{"title":"Biocatalysis in Asia and the Pacific.","authors":"Sabine L Flitsch, Nicholas J Turner, Zhi Li","doi":"10.1021/jacsau.4c00693","DOIUrl":"https://doi.org/10.1021/jacsau.4c00693","url":null,"abstract":"","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350737/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116488","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-26DOI: 10.1021/jacsau.4c0069310.1021/jacsau.4c00693
Sabine L. Flitsch*, Nicholas J. Turner* and Zhi Li*,
{"title":"Biocatalysis in Asia and the Pacific","authors":"Sabine L. Flitsch*, Nicholas J. Turner* and Zhi Li*, ","doi":"10.1021/jacsau.4c0069310.1021/jacsau.4c00693","DOIUrl":"https://doi.org/10.1021/jacsau.4c00693https://doi.org/10.1021/jacsau.4c00693","url":null,"abstract":"","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/epdf/10.1021/jacsau.4c00693","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142075025","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Environmental catalysis has attracted great interest in air and water purification. Selective catalytic reduction with ammonia (NH3-SCR) as a representative technology of environmental catalysis is of significance to the elimination of nitrogen oxides (NO x ) emitting from stationary and mobile sources. However, the evolving energy landscape in the nonelectric sector and the changing nature of fuel in motor vehicles present new challenges for NO x catalytic purification over the traditional NH3-SCR catalysts. These challenges primarily revolve around the application limitations of conventional industrial NH3-SCR catalysts, such as V2O5-WO3(MoO3)/TiO2 and chabazite (CHA) structured zeolites, in meeting both the severe requirements of high activity at ultralow temperatures and robust resistance to the wide array of poisons (SO2, HCl, phosphorus, alkali metals, and heavy metals, etc.) existing in more complex operating conditions of new application scenarios. Additionally, volatile organic compounds (VOCs) coexisting with NO x in exhaust gas has emerged as a critical factor further impeding the highly efficient reduction of NO x . Therefore, confronting the challenges inherent in current NH3-SCR technology and drawing from the established NH3-SCR reaction mechanisms, we discern that the strategic manipulation of the properties of surface acidity and redox over NH3-SCR catalysts constitutes an important pathway for increasing the catalytic efficiency at low temperatures. Concurrently, the establishment of protective sites and confined structures combined with the strategies for triggering antagonistic effects emerge as imperative items for strengthening the antipoisoning potentials of NH3-SCR catalysts. Finally, we contemplate the essential status of selective synergistic catalytic elimination technology for abating NO x and VOCs. By virtue of these discussions, we aim to offer a series of innovative guiding perspectives for the further advancement of environmental catalysis technology for the highly efficient NO x catalytic purification from nonelectric industries and motor vehicles.
{"title":"Challenges and Perspectives of Environmental Catalysis for NO <sub><i>x</i></sub> Reduction.","authors":"Yanqi Chen, Xiangyu Liu, Penglu Wang, Maryam Mansoor, Jin Zhang, Dengchao Peng, Lupeng Han, Dengsong Zhang","doi":"10.1021/jacsau.4c00572","DOIUrl":"https://doi.org/10.1021/jacsau.4c00572","url":null,"abstract":"<p><p>Environmental catalysis has attracted great interest in air and water purification. Selective catalytic reduction with ammonia (NH<sub>3</sub>-SCR) as a representative technology of environmental catalysis is of significance to the elimination of nitrogen oxides (NO <sub><i>x</i></sub> ) emitting from stationary and mobile sources. However, the evolving energy landscape in the nonelectric sector and the changing nature of fuel in motor vehicles present new challenges for NO <sub><i>x</i></sub> catalytic purification over the traditional NH<sub>3</sub>-SCR catalysts. These challenges primarily revolve around the application limitations of conventional industrial NH<sub>3</sub>-SCR catalysts, such as V<sub>2</sub>O<sub>5</sub>-WO<sub>3</sub>(MoO<sub>3</sub>)/TiO<sub>2</sub> and chabazite (CHA) structured zeolites, in meeting both the severe requirements of high activity at ultralow temperatures and robust resistance to the wide array of poisons (SO<sub>2</sub>, HCl, phosphorus, alkali metals, and heavy metals, etc.) existing in more complex operating conditions of new application scenarios. Additionally, volatile organic compounds (VOCs) coexisting with NO <sub><i>x</i></sub> in exhaust gas has emerged as a critical factor further impeding the highly efficient reduction of NO <sub><i>x</i></sub> . Therefore, confronting the challenges inherent in current NH<sub>3</sub>-SCR technology and drawing from