51
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Affiliation(s)
- Yujie Liang
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Xue Yuan Road 38, Beijing 100191, China
| | - Jialiang Wei
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Xue Yuan Road 38, Beijing 100191, China
| | - Xu Qiu
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Xue Yuan Road 38, Beijing 100191, China
| | - Ning Jiao
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University, Xue Yuan Road 38, Beijing 100191, China
- State Key Laboratory of Organometallic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
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52
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Giuntoli B, Perata P. Group VII Ethylene Response Factors in Arabidopsis: Regulation and Physiological Roles. PLANT PHYSIOLOGY 2018; 176:1143-1155. [PMID: 29269576 PMCID: PMC5813551 DOI: 10.1104/pp.17.01225] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2017] [Accepted: 12/19/2017] [Indexed: 05/19/2023]
Abstract
The role of ERF-VII TFs in higher plants is to coordinate their signature response to oxygen deficiency, but additional layers of modulation of ERF-VII activity enrich their regulatory range.
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Affiliation(s)
- Beatrice Giuntoli
- Plantlab, Institute of Life Sciences, Scuola superiore Sant'Anna, Via Guidiccioni 8/10, 56017 Pisa, Italy
- Department of Biology, University of Pisa, Via Ghini 13, 56126 Pisa, Italy
| | - Pierdomenico Perata
- Plantlab, Institute of Life Sciences, Scuola superiore Sant'Anna, Via Guidiccioni 8/10, 56017 Pisa, Italy
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53
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Xu S, Veach JJ, Oloo WN, Peters KC, Wang J, Perry RH, Que L. Detection of a transient FeV(O)(OH) species involved in olefin oxidation by a bio-inspired non-haem iron catalyst. Chem Commun (Camb) 2018; 54:8701-8704. [PMID: 30028454 DOI: 10.1039/c8cc03990a] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Here we provide direct evidence for the formation of an FeV(O)(OH) species in non-haem iron catalysis using ambient mass spectrometry.
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Affiliation(s)
- Shuangning Xu
- Department of Chemistry and Center for Metals in Biocatalysis
- University of Minnesota
- Minneapolis
- USA
| | | | - Williamson N. Oloo
- Department of Chemistry and Center for Metals in Biocatalysis
- University of Minnesota
- Minneapolis
- USA
| | | | - Junyi Wang
- Department of Chemistry and Center for Metals in Biocatalysis
- University of Minnesota
- Minneapolis
- USA
| | - Richard H. Perry
- Department of Chemistry
- University of Illinois
- Urbana
- USA
- Department of Chemistry and Physics
| | - Lawrence Que
- Department of Chemistry and Center for Metals in Biocatalysis
- University of Minnesota
- Minneapolis
- USA
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54
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McNeill LA, Brown TJN, Sami M, Clifton IJ, Burzlaff NI, Claridge TDW, Adlington RM, Baldwin JE, Rutledge PJ, Schofield CJ. Terminally Truncated Isopenicillin N Synthase Generates a Dithioester Product: Evidence for a Thioaldehyde Intermediate during Catalysis and a New Mode of Reaction for Non-Heme Iron Oxidases. Chemistry 2017; 23:12815-12824. [PMID: 28703303 PMCID: PMC5637899 DOI: 10.1002/chem.201701592] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Indexed: 11/25/2022]
Abstract
Isopenicillin N synthase (IPNS) catalyses the four-electron oxidation of a tripeptide, l-δ-(α-aminoadipoyl)-l-cysteinyl-d-valine (ACV), to give isopenicillin N (IPN), the first-formed β-lactam in penicillin and cephalosporin biosynthesis. IPNS catalysis is dependent upon an iron(II) cofactor and oxygen as a co-substrate. In the absence of substrate, the carbonyl oxygen of the side-chain amide of the penultimate residue, Gln330, co-ordinates to the active-site metal iron. Substrate binding ablates the interaction between Gln330 and the metal, triggering rearrangement of seven C-terminal residues, which move to take up a conformation that extends the final α-helix and encloses ACV in the active site. Mutagenesis studies are reported, which probe the role of the C-terminal and other aspects of the substrate binding pocket in IPNS. The hydrophobic nature of amino acid side-chains around the ACV binding pocket is important in catalysis. Deletion of seven C-terminal residues exposes the active site and leads to formation of a new type of thiol oxidation product. The isolated product is shown by LC-MS and NMR analyses to be the ene-thiol tautomer of a dithioester, made up from two molecules of ACV linked between the thiol sulfur of one tripeptide and the oxidised cysteinyl β-carbon of the other. A mechanism for its formation is proposed, supported by an X-ray crystal structure, which shows the substrate ACV bound at the active site, its cysteinyl β-carbon exposed to attack by a second molecule of substrate, adjacent. Formation of this product constitutes a new mode of reaction for IPNS and non-heme iron oxidases in general.
