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Xiao Y, Xie F, Zhang HT, Zhang MT. Bioinspired Binickel Catalyst for Carbon Dioxide Reduction: The Importance of Metal-ligand Cooperation. JACS AU 2024; 4:1207-1218. [PMID: 38559717 PMCID: PMC10976602 DOI: 10.1021/jacsau.4c00047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/10/2024] [Revised: 02/17/2024] [Accepted: 02/21/2024] [Indexed: 04/04/2024]
Abstract
Catalyst design for the efficient CO2 reduction reaction (CO2RR) remains a crucial challenge for the conversion of CO2 to fuels. Natural Ni-Fe carbon monoxide dehydrogenase (NiFe-CODH) achieves reversible conversion of CO2 and CO at nearly thermodynamic equilibrium potential, which provides a template for developing CO2RR catalysts. However, compared with the natural enzyme, most biomimetic synthetic Ni-Fe complexes exhibit negligible CO2RR catalytic activities, which emphasizes the significance of effective bimetallic cooperation for CO2 activation. Enlightened by bimetallic synergy, we herein report a dinickel complex, NiIINiII(bphpp)(AcO)2 (where NiNi(bphpp) is derived from H2bphpp = 2,9-bis(5-tert-butyl-2-hydroxy-3-pyridylphenyl)-1,10-phenanthroline) for electrocatalytic reduction of CO2 to CO, which exhibits a remarkable reactivity approximately 5 times higher than that of the mononuclear Ni catalyst. Electrochemical and computational studies have revealed that the redox-active phenanthroline moiety effectively modulates the electron injection and transfer akin to the [Fe3S4] cluster in NiFe-CODH, and the secondary Ni site facilitates the C-O bond activation and cleavage through electron mediation and Lewis acid characteristics. Our work underscores the significant role of bimetallic cooperation in CO2 reduction catalysis and provides valuable guidance for the rational design of CO2RR catalysts.
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Affiliation(s)
- Yao Xiao
- Center of Basic Molecular
Science (CBMS), Department of Chemistry, Tsinghua University, Beijing 100084, China
| | - Fei Xie
- Center of Basic Molecular
Science (CBMS), Department of Chemistry, Tsinghua University, Beijing 100084, China
| | - Hong-Tao Zhang
- Center of Basic Molecular
Science (CBMS), Department of Chemistry, Tsinghua University, Beijing 100084, China
| | - Ming-Tian Zhang
- Center of Basic Molecular
Science (CBMS), Department of Chemistry, Tsinghua University, Beijing 100084, China
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Kee CW. Molecular Understanding and Practical In Silico Catalyst Design in Computational Organocatalysis and Phase Transfer Catalysis-Challenges and Opportunities. Molecules 2023; 28:molecules28041715. [PMID: 36838703 PMCID: PMC9966076 DOI: 10.3390/molecules28041715] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 02/03/2023] [Accepted: 02/05/2023] [Indexed: 02/25/2023] Open
Abstract
Through the lens of organocatalysis and phase transfer catalysis, we will examine the key components to calculate or predict catalysis-performance metrics, such as turnover frequency and measurement of stereoselectivity, via computational chemistry. The state-of-the-art tools available to calculate potential energy and, consequently, free energy, together with their caveats, will be discussed via examples from the literature. Through various examples from organocatalysis and phase transfer catalysis, we will highlight the challenges related to the mechanism, transition state theory, and solvation involved in translating calculated barriers to the turnover frequency or a metric of stereoselectivity. Examples in the literature that validated their theoretical models will be showcased. Lastly, the relevance and opportunity afforded by machine learning will be discussed.
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Affiliation(s)
- Choon Wee Kee
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 1 Pesek Road, Jurong Island, Singapore 627833, Republic of Singapore
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3
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Cohen M, Vlachos DG. Modified Energy Span Analysis of Catalytic Parallel Pathways and Selectivity. Ind Eng Chem Res 2022. [DOI: 10.1021/acs.iecr.2c01991] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Maximilian Cohen
- Department of Chemical and Biomolecular Engineering, University of Delaware, 150 Academy Street, Newark, Delaware 19716, United States
| | - Dionisios G. Vlachos
- Department of Chemical and Biomolecular Engineering, University of Delaware, 150 Academy Street, Newark, Delaware 19716, United States
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4
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Garay-Ruiz D, Bo C. Chemical reaction network knowledge graphs: the OntoRXN ontology. J Cheminform 2022; 14:29. [PMID: 35637523 PMCID: PMC9153116 DOI: 10.1186/s13321-022-00610-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Accepted: 05/11/2022] [Indexed: 11/10/2022] Open
Abstract
Abstract The organization and management of large amounts of data has become a major point in almost all areas of human knowledge. In this context, semantic approaches propose a structure for the target data, defining ontologies that state the types of entities on a certain field and how these entities are interrelated. In this work, we introduce OntoRXN, a novel ontology describing the reaction networks constructed from computational chemistry calculations. Under our paradigm, these networks are handled as undirected graphs, without assuming any traversal direction. From there, we propose a core class structure including reaction steps, network stages, chemical species, and the lower-level entities for the individual computational calculations. These individual calculations are founded on the OntoCompChem ontology and on the ioChem-BD database, where information is parsed and stored in CML format. OntoRXN is introduced through several examples in which knowledge graphs based on the ontology are generated for different chemical systems available on ioChem-BD. Finally, the resulting knowledge graphs are explored through SPARQL queries, illustrating the power of the semantic approach to standardize the analysis of intricate datasets and to simplify the development of complex workflows. Graphical Abstract ![]()
Supplementary Information The online version contains supplementary material available at 10.1186/s13321-022-00610-x.