the established NH<sub>3</sub>-SCR reaction mechanisms, we discern that the strategic manipulation of the properties of surface acidity and redox over NH<sub>3</sub>-SCR catalysts constitutes an important pathway for increasing the catalytic efficiency at low temperatures. Concurrently, the establishment of protective sites and confined structures combined with the strategies for triggering antagonistic effects emerge as imperative items for strengthening the antipoisoning potentials of NH<sub>3</sub>-SCR catalysts. Finally, we contemplate the essential status of selective synergistic catalytic elimination technology for abating NO <sub><i>x</i></sub> and VOCs. By virtue of these discussions, we aim to offer a series of innovative guiding perspectives for the further advancement of environmental catalysis technology for the highly efficient NO <sub><i>x</i></sub> catalytic purification from nonelectric industries and motor vehicles.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350593/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116489","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Metal nitrides (MNs) are attracting enormous attention in the electrocatalytic nitrogen reduction reaction (NRR) because of their rich lattice nitrogen (Nlat) and the unique ability of Nlat vacancies to activate N2. However, continuing controversy exists on whether MNs are catalytically active for NRR or produce NH3 via the reductive decomposition of Nlat without N2 activation in the in situ electrochemical conditions, let alone the rational design of high-performance MN catalysts. Herein, we focus on the common rocksalt-type MN(100) catalysts and establish a quantitative theoretical framework based on the first-principles microkinetic simulations to resolve these puzzles. The results show that the Mars-van Krevelen mechanism is kinetically more favorable to drive the NRR on a majority of MNs, in which Nlat plays a pivotal role in achieving the Volmer process and N2 activation. In terms of stability, activity, and selectivity, we find that MN(100) with moderate formation energy of Nlat vacancy (Evac) can achieve maximum activity and maintain electrochemical stability, while low- or high-Evac ones are either unstable or catalytically less active. Unfortunately, owing to the five-coordinate structural feature of Nlat on rocksalt-type MN(100), this maximum activity is limited to a yield of NH3 of only ∼10-15 mol s-1 cm-2. Intriguingly, we identify a volcano-type activity-regulating role of the local structural features of Nlat and show that the four-coordinate Nlat can exhibit optimal activity and overcome the performance limitation, while less coordinated Nlat fails. This work provides, arguably for the first time, an in-depth theoretical insight into the activity and stability paradox of MNs for NRR and underlines the importance of reaction kinetic assessment in comparison with the prevailing simple thermodynamic analysis.
{"title":"Optimizing the Lattice Nitrogen Coordination to Break the Performance Limitation of Metal Nitrides for Electrocatalytic Nitrogen Reduction.","authors":"Haiyang Yuan, Chen Zhu, Yu Hou, Hua Gui Yang, Haifeng Wang","doi":"10.1021/jacsau.4c00377","DOIUrl":"https://doi.org/10.1021/jacsau.4c00377","url":null,"abstract":"<p><p>Metal nitrides (MNs) are attracting enormous attention in the electrocatalytic nitrogen reduction reaction (NRR) because of their rich lattice nitrogen (N<sub>lat</sub>) and the unique ability of N<sub>lat</sub> vacancies to activate N<sub>2</sub>. However, continuing controversy exists on whether MNs are catalytically active for NRR or produce NH<sub>3</sub> via the reductive decomposition of N<sub>lat</sub> without N<sub>2</sub> activation in the in situ electrochemical conditions, let alone the rational design of high-performance MN catalysts. Herein, we focus on the common rocksalt-type MN(100) catalysts and establish a quantitative theoretical framework based on the first-principles microkinetic simulations to resolve these puzzles. The results show that the Mars-van Krevelen mechanism is kinetically more favorable to drive the NRR on a majority of MNs, in which N<sub>lat</sub> plays a pivotal role in achieving the Volmer process and N<sub>2</sub> activation. In terms of stability, activity, and selectivity, we find that MN(100) with moderate formation energy of N<sub>lat</sub> vacancy (<i>E</i> <sub>vac</sub>) can achieve maximum activity and maintain electrochemical stability, while low- or high-<i>E</i> <sub>vac</sub> ones are either unstable or catalytically less active. Unfortunately, owing to the five-coordinate structural feature of N<sub>lat</sub> on rocksalt-type MN(100), this maximum activity is limited to a yield of NH<sub>3</sub> of only ∼10<sup>-15</sup> mol s<sup>-1</sup> cm<sup>-2</sup>. Intriguingly, we identify a volcano-type activity-regulating role of the local structural features of N<sub>lat</sub> and show that the four-coordinate N<sub>lat</sub> can exhibit optimal activity and overcome the performance limitation, while less coordinated N<sub>lat</sub> fails. This work provides, arguably for the first time, an in-depth theoretical insight into the activity and stability paradox of MNs for NRR and underlines the importance of reaction kinetic assessment in comparison with the prevailing simple thermodynamic analysis.