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Affiliation(s)
- Luke A. McNeill
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
- Present Address: Oxford Nanopore Technologies, Oxford Science ParkOX4 4GAUK
| | - Toby J. N. Brown
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
- Present Address: The Brattle GroupLevel 15 5 Martin PlaceSydney, NSW2000Australia
| | - Malkit Sami
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
- Present Address: Immunocore Limited101 Park Drive, Milton ParkAbingdonOX14 4RYUK
| | - Ian J. Clifton
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
| | - Nicolai I. Burzlaff
- Department of Chemistry and PharmacyUniversity of Erlangen-NurembergEgerlandstraße 191058ErlangenGermany
| | - Timothy D. W. Claridge
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
| | - Robert M. Adlington
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
| | - Jack E. Baldwin
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
| | | | - Christopher J. Schofield
- Oxford Centre for Molecular Sciences and the Department of ChemistryChemistry Research LaboratoryMansfield RoadOxfordOX1 3TAUK
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55
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Mbenza NM, Vadakkedath PG, McGillivray DJ, Leung IKH. NMR studies of the non-haem Fe(II) and 2-oxoglutarate-dependent oxygenases. J Inorg Biochem 2017; 177:384-394. [PMID: 28893416 DOI: 10.1016/j.jinorgbio.2017.08.032] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2017] [Revised: 08/21/2017] [Accepted: 08/30/2017] [Indexed: 01/13/2023]
Abstract
The non-haem Fe(II) and 2-oxoglutarate (2OG)-dependent oxygenases belong to a superfamily of structurally-related enzymes that play important biological roles in plants, microorganisms and animals. Structural, mechanistic and functional studies of 2OG oxygenases require efficient and effective biophysical tools. Nuclear magnetic resonance (NMR) spectroscopy is a useful tool to study this enzyme superfamily. It has been applied to obtain information about enzyme kinetics, identify and characterise 2OG oxygenase-catalysed oxidation products, elucidate the catalytic mechanism, monitor ligand binding and study protein dynamics. This review summarises the types of information that NMR spectroscopy can provide in the studies of 2OG oxygenases, highlights the advantages of the technique and describes its drawbacks.
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Affiliation(s)
- Naasson M Mbenza
- School of Chemical Sciences, The University of Auckland, Private Bag 92019, Victoria Street West, Auckland 1142, New Zealand
| | - Praveen G Vadakkedath
- School of Chemical Sciences, The University of Auckland, Private Bag 92019, Victoria Street West, Auckland 1142, New Zealand.; MacDiarmid Institute for Advanced Materials and Nanotechnology, PO Box 600, Wellington 6140, New Zealand
| | - Duncan J McGillivray
- School of Chemical Sciences, The University of Auckland, Private Bag 92019, Victoria Street West, Auckland 1142, New Zealand.; MacDiarmid Institute for Advanced Materials and Nanotechnology, PO Box 600, Wellington 6140, New Zealand
| | - Ivanhoe K H Leung
- School of Chemical Sciences, The University of Auckland, Private Bag 92019, Victoria Street West, Auckland 1142, New Zealand..
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56
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Sun X, Li Y, He W, Ji C, Xia P, Wang Y, Du S, Li H, Raikhel N, Xiao J, Guo H. Pyrazinamide and derivatives block ethylene biosynthesis by inhibiting ACC oxidase. Nat Commun 2017; 8:15758. [PMID: 28604689 PMCID: PMC5472784 DOI: 10.1038/ncomms15758] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Accepted: 04/25/2017] [Indexed: 12/30/2022] Open
Abstract
Ethylene is an important phytohormone that promotes the ripening of fruits and senescence of flowers thereby reducing their shelf lives. Specific ethylene biosynthesis inhibitors would help to decrease postharvest loss. Here, we identify pyrazinamide (PZA), a clinical drug used to treat tuberculosis, as an inhibitor of ethylene biosynthesis in Arabidopsis thaliana, using a chemical genetics approach. PZA is converted to pyrazinecarboxylic acid (POA) in plant cells, suppressing the activity of 1-aminocyclopropane-1-carboxylic acid oxidase (ACO), the enzyme catalysing the final step of ethylene formation. The crystal structures of Arabidopsis ACO2 in complex with POA or 2-Picolinic Acid (2-PA), a POA-related compound, reveal that POA/2-PA bind at the active site of ACO, preventing the enzyme from interacting with its natural substrates. Our work suggests that PZA and its derivatives may be promising regulators of plant metabolism, in particular ethylene biosynthesis.
