this cofactor, infrared (IR) spectroscopy represents an ideal technique for studying these aspects, but molecular information from linear IR absorption experiments is limited. More detailed insights can be obtained from ultrafast nonlinear IR techniques like IRpump−IRprobe and two-dimensional (2D-)IR spectroscopy. However, fully exploiting these advanced techniques requires an in-depth understanding of experimental observables and the encoded molecular information. To address this challenge, we present a descriptive and predictive computational approach for the simulation and analysis of static 2D-IR spectra of [NiFe] hydrogenases and similar organometallic systems. Accurate reproduction of experimental spectra from a first-coordination-sphere model suggests a decisive role of the [NiFe] core in shaping the enzymatic potential energy surface. We also reveal spectrally encoded molecular information that is not accessible by experiments, thereby helping to understand the catalytic role of the diatomic ligands, structural differences between [NiFe] intermediates, and possible energy transfer mechanisms. Our studies demonstrate the feasibility and benefits of computational spectroscopy in the 2D-IR investigation of hydrogenases, thereby further strengthening the potential of this nonlinear IR technique as a powerful research tool for the investigation of complex bioinorganic molecules.

Synthesis, Structures and Chemical Reactivity of Dithiolato-Bridged Ni-Fe Complexes as Biomimetics for the Active Site of [NiFe]-Hydrogenases

To develop the structural and functional modeling chemistry of [NiFe]-H2ases, we have carried out a study regarding the synthesis, structural characterization and reactivity of a new series of [NiFe]-H2ase model complexes. Thus, treatment of diphosphine dppb-chelated Ni complex (dppb)NiCl2 (dppb = 1,2-(Ph2P)2C6H4) with (dppv)Fe(CO)2(pdt) (dppv = 1,2-(Ph2P)2C2H2, pdt = 1,3-propanedithiolate) and NaBF4 gave dicarbonyl complex [(dppb)Ni(pdt)Fe(CO)2(dppv)](BF4)2 ([A](BF4)2). Further treatment of [A](BF4)2 with Me3NO and Bu4NCN or KSCN afforded t-cyanido and t-isothiocyanato complexes [(dppb)Ni(pdt)Fe(CO)(t-R)(dppv)]BF4 ([1]BF4, R = CN; [2]BF4, R = NCS), respectively. While azadiphosphine MeN(CH2PPh2)2-chelated t-hydride complex [MeN(CH2PPh2)2Ni(pdt)Fe(CO)(t-H)(dppv)]BF4 ([3]BF4) was prepared by treatment of dicarbonyl complex [MeN(CH2PPh2)2Ni(pdt)Fe(CO)2(dppv)](BF4)2 ([B](BF4)2) with Me3NO and 1.5 MPa of H2, treatment of dicarbonyl complex [B](BF4)2 with Me3NO (without H2) in pyridine resulted in formation of a novel monocarbonyl complex [MeN(CH2PPh2)2Ni(SCHCH2CH2S)Fe(CO)(dppv)]BF4 ([4]BF4) via the unexpected sp3 C-H bond activation reaction. Furthermore, azadiphosphine PhN(CH2PPh2)2-chelated µ-mercapto complex [PhN(CH2PPh2)2Ni(pdt)Fe(CO)(µ-SH)(dppv)]BF4 ([5]BF4) was prepared by treatment of dicarbonyl complex [PhN(CH2PPh2)2Ni(pdt)Fe(CO)2(dppv)](BF4)2 ([C](BF4)2) with Me3NO and H2S gas, whereas treatment of azadiphosphine Ph2CHN(CH2PPh2)2-chelated dicarbonyl complex [Ph2CHN(CH2PPh2)2Ni(pdt)Fe(CO)2(dppe)](BF4)2 ([D](BF4)2, dppe = 1,2-(Ph2P)2C2H4) with Me3NO⋅2H2O gave rise to µ-hydroxo complex [Ph2CHN(CH2PPh2)2Ni(pdt)Fe(CO)(µ-OH)(dppe)]BF4 ([6]BF4). All the possible pathways for formation of the new model complexes are briefly discussed, and their structures were fully characterized by various spectroscopic techniques and for six of them by X-ray crystallography.