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350572/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116494","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15eCollection Date: 2024-08-26DOI: 10.1021/jacsau.4c00610
Xinyu Ning, Darshita Budhadev, Sara Pollastri, Inga Nehlmeier, Amy Kempf, Iain Manfield, W Bruce Turnbull, Stefan Pöhlmann, Anna Bernardi, Xin Li, Yuan Guo, Dejian Zhou
<p><p>Multivalent lectin-glycan interactions (MLGIs) are widespread and vital for biology, making them attractive therapeutic targets. Unfortunately, the structural and biophysical mechanisms of several key MLGIs remain poorly understood, limiting our ability to design spatially matched glycoconjugates as potential therapeutics against specific MLGIs. We have recently demonstrated that natural oligomannose-coated nanoparticles are powerful probes for MLGIs. They can provide not only quantitative affinity and binding thermodynamic data but also key structural information (<i>e.g</i>, binding site orientation and mode) useful for designing glycoconjugate therapeutics against specific MLGIs. Despite success, how designing parameters (<i>e.g</i>., glycan type, density, and scaffold size) control their MLGI biophysical and antiviral properties remains to be elucidated. A synthetic pseudodimannose (psDiMan) ligand has been shown to selectively bind to a dendritic cell surface tetrameric lectin, DC-SIGN, over some other multimeric lectins sharing monovalent mannose specificity but having distinct cellular functions. Herein, we display psDiMan polyvalently onto gold nanoparticles (GNPs) of varying sizes (<i>e.g</i>., ∼5 and ∼13 nm, denoted as G5- and G13 psDiMan hereafter) to probe how the scaffold size and glycan display control their MLGI properties with DC-SIGN and the closely related lectin DC-SIGNR. We show that G5/13 psDiMan binds strongly to DC-SIGN, with sub-nM <i>K</i> <sub>d</sub>s, with affinity being enhanced with increasing scaffold size, whereas they show apparently no or only weak binding to DC-SIGNR. Interestingly, there is a minimal, GNP-size-dependent, glycan density threshold for forming strong binding with DC-SIGN. By combining temperature-dependent affinity and Van't Hoff analyses, we have developed a new GNP fluorescence quenching assay for MLGI thermodynamics, revealing that DC-SIGN-G<i>x</i>-psDiMan binding is enthalpy-driven, with a standard binding Δ<i>H</i> <sup>0</sup> of ∼ -95 kJ mol<sup>-1</sup>, which is ∼4-fold that of the monovalent binding and is comparable to that measured by isothermal titration calorimetry. We further reveal that the enhanced DC-SIGN affinity with G<i>x</i>-psDiMan with increasing GNP scaffold size is due to reduced binding entropy penalty and not due to enhanced favorable binding enthalpy. We further show that DC-SIGN binds tetravalently to a single G<i>x</i>-psDiMan, irrespective of the GNP size, whereas DC-SIGNR binding is dependent on GNP size, with no apparent binding with G5, and weak cross-linking with G13. Finally, we show that G<i>x</i>-psDiMans potently inhibit DC-SIGN-dependent augmentation of cellular entry of Ebola pseudoviruses with sub-nM EC<sub>50</sub> values, whereas they exhibit no significant (for G5) or weak (for G13) inhibition against DC-SIGNR-augmented viral entry, consistent to their MLGI properties with DC-SIGNR in solution. These results have established G<i>x</i>-psDiMan as
{"title":"Polyvalent Glycomimetic-Gold Nanoparticles Revealing Critical Roles of Glycan Display on Multivalent Lectin-Glycan Interaction Biophysics and Antiviral Properties.","authors":"Xinyu Ning, Darshita Budhadev, Sara Pollastri, Inga Nehlmeier, Amy Kempf, Iain Manfield, W Bruce Turnbull, Stefan Pöhlmann, Anna Bernardi, Xin Li, Yuan Guo, Dejian Zhou","doi":"10.1021/jacsau.4c00610","DOIUrl":"https://doi.org/10.1021/jacsau.4c00610","url":null,"abstract":"<p><p>Multivalent lectin-glycan interactions (MLGIs) are widespread and vital for biology, making them attractive therapeutic targets. Unfortunately, the structural and biophysical mechanisms of several key MLGIs remain poorly understood, limiting our ability to design spatially matched glycoconjugates as potential therapeutics against specific MLGIs. We have recently demonstrated that natural oligomannose-coated nanoparticles are powerful probes