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Meng F, Mi P, Yu Z, Wei W, Gao L, Ren J, Li Z, Dai H. Design, synthesis and biological evaluation of 5‑substituted sulfonylureas as novel antifungal agents targeting acetohydroxyacid synthase. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.132756] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Lamberth C. Organic Isocyanates and Isothiocyanates: Versatile Intermediates in Agrochemistry. SYNTHESIS-STUTTGART 2022. [DOI: 10.1055/a-1678-8528] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
AbstractIn recent decades, organic isocyanates and isothiocyanates have been often applied as reactive intermediates in research syntheses or manufacturing routes of many agrochemicals. These heterocumulenes allowed the installation of crucial carboxylic functions, such as carbamates, ureas, and semicarbazones, but have also been used for the construction of five- and six-membered heterocycles, such as tetrazolones, thiazoles, and uracils.1 Introduction2 Preparation of Carboxylic Acid Functions3 Preparation of Heterocyclic Rings4 Conclusion
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Xuan G, Li W, Pei J, Chen Y. Synthesis and Biological Activity Evaluation of Imidazole Heterocyclic Sulfonylurea Compounds. HETEROCYCLES 2021. [DOI: 10.3987/com-21-14474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Xie Y, Wen X, Zhao D, Niu C, Zhao Y, Qi H, Xi Z. Interactions between the ACT Domains and Catalytic Subunits of Acetohydroxyacid Synthases (AHASs) from Different Species. Chembiochem 2018; 19:2387-2394. [DOI: 10.1002/cbic.201800367] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2018] [Revised: 09/16/2018] [Indexed: 01/05/2023]
Affiliation(s)
- Yonghui Xie
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Xin Wen
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Dongmei Zhao
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Congwei Niu
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Yuefang Zhao
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Haoman Qi
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
| | - Zhen Xi
- State Key Laboratory of Elemento-Organic Chemistry; Department of Chemical Biology; National Pesticide Engineering Research Center (Tianjin); Collaborative Innovation Center of Chemical Science and Engineering (Tianjin); College of Chemistry; Nankai University; Tianjin 300071 P.R. China
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Samghani K, HosseinFatemi M. Developing a support vector machine based QSPR model for prediction of half-life of some herbicides. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2016; 129:10-15. [PMID: 26970881 DOI: 10.1016/j.ecoenv.2016.03.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Revised: 02/28/2016] [Accepted: 03/03/2016] [Indexed: 06/05/2023]
Abstract
The half-life (t1/2) of 58 herbicides were modeled by quantitative structure-property relationship (QSPR) based molecular structure descriptors. After calculation and the screening of a large number of molecular descriptors, the most relevant those ones selected by stepwise multiple linear regression were used for developing linear and nonlinear models which developed by using multiple linear regression and support vector machine, respectively. Comparison between statistical parameters of linear and nonlinear models indicates the suitability of SVM over MLR model for predicting the half-life of herbicides. The statistical parameters of R(2) and standard error for training set of SVM model were; 0.96 and 0.087, respectively, and were 0.93 and 0.092 for the test set. The SVM model was evaluated by leave one out cross validation test, which its result indicates the robustness and predictability of the model. The established SVM model was used for predicting the half-life of other herbicides that are located in the applicability domain of model that were determined via leverage approach. The results of this study indicate that the relationship among selected molecular descriptors and herbicide's half-life is non-linear. These results emphases that the process of degradation of herbicides in the environment is very complex and can be affected by various environmental and structural features, therefore simple linear model cannot be able to successfully predict it.
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Affiliation(s)
- Kobra Samghani
- Chemometrics Laboratory, Faculty of Chemistry, University of Mazandaran, Babolsar, Iran
| | - Mohammad HosseinFatemi
- Chemometrics Laboratory, Faculty of Chemistry, University of Mazandaran, Babolsar, Iran.