Catalytic Mechanism of Competing Proton Transfer Events from Water and Acetic Acid by [CoII(bpbH2)Cl2] for Water Splitting Processes

We performed first principles simulations to explore the water reduction process of the cobalt complex [Co^II(bpbH₂)Cl₂], where bpbH₂ = N,N'-bis(2'-pyridine carboxamide)-1,2-benzene. We considered the sequence steps of electron reduction followed by the proton addition process to observe the hydrogen evolution process. An experimental study of the catalyst showed that the increase in the acetic acid concentration triggers catalytic current and reduction of Co(II) to Co(I), and protonation occurred, yielding a Co(III)-H intermediate. Therefore, we used water and acetic acid as the proton sources. We compare the proton transfer kinetics from both the water and acetic acid. The reduction potentials and proton transfer kinetics from water or acetic acid to the reaction center were studied in a DMF solvent through the implicit solvent model. The first proton transfer from the acetic acid is more favorable, forming a Co^III-H complex and further reducing to Co^II-H. The second proton transfer from water to the Co^II-H moiety requires less free energy than acetic acid and is the rate-limiting step. The nature of the reduction process is also examined through the charge analysis, which reveals that the ligand becomes softer due to the C═O groups.

Recent developments in electrochemical investigations into iron carbonyl complexes relevant to the iron centres of hydrogenases

In this brief review mainly based on our own work, we summarised the electrochemical investigations into those iron carbonyl complexes relevant to the iron centres of [FeFe]-and [Fe]-hydrogenases in the following aspects: (i) electron transfer (E) coupled with a chemical reaction (C), EC process, (ii) two-electron process with potential inversion (EC_isoE), and (iii) proton-coupled electron transfer (PCET) and the role of an internal base group in the non-coordination sphere. Through individual examples, these processes involved in the electrochemistry of the iron carbonyl complexes are discussed. In probing the complexes involving a two-electron process with potential inversion, the co-existence of one- and two-electron for a complex is demonstrated by incorporating intramolecularly a ferrocenyl group(s) into the complex. Our studies on proton reduction catalysed by three diiron complexes involving the PCET mechanism are also summarised. Finally, perspectives of the electrochemical study in iron carbonyl complexes inspired by the iron-containing enzymes are mentioned in the sense of developing mimics of low overpotentials for hydrogen evolution through exploiting the PCET effect.

Exploring Structure and Function of Redox Intermediates in [NiFe]-Hydrogenases by an Advanced Experimental Approach for Solvated, Lyophilized and Crystallized Metalloenzymes

To study metalloenzymes in detail, we developed a new experimental setup allowing the controlled preparation of catalytic intermediates for characterization by various spectroscopic techniques. The in situ monitoring of redox transitions by infrared spectroscopy in enzyme lyophilizate, crystals, and solution during gas exchange in a wide temperature range can be accomplished as well. Two O2 -tolerant [NiFe]-hydrogenases were investigated as model systems. First, we utilized our platform to prepare highly concentrated hydrogenase lyophilizate in a paramagnetic state harboring a bridging hydride. This procedure proved beneficial for 57 Fe nuclear resonance vibrational spectroscopy and revealed, in combination with density functional theory calculations, the vibrational fingerprint of this catalytic intermediate. The same in situ IR setup, combined with resonance Raman spectroscopy, provided detailed insights into the redox chemistry of enzyme crystals, underlining the general necessity to complement X-ray crystallographic data with spectroscopic analyses.

Crystal Structure of the [FeFe]-Hydrogenase Maturase HydE Bound to Complex-B

[FeFe]-hydrogenases use a unique organometallic complex, termed the H cluster, to reversibly convert H₂ into protons and low-potential electrons. It can be best described as a [Fe₄S₄] cluster coupled to a unique [2Fe]_H center where the reaction actually takes place. The latter corresponds to two iron atoms, each of which is bound by one CN^- ligand and one CO ligand. The two iron atoms are connected by a unique azadithiolate molecule (^-S-CH₂-NH-CH₂-S^-) and an additional bridging CO. This [2Fe]_H center is built stepwise thanks to the well-orchestrated action of maturating enzymes that belong to the Hyd machinery. Among them, HydG converts l-tyrosine into CO and CN^- to produce a unique l-cysteine-Fe(CO)₂CN species termed complex-B. Very recently, HydE was shown to perform radical-based chemistry using synthetic complex-B as a substrate. Here we report the high-resolution crystal structure that establishes the identity of the complex-B-bound HydE. By triggering the reaction prior to crystallization, we trapped a new five-coordinate Fe species, supporting the proposal that HydE performs complex modifications of complex-B to produce a monomeric "SFe(CO)₂CN" precursor to the [2Fe]_H center. Substrate access, product release, and intermediate transfer are also discussed.