for MLGIs. They can provide not only quantitative affinity and binding thermodynamic data but also key structural information (<i>e.g</i>, binding site orientation and mode) useful for designing glycoconjugate therapeutics against specific MLGIs. Despite success, how designing parameters (<i>e.g</i>., glycan type, density, and scaffold size) control their MLGI biophysical and antiviral properties remains to be elucidated. A synthetic pseudodimannose (psDiMan) ligand has been shown to selectively bind to a dendritic cell surface tetrameric lectin, DC-SIGN, over some other multimeric lectins sharing monovalent mannose specificity but having distinct cellular functions. Herein, we display psDiMan polyvalently onto gold nanoparticles (GNPs) of varying sizes (<i>e.g</i>., ∼5 and ∼13 nm, denoted as G5- and G13 psDiMan hereafter) to probe how the scaffold size and glycan display control their MLGI properties with DC-SIGN and the closely related lectin DC-SIGNR. We show that G5/13 psDiMan binds strongly to DC-SIGN, with sub-nM <i>K</i> <sub>d</sub>s, with affinity being enhanced with increasing scaffold size, whereas they show apparently no or only weak binding to DC-SIGNR. Interestingly, there is a minimal, GNP-size-dependent, glycan density threshold for forming strong binding with DC-SIGN. By combining temperature-dependent affinity and Van't Hoff analyses, we have developed a new GNP fluorescence quenching assay for MLGI thermodynamics, revealing that DC-SIGN-G<i>x</i>-psDiMan binding is enthalpy-driven, with a standard binding Δ<i>H</i> <sup>0</sup> of ∼ -95 kJ mol<sup>-1</sup>, which is ∼4-fold that of the monovalent binding and is comparable to that measured by isothermal titration calorimetry. We further reveal that the enhanced DC-SIGN affinity with G<i>x</i>-psDiMan with increasing GNP scaffold size is due to reduced binding entropy penalty and not due to enhanced favorable binding enthalpy. We further show that DC-SIGN binds tetravalently to a single G<i>x</i>-psDiMan, irrespective of the GNP size, whereas DC-SIGNR binding is dependent on GNP size, with no apparent binding with G5, and weak cross-linking with G13. Finally, we show that G<i>x</i>-psDiMans potently inhibit DC-SIGN-dependent augmentation of cellular entry of Ebola pseudoviruses with sub-nM EC<sub>50</sub> values, whereas they exhibit no significant (for G5) or weak (for G13) inhibition against DC-SIGNR-augmented viral entry, consistent to their MLGI properties with DC-SIGNR in solution. These results have established G<i>x</i>-psDiMan as","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350578/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116495","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15DOI: 10.1021/jacsau.4c0055810.1021/jacsau.4c00558
Enrico Hupfeld, Sandra Schlee, Jan Philip Wurm, Chitra Rajendran, Dariia Yehorova, Eva Vos, Dinesh Ravindra Raju, Shina Caroline Lynn Kamerlin*, Remco Sprangers* and Reinhard Sterner*,
The overall significance of loop motions for enzymatic activity is generally accepted. However, it has largely remained unclear whether and how such motions can control different steps of catalysis. We have studied this problem on the example of the mobile active site β1α1-loop (loop1) of the (βα)8-barrel enzyme HisF, which is the cyclase subunit of imidazole glycerol phosphate synthase. Loop1 variants containing single mutations of conserved amino acids showed drastically reduced rates for the turnover of the substrates N′-[(5′-phosphoribulosyl) formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PrFAR) and ammonia to the products imidazole glycerol phosphate (ImGP) and 5-aminoimidazole-4-carboxamide-ribotide (AICAR). A comprehensive mechanistic analysis including stopped-flow kinetics, X-ray crystallography, NMR spectroscopy, and molecular dynamics simulations detected three conformations of loop1 (open, detached, closed) whose populations differed between wild-type HisF and functionally affected loop1 variants. Transient stopped-flow kinetic experiments demonstrated that wt-HisF binds PrFAR by an induced-fit mechanism whereas catalytically impaired loop1 variants bind PrFAR by a simple two-state mechanism. Our findings suggest that PrFAR-induced formation of the closed conformation of loop1 brings active site residues in a productive orientation for chemical turnover, which we show to be the rate-limiting step of HisF catalysis. After the cyclase reaction, the closed loop conformation is destabilized, which favors the formation of detached and open conformations and hence facilitates the release of the products ImGP and AICAR. Our data demonstrate how different conformations of active site loops contribute to different catalytic steps, a finding that is presumably of broad relevance for the reaction mechanisms of (βα)8-barrel enzymes and beyond.
