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Wang Q, Li H, Bujupi U, Gröning J, Stolz A, Bongiorno A, Gupta R. Oxygen Activation in Aromatic Ring Cleaving Salicylate Dioxygenase: Detection of Reaction Intermediates with a Nitro-substituted Substrate Analog. Chembiochem 2024; 25:e202400023. [PMID: 38363551 DOI: 10.1002/cbic.202400023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Revised: 02/15/2024] [Accepted: 02/16/2024] [Indexed: 02/17/2024]
Abstract
Cupin dioxygenases such as salicylate 1,2-dioxygense (SDO) perform aromatic C-C bond scission via a 3-His motif tethered iron cofactor. Here, transient kinetics measurements are used to monitor the catalytic cycle of SDO by using a nitro-substituted substrate analog, 3-nitrogentisate. Compared to the natural substrate, the nitro group reduces the enzymatic kcat by 500-fold, thereby facilitating the detection and kinetic characterization of reaction intermediates. Sums and products of reciprocal relaxation times derived from kinetic measurements were found to be linearly dependent on O2 concentration, suggesting reversible formation of two distinct intermediates. Dioxygen binding to the metal cofactor takes place with a forward rate of 5.9×103 M-1 s-1: two orders of magnitude slower than other comparable ring-cleaving dioxygenses. Optical chromophore of the first intermediate is distinct from the in situ generated SDO Fe(III)-O2⋅- complex but closer to the enzyme-substrate precursor.
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Affiliation(s)
- Qian Wang
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Blvd. Staten Island, New York, 10314, United States
| | - Hanbin Li
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Blvd. Staten Island, New York, 10314, United States
- Ph.D. Programs in Chemistry and Physics, The Graduate Center of the City University of New York, New York, 10016, United States
| | - Uran Bujupi
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Blvd. Staten Island, New York, 10314, United States
| | - Janosch Gröning
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70569, Stuttgart, Germany
| | - Andreas Stolz
- Institut für Mikrobiologie, Universität Stuttgart, Allmandring 31, 70569, Stuttgart, Germany
| | - Angelo Bongiorno
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Blvd. Staten Island, New York, 10314, United States
- Ph.D. Programs in Chemistry and Physics, The Graduate Center of the City University of New York, New York, 10016, United States
| | - Rupal Gupta
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Blvd. Staten Island, New York, 10314, United States
- Ph.D. Programs in Biochemistry, The Graduate Center of the City University of New York, New York, 10016, United States
- Ph.D. Programs in Chemistry and Physics, The Graduate Center of the City University of New York, New York, 10016, United States
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Amrutha K, Kathirvelu V. Interpretation of EPR and optical spectra of Ni(II) ions in crystalline lattices at ambient temperature. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2022; 60:414-421. [PMID: 34859492 DOI: 10.1002/mrc.5237] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Revised: 11/24/2021] [Accepted: 11/25/2021] [Indexed: 06/13/2023]
Abstract
Many biologically important paramagnetic metal ions are characterized by electron paramagnetic resonance (EPR) spectroscopy to use as spin probes to investigate the structure and function of biomolecules. Though nickel(II) ions are an essential trace element and part of many biomolecules, the EPR properties are least understood. Herein, the EPR and optical absorption spectra measured at 300 K for Ni(II) ions diluted in two different diamagnetic hosts are investigated and reported. The EPR spectrum of a polycrystalline Ni/Mg(3-methylpyrazole)6 (ClO4 )2 [Ni/MMPC] shows two transitions at X-band frequency (~9.5 GHz), suggesting the zero-field splitting parameter (D) is larger than the resonance field of the free electron (Ho ). This incomplete and complex spectrum is successfully analyzed to obtain EPR parameters. The EPR spectrum of the polycrystalline Ni/Zn(pyrazole)6 (NO3 )2 [Ni/ZPN] shows a triplet spectrum indicating D < Ho . A detailed analysis of single-crystal EPR data yielded the spin Hamiltonian parameters. The optical absorption spectra are deconvoluted to understand the symmetry of the coordination environment in the complex.
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Affiliation(s)
- Kamalon Amrutha
- Department of Applied Sciences, National Institute of Technology Goa, Ponda, India
| | - Velavan Kathirvelu
- Department of Applied Sciences, National Institute of Technology Goa, Ponda, India
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Lin K, Han S, Zheng S. Application of Corynebacterium glutamicum engineering display system in three generations of biorefinery. Microb Cell Fact 2022; 21:14. [PMID: 35090458 PMCID: PMC8796525 DOI: 10.1186/s12934-022-01741-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 01/09/2022] [Indexed: 11/29/2022] Open
Abstract
The fermentation production of platform chemicals in biorefineries is a sustainable alternative to the current petroleum refining process. The natural advantages of Corynebacterium glutamicum in carbon metabolism have led to C. glutamicum being used as a microbial cell factory that can use various biomass to produce value-added platform chemicals and polymers. In this review, we discussed the use of C. glutamicum surface display engineering bacteria in the three generations of biorefinery resources, and analyzed the C. glutamicum engineering display system in degradation, transport, and metabolic network reconstruction models. These engineering modifications show that the C. glutamicum engineering display system has great potential to become a cell refining factory based on sustainable biomass, and further optimizes the inherent properties of C. glutamicum as a whole-cell biocatalyst. This review will also provide a reference for the direction of future engineering transformation.
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Affiliation(s)
- Kerui Lin
- Guangdong Key Laboratory of Fermentation and Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China.,Guangdong Research Center of Industrial Enzyme and Green Manufacturing Technology, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China
| | - Shuangyan Han
- Guangdong Key Laboratory of Fermentation and Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China.,Guangdong Research Center of Industrial Enzyme and Green Manufacturing Technology, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China
| | - Suiping Zheng
- Guangdong Key Laboratory of Fermentation and Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China. .,Guangdong Research Center of Industrial Enzyme and Green Manufacturing Technology, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, 510006, People's Republic of China.
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