Mononuclear nickel(II) dithiolate complexes with chelating diphosphines: Insight into protonation and electrochemical proton reduction

Inspired by the metal active sites of [FeFe]- and [NiFe]‑hydrogenases, a series of mononuclear Ni(II) ethanedithiolate complexes [{(Ph₂PCH₂)₂×}Ni(SCH₂CH₂S)] (X = NCH₂C₅H₄N-p (2a), NCH₂C₆H₅ (2b), NCH₂CHMe₂ (2c), and CH₂ (2d)) with chelating diphosphines were readily synthesized through the room-temperature treatments of mononuclear Ni(II) dichlorides [{(Ph₂PCH₂)₂×}NiCl₂] (1a-1d) with ethanedithiol (HSCH₂CH₂SH) in the presence of triethylamine (Et₃N) as acid-binding agent. All the as-prepared complexes 1a-1d and 2a-2d are fully characterized through elemental analysis, nuclear magnetic resonance (NMR) spectrum, and by X-ray crystallography for 1b, 2a-2d. To further explore proton-trapping behaviors of this type of mononuclear Ni(II) complexes for catalytic hydrogen (H₂) evolution, the protonation and electrochemical proton reduction of 2a-2c with aminodiphosphines (labeled PCNCP = (Ph₂PCH₂)₂NR) and reference analogue 2d with nitrogen-free diphosphine (dppp = (Ph₂PCH₂)₂CH₂) are studied and compared under trifluoroacetic acid (TFA) as a proton source. Interestingly, the treatments of 2a-2d with excess TFA resulted in the unexpected formation of dinuclear Ni(II)-Ni(II) dication complexes [{(Ph₂PCH₂)₂×}₂Ni₂(μ-SCH₂CH₂S)](CF₃CO₂)₂ (3a-3d) and mononuclear Ni(II) N-protonated complexes [{(Ph₂PCH₂)₂N(H)R}Ni(SCH₂CH₂S)](CF₃CO₂) (4a-4c), which has been well supported by high-resolution electrospray ionization mass spectroscopy (HRESI-MS), NMR (³¹P, ¹H) as well as fourier transform infrared spectroscopy (FT-IR) techniques, and especially by X-ray crystallography for 3d. Additionally, the electrochemical properties of 2a-2d are investigated in the absence and presence of strong acid (TFA) by using cyclic voltammetry (CV), showing that the complete protonation of 2a-2d gave rise to dinuclear Ni₂S₂ species 3a-3d for electrocatalytic proton reduction to H₂.

Synthesis of Novel Heteroleptic Oxothiolate Ni(II) Complexes and Evaluation of Their Catalytic Activity for Hydrogen Evolution

Two heteroleptic nickel oxothiolate complexes, namely [Ni(bpy)(mp)] (1) and [Ni(dmbpy)(mp)] (2), where mp = 2-hydroxythiophenol, bpy = 2,2′-bipyridine and dmbpy = 4,4′-dimethyl-2,2′-bipyridine were synthesized and characterized with various physical and spectroscopic methods. Complex 2 was further characterized by single crystal X-ray diffraction data. The complex crystallizes in the monoclinic P 21/c system and in its neutral form. The catalytic properties of both complexes for proton reduction were evaluated with photochemical and electrochemical studies. Two different in their nature photosensitizers, namely fluorescein and CdTe-TGA-coated quantum dots, were tested under various conditions. The role of the electron donating character of the methyl substituents was revealed in the light of the studies. Thus, catalyst 2 performs better than 1, reaching 39.1 TONs vs. 4.63 TONs in 3 h, respectively, in electrochemical experiments. In contrast, complex 1 is more photocatalytically active than 2, achieving a TON of over 6700 in 120 h of irradiation. This observed reverse catalytic activity suggests that HER mechanism follows different pathways in electrocatalysis and photocatalysis.