{"title":"Conformational Modulation of a Mobile Loop Controls Catalysis in the (βα)8-Barrel Enzyme of Histidine Biosynthesis HisF","authors":"Enrico Hupfeld, Sandra Schlee, Jan Philip Wurm, Chitra Rajendran, Dariia Yehorova, Eva Vos, Dinesh Ravindra Raju, Shina Caroline Lynn Kamerlin*, Remco Sprangers* and Reinhard Sterner*, ","doi":"10.1021/jacsau.4c0055810.1021/jacsau.4c00558","DOIUrl":"https://doi.org/10.1021/jacsau.4c00558https://doi.org/10.1021/jacsau.4c00558","url":null,"abstract":"<p >The overall significance of loop motions for enzymatic activity is generally accepted. However, it has largely remained unclear whether and how such motions can control different steps of catalysis. We have studied this problem on the example of the mobile active site β<sub>1</sub>α<sub>1</sub>-loop (loop1) of the (βα)<sub>8</sub>-barrel enzyme HisF, which is the cyclase subunit of imidazole glycerol phosphate synthase. Loop1 variants containing single mutations of conserved amino acids showed drastically reduced rates for the turnover of the substrates <i>N</i>′-[(5′-phosphoribulosyl) formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PrFAR) and ammonia to the products imidazole glycerol phosphate (ImGP) and 5-aminoimidazole-4-carboxamide-ribotide (AICAR). A comprehensive mechanistic analysis including stopped-flow kinetics, X-ray crystallography, NMR spectroscopy, and molecular dynamics simulations detected three conformations of loop1 (open, detached, closed) whose populations differed between wild-type HisF and functionally affected loop1 variants. Transient stopped-flow kinetic experiments demonstrated that wt-HisF binds PrFAR by an induced-fit mechanism whereas catalytically impaired loop1 variants bind PrFAR by a simple two-state mechanism. Our findings suggest that PrFAR-induced formation of the closed conformation of loop1 brings active site residues in a productive orientation for chemical turnover, which we show to be the rate-limiting step of HisF catalysis. After the cyclase reaction, the closed loop conformation is destabilized, which favors the formation of detached and open conformations and hence facilitates the release of the products ImGP and AICAR. Our data demonstrate how different conformations of active site loops contribute to different catalytic steps, a finding that is presumably of broad relevance for the reaction mechanisms of (βα)<sub>8</sub>-barrel enzymes and beyond.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/epdf/10.1021/jacsau.4c00558","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142075509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15DOI: 10.1021/jacsau.4c0037710.1021/jacsau.4c00377
Haiyang Yuan, Chen Zhu, Yu Hou, Hua Gui Yang and Haifeng Wang*,
Metal nitrides (MNs) are attracting enormous attention in the electrocatalytic nitrogen reduction reaction (NRR) because of their rich lattice nitrogen (Nlat) and the unique ability of Nlat vacancies to activate N2. However, continuing controversy exists on whether MNs are catalytically active for NRR or produce NH3 via the reductive decomposition of Nlat without N2 activation in the in situ electrochemical conditions, let alone the rational design of high-performance MN catalysts. Herein, we focus on the common rocksalt-type MN(100) catalysts and establish a quantitative theoretical framework based on the first-principles microkinetic simulations to resolve these puzzles. The results show that the Mars-van Krevelen mechanism is kinetically more favorable to drive the NRR on a majority of MNs, in which Nlat plays a pivotal role in achieving the Volmer process and N2 activation. In terms of stability, activity, and selectivity, we find that MN(100) with moderate formation energy of Nlat vacancy (Evac) can achieve maximum activity and maintain electrochemical stability, while low- or high-Evac ones are either unstable or catalytically less active. Unfortunately, owing to the five-coordinate structural feature of Nlat on rocksalt-type MN(100), this maximum activity is limited to a yield of NH3 of only ∼10–15 mol s–1 cm–2. Intriguingly, we identify a volcano-type activity-regulating role of the local structural features of Nlat and show that the four-coordinate Nlat can exhibit optimal activity and overcome the performance limitation, while less coordinated Nlat fails. This work provides, arguably for the first time, an in-depth theoretical insight into the activity and stability paradox of MNs for NRR and underlines the importance of reaction kinetic assessment in comparison with the prevailing simple thermodynamic analysis.