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Affiliation(s)
- Diego Garay-Ruiz
- Institute of Chemical Research of Catalonia (ICIQ), The Barcelona Institute of Science and Technology, Av. Països Catalans 16, 43007, Tarragona, Spain.,Departament de Química Física i Inorgànica, Universitat Rovira i Virgili, Marcel . lí Domingo s/n, 43007, Tarragona, Spain
| | - Carles Bo
- Institute of Chemical Research of Catalonia (ICIQ), The Barcelona Institute of Science and Technology, Av. Països Catalans 16, 43007, Tarragona, Spain. .,Departament de Química Física i Inorgànica, Universitat Rovira i Virgili, Marcel . lí Domingo s/n, 43007, Tarragona, Spain.
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Ramos VM, de Oliveira-Filho AGS, de Lima Batista AP. Homogeneous Catalytic CO 2 Hydrogenation by [Fe]-Hydrogenase Bioinspired Complexes: A Computational Study. J Phys Chem A 2022; 126:2082-2090. [PMID: 35345882 DOI: 10.1021/acs.jpca.1c09761] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Computational modeling at the DLPNO-CCSD(T)/CBS//M06-L/def2-TZVP level of theory was used to propose four different iron catalysts whose structures were inspired on the [Fe]-hydrogenase active site: [Fe(MePNNHNP)(acmp)] (C(1), MePNNHNP = 2,6-bis(dimethylphosphine), acmp = acylmethylpyridine), [Fe(CNNHNC)(acmp)] (C(2), CNNHNC = 2,6-bis(methylimidazol-2-ylidene)), [Fe(MePNNNP)(acmp)] (D(1), MePNNNP = 2,6-bis((dimethylphosphine)pyridine)), and [Fe(CNNNC)(acmp)] (D(2), CNNNC = 2,6-bis((methylimidazol-2-ylidene) pyridine)). Through these electronic structure calculations, the catalytic mechanism of the reaction was explored. The intermediates and transition states present along the reaction coordinate were identified and described as to their equilibrium geometries, vibrational frequencies, and energies. Quasi-harmonic corrections were performed considering conditions analogous to those used experimentally. To compare the catalytic activities of the studied catalysts, turnover frequencies (TOFs) were calculated. Based on the explored catalytic cycles and TOF values (D(1) > C(1) > D(2) > C(2)), the most suitable iron catalysts are those with tridentate phosphine pincer-type ligands coordinated to the metal center. These systems are new promising iron catalysts to promote the CO2 hydrogenation to formic acid without any use of bases or additives.
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Affiliation(s)
- Vania M Ramos
- Departamento de Química, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, 14040-901 Ribeirão Preto, São Paulo, Brazil
| | - Antonio G S de Oliveira-Filho
- Departamento de Química, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, 14040-901 Ribeirão Preto, São Paulo, Brazil
| | - Ana Paula de Lima Batista
- Departamento de Química, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, 14040-901 Ribeirão Preto, São Paulo, Brazil
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Cohen M, Vlachos DG. Modified Energy Span Analysis Reveals Heterogeneous Catalytic Kinetics. Ind Eng Chem Res 2022. [DOI: 10.1021/acs.iecr.2c00390] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Maximilian Cohen
- Department of Chemical and Biomolecular Engineering, University of Delaware, 150 Academy St., Newark, Delaware 19716, United States
| | - Dionisios G. Vlachos
- Department of Chemical and Biomolecular Engineering, University of Delaware, 150 Academy St., Newark, Delaware 19716, United States
- Catalysis Center for Energy Innovation, University of Delaware, 221 Academy St., Newark, Delaware 19711, United States
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Boje A, Taifan WE, Ström H, Bučko T, Baltrusaitis J, Hellman A. First-principles-informed energy span and microkinetic analysis of ethanol catalytic conversion to 1,3-butadiene on MgO. Catal Sci Technol 2021. [DOI: 10.1039/d1cy00419k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
First-principles-informed models elucidate the impact of energetic and kinetic limitations on selectivity and activity of ethanol conversion to 1,3-butadiene.
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Affiliation(s)
- Astrid Boje
- Department of Physics, Chalmers University of Technology, 412 96 Göteborg, Sweden
| | - William E. Taifan
- Department of Chemical and Biomolecular Engineering, Lehigh University, B336 Iacocca Hall, 111 Research Drive, Bethlehem, PA 18015, USA
| | - Henrik Ström
- Department of Mechanics and Maritime Sciences, Chalmers University of Technology, 412 96 Göteborg, Sweden
| | - Tomáš Bučko
- Department of Physical and Theoretical Chemistry, Faculty of Natural Sciences, Comenius University in Bratislava, Ilkovičova 6, SK-84215, Bratislava, Slovak Republic
- Institute of Inorganic Chemistry, Slovak Academy of Sciences, Dúbravská cesta 9, SK-84236 Bratislava, Slovak Republic
| | - Jonas Baltrusaitis
- Department of Chemical and Biomolecular Engineering, Lehigh University, B336 Iacocca Hall, 111 Research Drive, Bethlehem, PA 18015, USA
| | - Anders Hellman
- Department of Physics, Chalmers University of Technology, 412 96 Göteborg, Sweden
- Competence Centre for Catalysis, Chalmers University of Technology, 412 96 Göteborg, Sweden
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