Self-supported wire-in-plate NiFeS/CoS nanohybrids with a hierarchical structure for efficient overall water splitting

Highly efficient low-cost electrocatalysts play a key role in overall water splitting to generate hydrogen and oxygen. Herein, a self-supported hierarchical NiFeS/CoS nanosheet/nanowire bifunctional electrocatalyst for overall water splitting supported on nickel foam is synthesized by the combined process of hydrothermal and sulfurization methods. The specific wire-in-plate micromorphology of the catalyst provides the advantages of high contact area for electrolyte penetration, extensive active surface area and plentiful accessible active sites. Moreover, the quaternary catalyst in situ grown on the substrate guarantees mechanical stability. Reasonably, the as-obtained NiFeS/CoS catalyst with a unique wire-in-plate nanostructure shows good electrocatalytic performance toward the OER, HER and efficient overall water splitting. The NiFeS/CoS catalyst delivers 50 and 150 mA cm-2 at ultralow overpotentials of 170 and 150 mV toward the OER and HER, respectively. When simultaneously used as the electrocatalyst at both the cathode and the anode of an alkaline electrolyzer, the NiFeS/CoS electrocatalyst requires a cell voltage of 1.81 V at a water-splitting current density of 100 mA cm-2 for overall water splitting. This investigation provides an effective strategy to design hierarchically multidimensional nanohybrids for bifunctional electrocatalysts by combining nanowires with nanoplates.

Cysteine residue-bridged dinuclear Ni–Fe complexes related to [NiFe]-H2ases

Cysteine residue-containing [NiFe]-H2ase models 1–6 have been prepared for the first time and some of them were found to be catalysts for H2 production from HOAc under CV conditions.

Biochemical and artificial pathways for the reduction of carbon dioxide, nitrite and the competing proton reduction: effect of 2nd sphere interactions in catalysis

Reduction of oxides and oxoanions of carbon and nitrogen are of great contemporary importance as they are crucial for a sustainable environment.

Structure of the respiratory MBS complex reveals iron-sulfur cluster catalyzed sulfane sulfur reduction in ancient life

Modern day aerobic respiration in mitochondria involving complex I converts redox energy into chemical energy and likely evolved from a simple anaerobic system now represented by hydrogen gas-evolving hydrogenase (MBH) where protons are the terminal electron acceptor. Here we present the cryo-EM structure of an early ancestor in the evolution of complex I, the elemental sulfur (S⁰)-reducing reductase MBS. Three highly conserved protein loops linking cytoplasmic and membrane domains enable scalable energy conversion in all three complexes. MBS contains two proton pumps compared to one in MBH and likely conserves twice the energy. The structure also reveals evolutionary adaptations of MBH that enabled S⁰ reduction by MBS catalyzed by a site-differentiated iron-sulfur cluster without participation of protons or amino acid residues. This is the simplest mechanism proposed for reduction of inorganic or organic disulfides. It is of fundamental significance in the iron and sulfur-rich volcanic environments of early earth and possibly the origin of life. MBS provides a new perspective on the evolution of modern-day respiratory complexes and of catalysis by biological iron-sulfur clusters.

The sulfur-reducing enzyme MBS and the hydrogen-gas evolving MBH are the evolutionary link between the ancestor Mrp antiporter and the mitochondrial respiratory complex I. Here, the authors characterise MBS from the hyperthermophilic archaeon Pyrococcus furiosus, solve its cryo-EM structure and discuss the structural evolution from Mrp to MBH and MBS and to the modern-day complex I.