{"title":"Optimizing the Lattice Nitrogen Coordination to Break the Performance Limitation of Metal Nitrides for Electrocatalytic Nitrogen Reduction","authors":"Haiyang Yuan, Chen Zhu, Yu Hou, Hua Gui Yang and Haifeng Wang*, ","doi":"10.1021/jacsau.4c0037710.1021/jacsau.4c00377","DOIUrl":"https://doi.org/10.1021/jacsau.4c00377https://doi.org/10.1021/jacsau.4c00377","url":null,"abstract":"<p >Metal nitrides (MNs) are attracting enormous attention in the electrocatalytic nitrogen reduction reaction (NRR) because of their rich lattice nitrogen (N<sub>lat</sub>) and the unique ability of N<sub>lat</sub> vacancies to activate N<sub>2</sub>. However, continuing controversy exists on whether MNs are catalytically active for NRR or produce NH<sub>3</sub> via the reductive decomposition of N<sub>lat</sub> without N<sub>2</sub> activation in the in situ electrochemical conditions, let alone the rational design of high-performance MN catalysts. Herein, we focus on the common rocksalt-type MN(100) catalysts and establish a quantitative theoretical framework based on the first-principles microkinetic simulations to resolve these puzzles. The results show that the Mars-van Krevelen mechanism is kinetically more favorable to drive the NRR on a majority of MNs, in which N<sub>lat</sub> plays a pivotal role in achieving the Volmer process and N<sub>2</sub> activation. In terms of stability, activity, and selectivity, we find that MN(100) with moderate formation energy of N<sub>lat</sub> vacancy (<i>E</i><sub>vac</sub>) can achieve maximum activity and maintain electrochemical stability, while low- or high-<i>E</i><sub>vac</sub> ones are either unstable or catalytically less active. Unfortunately, owing to the five-coordinate structural feature of N<sub>lat</sub> on rocksalt-type MN(100), this maximum activity is limited to a yield of NH<sub>3</sub> of only ∼10<sup>–15</sup> mol s<sup>–1</sup> cm<sup>–2</sup>. Intriguingly, we identify a volcano-type activity-regulating role of the local structural features of N<sub>lat</sub> and show that the four-coordinate N<sub>lat</sub> can exhibit optimal activity and overcome the performance limitation, while less coordinated N<sub>lat</sub> fails. This work provides, arguably for the first time, an in-depth theoretical insight into the activity and stability paradox of MNs for NRR and underlines the importance of reaction kinetic assessment in comparison with the prevailing simple thermodynamic analysis.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/epdf/10.1021/jacsau.4c00377","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142074996","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15eCollection Date: 2024-08-26DOI: 10.1021/jacsau.4c00558
Enrico Hupfeld, Sandra Schlee, Jan Philip Wurm, Chitra Rajendran, Dariia Yehorova, Eva Vos, Dinesh Ravindra Raju, Shina Caroline Lynn Kamerlin, Remco Sprangers, Reinhard Sterner
The overall significance of loop motions for enzymatic activity is generally accepted. However, it has largely remained unclear whether and how such motions can control different steps of catalysis. We have studied this problem on the example of the mobile active site β1α1-loop (loop1) of the (βα)8-barrel enzyme HisF, which is the cyclase subunit of imidazole glycerol phosphate synthase. Loop1 variants containing single mutations of conserved amino acids showed drastically reduced rates for the turnover of the substrates N'-[(5'-phosphoribulosyl) formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PrFAR) and ammonia to the products imidazole glycerol phosphate (ImGP) and 5-aminoimidazole-4-carboxamide-ribotide (AICAR). A comprehensive mechanistic analysis including stopped-flow kinetics, X-ray crystallography, NMR spectroscopy, and molecular dynamics simulations detected three conformations of loop1 (open, detached, closed) whose populations differed between wild-type HisF and functionally affected loop1 variants. Transient stopped-flow kinetic experiments demonstrated that wt-HisF binds PrFAR by an induced-fit mechanism whereas catalytically impaired loop1 variants bind PrFAR by a simple two-state mechanism. Our findings suggest that PrFAR-induced formation of the closed conformation of loop1 brings active site residues in a productive orientation for chemical turnover, which we show to be the rate-limiting step of HisF catalysis. After the cyclase reaction, the closed loop conformation is destabilized, which favors the formation of detached and open conformations and hence facilitates the release of the products ImGP and AICAR. Our data demonstrate how different conformations of active site loops contribute to different catalytic steps, a finding that is presumably of broad relevance for the reaction mechanisms of (βα)8-barrel enzymes and beyond.