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Affiliation(s)
- Xiangzhong Sun
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China.,Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China.,Peking-Tsinghua Center for Life Sciences, Beijing 100871, China.,Department of Biology, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China
| | - Yaxin Li
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China
| | - Wenrong He
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China.,Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, California 92507, USA
| | - Chenggong Ji
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China
| | - Peixue Xia
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China.,Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China.,Peking-Tsinghua Center for Life Sciences, Beijing 100871, China
| | - Yichuan Wang
- Department of Biology, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China
| | - Shuo Du
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China
| | - Hongjiang Li
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China.,Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, California 92507, USA
| | - Natasha Raikhel
- Center for Plant Cell Biology, Department of Botany and Plant Sciences, University of California, Riverside, California 92507, USA
| | - Junyu Xiao
- The State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China.,Peking-Tsinghua Center for Life Sciences, Beijing 100871, China
| | - Hongwei Guo
- Peking-Tsinghua Center for Life Sciences, Beijing 100871, China.,Department of Biology, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China
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58
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Kal S, Que L. Dioxygen activation by nonheme iron enzymes with the 2-His-1-carboxylate facial triad that generate high-valent oxoiron oxidants. J Biol Inorg Chem 2017; 22:339-365. [PMID: 28074299 DOI: 10.1007/s00775-016-1431-2] [Citation(s) in RCA: 159] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2016] [Accepted: 12/13/2016] [Indexed: 11/24/2022]
Abstract
The 2-His-1-carboxylate facial triad is a widely used scaffold to bind the iron center in mononuclear nonheme iron enzymes for activating dioxygen in a variety of oxidative transformations of metabolic significance. Since the 1990s, over a hundred different iron enzymes have been identified to use this platform. This structural motif consists of two histidines and the side chain carboxylate of an aspartate or a glutamate arranged in a facial array that binds iron(II) at the active site. This triad occupies one face of an iron-centered octahedron and makes the opposite face available for the coordination of O2 and, in many cases, substrate, allowing the tailoring of the iron-dioxygen chemistry to carry out a plethora of diverse reactions. Activated dioxygen-derived species involved in the enzyme mechanisms include iron(III)-superoxo, iron(III)-peroxo, and high-valent iron(IV)-oxo intermediates. In this article, we highlight the major crystallographic, spectroscopic, and mechanistic advances of the past 20 years that have significantly enhanced our understanding of the mechanisms of O2 activation and the key roles played by iron-based oxidants.
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Affiliation(s)
- Subhasree Kal
- Department of Chemistry, Center for Metals in Biocatalysis, University of Minnesota, Minneapolis, MN, 55455, USA
| | - Lawrence Que
- Department of Chemistry, Center for Metals in Biocatalysis, University of Minnesota, Minneapolis, MN, 55455, USA.
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59
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Liu Y, Tu N, Xie W, Li Y. Theoretical investigation on proton transfer mechanism of extradiol dioxygenase. RSC Adv 2017. [DOI: 10.1039/c7ra08080h] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The formation mechanism of alkyl(hydro)peroxo species is performed via two parallel pathways.
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Affiliation(s)
- Yang Liu
- State Key Laboratory of Pulp and Paper Engineering
- South China University of Technology
- Guangzhou 510640
- P. R. China
- Faculty of Environmental & Biological Engineering
| | - Ningyu Tu
- Faculty of Environmental & Biological Engineering
- Guangdong University of Petrochemical Technology
- Maoming 525000
- P. R. China
| | - Wenyu Xie
- Faculty of Environmental & Biological Engineering
- Guangdong University of Petrochemical Technology
- Maoming 525000
- P. R. China
| | - Youming Li
- State Key Laboratory of Pulp and Paper Engineering
- South China University of Technology
- Guangzhou 510640
- P. R. China
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