Heterodinuclear nickel(ii)-iron(ii) azadithiolates as structural and functional models for the active site of [NiFe]-hydrogenases

To develop the biomimetic chemistry of [NiFe]-H₂ases, the first azadithiolato-bridged NiFe model complexes [CpNi{(μ-SCH₂)₂NR}Fe(CO)(diphos)]BF₄ (5, R = Ph, diphos = dppv; 6, 4-ClC₆H₄, dppv; 7, 4-MeC₆H₄, dppv; 8, CO₂CH₂Ph, dppe; 9, H, dppe) have been synthesized via well-designed synthetic routes. Thus, treatment of RN[CH₂S(O)CMe]₂ with t-BuONa followed by reaction of the resulting intermediates RN(CH₂SNa)₂ with (dppv)Fe(CO)₂Cl₂ or (dppe)Fe(CO)₂Cl₂ gave the N-substituted azadithiolato-chelated Fe complexes [RN(CH₂S)₂]Fe(CO)₂(diphos) (1, R = Ph, diphos = dppv; 2, 4-ClC₆H₄, dppv; 3, 4-MeC₆H₄, dppv; 4, CO₂CH₂Ph, dppe). Further treatment of 1–4 with nickelocene in the presence of HBF₄·Et₂O afforded the corresponding N-substituted azadithiolato-bridged NiFe model complexes 5–8, while treatment of 8 with HBF₄·Et₂O resulted in formation of the parent azadithiolato-bridged model complex 9. While all the new complexes 1–9 were characterized by elemental analysis and spectroscopy, the molecular structures of model complexes 6–8 were confirmed by X-ray crystallographic study. In addition, model complexes 7 and 9 were found to be catalysts for H₂ production with moderate i_cat/i_p and overpotential values from TFA under CV conditions.

The first azadithiolato-bridged NiFe model complexes with a general formula [CpNi{(μ-SCH₂)₂NR}Fe(CO)(diphos)]BF₄ have been synthesized, characterized, and for some of them found to be catalysts for proton reduction to H₂ under CV conditions.

Studying O2 pathways in [NiFe]- and [NiFeSe]-hydrogenases

Hydrogenases are efficient biocatalysts for H₂ production and oxidation with various potential biotechnological applications.[NiFe]-class hydrogenases are highly active in both production and oxidation processes—albeit primarily biased to the latter—but suffer from being sensitive to O₂.[NiFeSe] hydrogenases are a subclass of [NiFe] hydrogenases with, usually, an increased insensitivity to aerobic environments. In this study we aim to understand the structural causes of the low sensitivity of a [NiFeSe]-hydrogenase, when compared with a [NiFe] class enzyme, by studying the diffusion of O₂. To unravel the differences between the two enzymes, we used computational methods comprising Molecular Dynamics simulations with explicit O₂ and Implicit Ligand Sampling methodologies. With the latter, we were able to map the free energy landscapes for O₂ permeation in both enzymes. We derived pathways from these energy landscapes and selected the kinetically more relevant ones with reactive flux analysis using transition path theory. These studies evidence the existence of quite different pathways in both enzymes and predict a lower permeation efficiency for O₂ in the case of the [NiFeSe]-hydrogenase when compared with the [NiFe] enzyme. These differences can explain the experimentally observed lower inhibition by O₂ on [NiFeSe]-hydrogenases, when compared with [NiFe]-hydrogenases. A comprehensive map of the residues lining the most important O₂ pathways in both enzymes is also presented.

A Dithiolato and Hydrido Bridged (CO/CN)Fe-Ni Complex with Unprotected CN: A Model for the [Ni-R] State of the [Ni-Fe] Hydrogenase Active Site

A dithiolate/hydride bridged Fe-Ni complex, [(CN)(CO)₂Fe^II(μ-pdt)(μ-H)Ni^II(CN)(PCy₃)]^- (2, pdt = propane-1,3-dithiolate) has been synthesized by the reaction of [(CN)₂(CO)₂Fe^II(pdt)]^2- with [Ni^II(Cl)(H)(PCy₃)₂] as a synthetic analogue of the Ni-R state of the active site of the [Ni-Fe] hydrogenase. X-ray crystallography of this model complex suggests that the hydride unsymmetrically binds to Ni and Fe similar to natural [Ni-Fe] hydrogenases.

Recent advances in the mechanisms of the hydrogen evolution reaction by non-innocent sulfur-coordinating metal complexes

This review comments on the homogeneous HER mechanisms for catalysts carrying S-non-innocent ligands in the light of experimental and computational data.