{"title":"Conformational Modulation of a Mobile Loop Controls Catalysis in the (βα)<sub>8</sub>-Barrel Enzyme of Histidine Biosynthesis HisF.","authors":"Enrico Hupfeld, Sandra Schlee, Jan Philip Wurm, Chitra Rajendran, Dariia Yehorova, Eva Vos, Dinesh Ravindra Raju, Shina Caroline Lynn Kamerlin, Remco Sprangers, Reinhard Sterner","doi":"10.1021/jacsau.4c00558","DOIUrl":"https://doi.org/10.1021/jacsau.4c00558","url":null,"abstract":"<p><p>The overall significance of loop motions for enzymatic activity is generally accepted. However, it has largely remained unclear whether and how such motions can control different steps of catalysis. We have studied this problem on the example of the mobile active site β<sub>1</sub>α<sub>1</sub>-loop (loop1) of the (βα)<sub>8</sub>-barrel enzyme HisF, which is the cyclase subunit of imidazole glycerol phosphate synthase. Loop1 variants containing single mutations of conserved amino acids showed drastically reduced rates for the turnover of the substrates <i>N</i>'-[(5'-phosphoribulosyl) formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PrFAR) and ammonia to the products imidazole glycerol phosphate (ImGP) and 5-aminoimidazole-4-carboxamide-ribotide (AICAR). A comprehensive mechanistic analysis including stopped-flow kinetics, X-ray crystallography, NMR spectroscopy, and molecular dynamics simulations detected three conformations of loop1 (open, detached, closed) whose populations differed between wild-type HisF and functionally affected loop1 variants. Transient stopped-flow kinetic experiments demonstrated that wt-HisF binds PrFAR by an induced-fit mechanism whereas catalytically impaired loop1 variants bind PrFAR by a simple two-state mechanism. Our findings suggest that PrFAR-induced formation of the closed conformation of loop1 brings active site residues in a productive orientation for chemical turnover, which we show to be the rate-limiting step of HisF catalysis. After the cyclase reaction, the closed loop conformation is destabilized, which favors the formation of detached and open conformations and hence facilitates the release of the products ImGP and AICAR. Our data demonstrate how different conformations of active site loops contribute to different catalytic steps, a finding that is presumably of broad relevance for the reaction mechanisms of (βα)<sub>8</sub>-barrel enzymes and beyond.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350729/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116491","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15eCollection Date: 2024-08-26DOI: 10.1021/jacsau.4c00539
Valiyakath Abdul Rinshad, Medha Aggarwal, Jack K Clegg, Partha Sarathi Mukherjee
Molecular hosts with functional cavities can emulate enzymatic behavior through selective encapsulation of substrates, resulting in high chemo-, regio-, and stereoselective product formation. It is still challenging to synthesize enzyme-mimicking hosts that exhibit a narrow substrate scope that relies upon the recognition of substrates based on the molecular size. Herein, we introduce a Pd4 self-assembled water-soluble molecular capsule [M4L2] (MC) that was formed through the self-assembly of a ligand L (4',4‴'-(1,4-phenylene)bis(1',4'-dihydro-[4,2':6',4″-terpyridine]-3',5'-dicarbonitrile)) with the acceptor cis-[(en)Pd(NO3)2] [en = ethane-1,2-diamine] (M). The molecular capsule MC showed size-selective recognition towards xylene isomers. The redox property of MC was explored for efficient and selective oxidation of one of the alkyl groups of m-xylene and p-xylene to their corresponding toluic acids using molecular O2 as an oxidant upon photoirradiation. Employing host-guest chemistry, we demonstrate the homogeneous catalysis of alkyl aromatics to the corresponding monocarboxylic acids in water under mild conditions. Despite homogeneous catalysis, the products were separated from the reaction mixtures by simple filtration/extraction, and the catalyst was reused. The larger analogues of the alkyl aromatics failed to bind within the MC's hydrophobic cavity, resulting in a lower/negligible reaction outcome. The present study represents a facile approach for selective photo-oxidation of xylene isomers to their corresponding toluic acids in an aqueous medium under mild conditions.
具有功能性空腔的分子宿主可以通过选择性地封装底物来模拟酶的行为,从而形成高化学、区域和立体选择性的产物。合成模拟酶的宿主仍具有挑战性,这种宿主的底物范围较窄,需要根据分子大小来识别底物。在此,我们介绍一种 Pd4 自组装水溶性分子胶囊 [M 4 L 2] (MC),它是通过配体 L(4',4‴'-(1,4-亚苯基)双(1',4'-二氢-[4,2':6',4″-三吡啶]-3',5'-二甲腈)与受体顺式-[(en)Pd(NO3)2] [en = 乙烷-1,2-二胺] (M)。分子胶囊 MC 显示出对二甲苯异构体的尺寸选择性识别能力。研究人员利用分子 O2 作为氧化剂,探索了 MC 的氧化还原特性,以便在光照射下将间二甲苯和对二甲苯的一个烷基高效、选择性地氧化为相应的甲苯酸。利用主客体化学,我们展示了在温和条件下,在水中将烷基芳烃均相催化成相应的一元羧酸的过程。尽管是均相催化,但通过简单的过滤/萃取,产物就能从反应混合物中分离出来,催化剂也可重复使用。较大的烷基芳烃类似物未能在 MC 的疏水腔内结合,导致反应结果较低/可忽略不计。本研究代表了一种在温和条件下,在水介质中将二甲苯异构体选择性光氧化成相应甲苯酸的简便方法。
{"title":"Harnessing a Pd<sub>4</sub> Water-Soluble Molecular Capsule as a Size-Selective Catalyst for Targeted Oxidation of Alkyl Aromatics.","authors":"Valiyakath Abdul Rinshad, Medha Aggarwal, Jack K Clegg, Partha Sarathi Mukherjee","doi":"10.1021/jacsau.4c00539","DOIUrl":"https://doi.org/10.1021/jacsau.4c00539","url":null,"abstract":"<p><p>Molecular hosts with functional cavities can emulate enzymatic behavior through selective encapsulation of substrates, resulting in high chemo-, regio-, and stereoselective product formation. It is still challenging to synthesize enzyme-mimicking hosts that exhibit a narrow substrate scope that relies upon the recognition of substrates based on the molecular size. Herein, we introduce a Pd<sub>4</sub> self-assembled water-soluble molecular capsule [<b>M</b> <sub>4</sub> <b>L</b> <sub>2</sub>] (<b>MC</b>) that was formed through the self-assembly of a ligand <b>L</b> (4',4‴'-(1,4-phenylene)bis(1',4'-dihydro-[4,2':6',4″-terpyridine]-3',5'-dicarbonitrile)) with the acceptor <i>cis</i>-[(en)Pd(NO<sub>3</sub>)<sub>2</sub>] [en = ethane-1,2-diamine] (<b>M</b>). The molecular capsule <b>MC</b> showed size-selective recognition towards xylene isomers. The redox property of <b>MC</b> was explored for efficient and selective oxidation of one of the alkyl groups of <i>m</i>-xylene and <i>p</i>-xylene to their corresponding toluic acids using molecular O<sub>2</sub> as an oxidant upon photoirradiation. Employing host-guest chemistry, we demonstrate the homogeneous catalysis of alkyl aromatics to the corresponding monocarboxylic acids in water under mild conditions. Despite homogeneous catalysis, the products were separated from the reaction mixtures by simple filtration/extraction, and the catalyst was reused. The larger analogues of the alkyl aromatics failed to bind within the <b>MC</b>'s hydrophobic cavity, resulting in a lower/negligible reaction outcome. The present study represents a facile approach for selective photo-oxidation of xylene isomers to their corresponding toluic acids in an aqueous medium under mild conditions.</p>","PeriodicalId":94060,"journal":{"name":"JACS Au","volume":null,"pages":null},"PeriodicalIF":8.5,"publicationDate":"2024-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11350579/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142116493","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-08-15DOI: 10.1021/jacsau.4c0053910.1021/jacsau.4c00539
Valiyakath Abdul Rinshad, Medha Aggarwal, Jack K. Clegg and Partha Sarathi Mukherjee*,
Molecular hosts with functional cavities can emulate enzymatic behavior through selective encapsulation of substrates, resulting in high chemo-, regio-, and stereoselective product formation. It is still challenging to synthesize enzyme-mimicking hosts that exhibit a narrow substrate scope that relies upon the recognition of substrates based on the molecular size. Herein, we introduce a Pd4 self-assembled water-soluble molecular capsule [M4L2] (MC) that was formed through the self-assembly of a ligand L (4′,4‴′-(1,4-phenylene)bis(1′,4′-dihydro-[4,2′:6′,4″-terpyridine]-3′,5′-dicarbonitrile)) with the acceptor cis-[(en)Pd(NO3)2] [en = ethane-1,2-diamine] (M). The molecular capsule MC showed size-selective recognition towards xylene isomers. The redox property of MC was explored for efficient and selective oxidation of one of the alkyl groups of m-xylene and p-xylene to their corresponding toluic acids using molecular O2 as an oxidant upon photoirradiation. Employing host–guest chemistry, we demonstrate the homogeneous catalysis of alkyl aromatics to the corresponding monocarboxylic acids in water under mild conditions. Despite homogeneous catalysis, the products were separated from the reaction mixtures by simple filtration/extraction, and the catalyst was reused. The larger analogues of the alkyl aromatics failed to bind within the MC’s hydrophobic cavity, resulting in a lower/negligible reaction outcome. The present study represents a facile approach for selective photo-oxidation of xylene isomers to their corresponding toluic acids in an aqueous medium under mild conditions.
具有功能性空腔的分子宿主可以通过选择性地封装底物来模拟酶的行为,从而形成高化学、区域和立体选择性的产物。合成模拟酶的宿主仍具有挑战性,这种宿主的底物范围较窄,需要根据分子大小来识别底物。在此,我们介绍一种 Pd4 自组装水溶性分子胶囊 [M4L2](MC),它是通过配体 L(4′,4‴′-(1,4-亚苯基)双(1′,4′-二氢-[4,2′:6′,4″-terpyridine]-3′,5′-dicarbonitrile)) 与受体 cis-[(en)Pd(NO3)2] [en = 乙烷-1,2-二胺] (M)。分子胶囊 MC 显示出对二甲苯异构体的尺寸选择性识别能力。研究人员利用分子 O2 作为氧化剂,探索了 MC 的氧化还原特性,以便在光照射下将间二甲苯和对二甲苯的一个烷基高效、选择性地氧化为相应的甲苯酸。利用主客体化学,我们展示了在温和条件下,在水中将烷基芳烃均相催化成相应的一元羧酸的过程。尽管是均相催化,但通过简单的过滤/萃取,产物就能从反应混合物中分离出来,催化剂也可重复使用。较大的烷基芳烃类似物未能在 MC 的疏水腔内结合,导致反应结果较低/可忽略不计。本研究代表了一种在温和条件下,在水介质中将二甲苯异构体选择性光氧化成相应甲苯酸的简便方法。
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