Hydrogen evolution reaction mediated by an all-sulfur trinuclear nickel complex

A trinuclear nickel complex with S-based ligands is reported as a bio-inspired model of the [NiFe] hydrogenases' active site. DFT calculations indicate that thiolate and thioether functions are involved as proton relays in the H₂ evolution mechanism.

Understanding the structure and dynamics of hydrogenases by ultrafast and two-dimensional infrared spectroscopy

Hydrogenases are valuable model enzymes for sustainable energy conversion approaches using H2, but rational utilization of these base-metal biocatalysts requires a detailed understanding of the structure and dynamics of their complex active sites. The intrinsic CO and CN- ligands of these metalloenzymes represent ideal chromophores for infrared (IR) spectroscopy, but structural and dynamic insight from conventional IR absorption experiments is limited. Here, we apply ultrafast and two-dimensional (2D) IR spectroscopic techniques, for the first time, to study hydrogenases in detail. Using an O2-tolerant [NiFe] hydrogenase as a model system, we demonstrate that IR pump-probe spectroscopy can explore catalytically relevant ligand bonding by accessing high-lying vibrational states. This ultrafast technique also shows that the protein matrix is influential in vibrational relaxation, which may be relevant for energy dissipation from the active site during fast reaction steps. Further insights into the relevance of the active site environment are provided by 2D-IR spectroscopy, which reveals equilibrium dynamics and structural constraints imposed on the H2-accepting intermediate of [NiFe] hydrogenases. Both techniques offer new strategies for uniquely identifying redox-structural states in complex catalytic mixtures via vibrational quantum beats and 2D-IR off-diagonal peaks. Together, these findings considerably expand the scope of IR spectroscopy in hydrogenase research, and new perspectives for the characterization of these enzymes and other (bio-)organometallic targets are presented.

Iron-sulphur cluster biogenesis via the SUF pathway

Iron-sulphur (Fe-S) clusters are versatile cofactors, which are essential for key metabolic processes in cells, such as respiration and photosynthesis, and which may have also played a crucial role in establishing life on Earth. They can be found in almost all living organisms, from unicellular prokaryotes and archaea to multicellular animals and plants, and exist in diverse forms. This review focuses on the most ancient Fe-S cluster assembly system, the sulphur utilization factor (SUF) mechanism, which is crucial in bacteria for cell survival under stress conditions such as oxidation and iron starvation, and which is also present in the chloroplasts of green microalgae and plants, where it is responsible for plastidial Fe-S protein maturation. We explain the SUF Fe-S cluster assembly process, the proteins involved, their regulation and provide evolutionary insights. We specifically focus on examples from Fe-S cluster synthesis in the model organisms Escherichia coli and Arabidopsis thaliana and discuss in an in vivo context the assembly of the [FeFe]-hydrogenase H-cluster from Chlamydomonas reinhardtii.

Organometallic compounds as carriers of extraterrestrial cyanide in primitive meteorites

Extraterrestrial delivery of cyanide may have been crucial for the origin of life on Earth since cyanide is involved in the abiotic synthesis of numerous organic compounds found in extant life; however, little is known about the abundance and species of cyanide present in meteorites. Here, we report cyanide abundance in a set of CM chondrites ranging from 50 ± 1 to 2472 ± 38 nmol·g-1, which relates to the degree of aqueous alteration of the meteorite and indicates that parent body processing influenced cyanide abundance. Analysis of the Lewis Cliff 85311 meteorite shows that its releasable cyanide is primarily in the form of [FeII(CN)5(CO)]3- and [FeII(CN)4(CO)2]2-. Meteoritic delivery of iron cyanocarbonyl complexes to early Earth likely provided an important point source of free cyanide. Iron cyanocarbonyl complexes may have served as precursors to the unusual FeII(CN)(CO) moieties that form the catalytic centers of hydrogenases, which are thought to be among the earliest enzymes.

Targeting adenylate-forming enzymes with designed sulfonyladenosine inhibitors

Adenylate-forming enzymes are a mechanistic superfamily that are involved in diverse biochemical pathways. They catalyze ATP-dependent activation of carboxylic acid substrates as reactive acyl adenylate (acyl-AMP) intermediates and subsequent coupling to various nucleophiles to generate ester, thioester, and amide products. Inspired by natural products, acyl sulfonyladenosines (acyl-AMS) that mimic the tightly bound acyl-AMP reaction intermediates have been developed as potent inhibitors of adenylate-forming enzymes. This simple yet powerful inhibitor design platform has provided a wide range of biological probes as well as several therapeutic lead compounds. Herein, we provide an overview of the nine structural classes of adenylate-forming enzymes and examples of acyl-AMS inhibitors that have been developed for each.

Computational analyses, molecular dynamics, and mutagenesis studies of unprocessed form of [NiFe] hydrogenase reveal the role of disorder for efficient enzyme maturation

Biological production and oxidation of hydrogen is mediated by hydrogenases, key enzymes for these energy-relevant reactions. Synthesis of [NiFe] hydrogenases involves a complex series of biochemical reactions to assemble protein subunits and metallic cofactors required for enzyme function. A final step in this biosynthetic pathway is the processing of a C-terminal tail (CTT) from its large subunit, thus allowing proper insertion of nickel in the unique NiFe(CN)₂CO cofactor present in these enzymes. In silico modelling and Molecular Dynamics (MD) analyses of processed vs. unprocessed forms of Rhizobium leguminosarum bv. viciae (Rlv) hydrogenase large subunit HupL showed that its CTT (residues 582-596) is an intrinsically disordered region (IDR) that likely provides the required flexibility to the protein for the final steps of proteolytic maturation. Prediction of pKa values of ionizable side chains in both forms of the enzyme's large subunit also revealed that the presence of the CTT strongly modify the protonation state of some key residues around the active site. Furthermore, MD simulations and mutant analyses revealed that two glutamate residues (E27 in the N-terminal region and E589 inside the CTT) likely contribute to the process of nickel incorporation into the enzyme. Computational analysis also revealed structural details on the interaction of Rlv hydrogenase LSU with the endoprotease HupD responsible for the removal of CTT.

Nickel-Iron Dithiolato Hydrides Derived from H2 Activation by Their μ-Hydroxo Ligand-Containing Analogues

Here, we describe the synthesis and characterization of the two μ-hydrido models of [NiFe]H₂ases prepared from a new type of H₂ activation by the corresponding two μ-hydroxo models. In addition, another μ-hydrido model prepared by the anionic exchange between one of the two μ-hydrido models and KPF₆ is also reported. Interestingly, the synthesis of the two μ-hydrido models from H₂ activation represents the first functional modeling of the H₂ activation catalyzed by the [NiFe]H₂ase (Ni-SIr)_I state to give the Ni-R state.

Hydrogenases

Hydrogenases catalyze the simple yet important interconversion between H₂ and protons and electrons. Found throughout prokaryotes, lower eukaryotes, and archaea, hydrogenases are used for a variety of redox and signaling purposes and are found in many different forms. This diverse group of metalloenzymes is divided into [NiFe], [FeFe], and [Fe] variants, based on the transition metal contents of their active sites. A wide array of biochemical and spectroscopic methods has been used to elucidate hydrogenases, and this along with a general description of the main enzyme types and catalytic mechanisms is discussed in this chapter.

Selenium versus sulfur: Reversibility of chemical reactions and resistance to permanent oxidation in proteins and nucleic acids

This review highlights the contributions of Jean Chaudière to the field of selenium biochemistry. Chaudière was the first to recognize that one of the main reasons that selenium in the form of selenocysteine is used in proteins is due to the fact that it strongly resists permanent oxidation. The foundations for this important concept was laid down by Al Tappel in the 1960's and even before by others. The concept of oxygen tolerance first recognized in the study of glutathione peroxidase was further advanced and refined by those studying [NiFeSe]-hydrogenases, selenosubtilisin, and thioredoxin reductase. After 200 years of selenium research, work by Marcus Conrad and coworkers studying glutathione peroxidase-4 has provided definitive evidence for Chaudière's original hypothesis (Ingold et al., 2018) [36]. While the reaction of selenium with oxygen is readily reversible, there are many other examples of this phenomenon of reversibility. Many reactions of selenium can be described as "easy in - easy out". This is due to the strong nucleophilic character of selenium to attack electrophiles, but then this reaction can be reversed due to the strong electrophilic character of selenium and the weakness of the selenium-carbon bond. Several examples of this are described.