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Xia S, Feng Y, Cheng JG, Luo HB, Li Z, Li ZM. QAAR exploration on pesticides with high solubility: An investigation on sulfonylurea herbicide dimers formed through π–π stacking interactions. CHINESE CHEM LETT 2014. [DOI: 10.1016/j.cclet.2014.05.046] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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Łozowicka B, Kaczyński P, Magdziarz T, Dubis AT. Synthesis, antifeedant activity against Coleoptera and 3D QSAR study of alpha-asarone derivatives. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2014; 25:173-188. [PMID: 24601760 DOI: 10.1080/1062936x.2013.875061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
For the first time, a set of 56 compounds representing structural derivatives of naturally occurring alpha-asarone as an antifeedants against stored product pests Sitophilus granarius L., Trogoderma granarium Ev., and Tribolium confusum Duv., were subjected to the 3D QSAR studies. Three-dimensional quantitative structure-activity relationships (3D-QSAR) for 56 compounds, including 15 newly synthesized, were performed using comparative molecular field analysis s-CoMFA and SOM-CoMSA techniques. QSAR was conducted based on a combination of biological activity (against Coleoptera larvae and beetles) and various geometrical, topological, quantum-mechanical, electronic, and chromatographic descriptors. The CoMSA formalism coupled with IVE (CoMSA-IVE) allowed us to obtain highly predictive models for Trogoderma granarium Ev. larvae. We have found that this novel method indicates a clear molecular basis for activity and lipophilicity. This investigation will facilitate optimization of the design of new potential antifeedants.
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Affiliation(s)
- B Łozowicka
- a Institute of Plant Protection - National Research Institute , Bialystok , Poland
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He Y, Niu C, Wen X, Xi Z. Molecular Drug Resistance Prediction for Acetohydroxyacid Synthase Mutants Against Chlorsulfuron Using MB-QSAR. CHINESE J CHEM 2013. [DOI: 10.1002/cjoc.201300417] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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9
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Kumar M, Mallikarjunaswamy C, Sridhar MA, Bhadregowda DG, Kapoor K, Gupta VK, Kant R. 5-Bromo-2-chloropyrimidin-4-amine. Acta Crystallogr Sect E Struct Rep Online 2013; 69:o583. [PMID: 23634115 PMCID: PMC3629628 DOI: 10.1107/s1600536813007228] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Accepted: 03/16/2013] [Indexed: 11/10/2022]
Abstract
In the title compound, C4H3BrClN3, the pyrimidine ring is essentially planar (r.m.s. deviation from the plane = 0.087 Å). In the crystal, pairs of N—H⋯N hydrogen bonds connect the molecules into inversion dimers; these are connected by further N—H⋯N hydrogen bonds into a two-dimensional framework parallel to the bc plane.
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Zhao Y, Niu C, Wen X, Xi Z. The minimum activation peptide from ilvH can activate the catalytic subunit of AHAS from different species. Chembiochem 2013; 14:746-52. [PMID: 23512804 DOI: 10.1002/cbic.201200680] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2012] [Indexed: 11/10/2022]
Abstract
Acetohydroxyacid synthases (AHASs), which catalyze the first step in the biosynthesis of branched-chain amino acids, are composed of a catalytic subunit (CSU) and a regulatory subunit (RSU). The CSU harbors the catalytic site, and the RSU is responsible for the activation and feedback regulation of the CSU. Previous results from Chipman and co-workers and our lab have shown that heterologous activation can be achieved among isozymes of Escherichia coli AHAS. It would be interesting to find the minimum peptide of ilvH (the RSU of E. coli AHAS III) that could activate other E. coli CSUs, or even those of ## species. In this paper, C-terminal, N-terminal, and C- and N-terminal truncation mutants of ilvH were constructed. The minimum peptide to activate ilvI (the CSU of E. coli AHAS III) was found to be ΔN 14-ΔC 89. Moreover, this peptide could not only activate its homologous ilvI and heterologous ilvB (CSU of E. coli AHAS I), but also heterologously activate the CSUs of AHAS from Saccharomyces cerevisiae, Arabidopsis thaliana, and Nicotiana plumbaginifolia. However, this peptide totally lost its ability for feedback regulation by valine, thus suggesting different elements for enzymatic activation and feedback regulation. Additionally, the apparent dissociation constant (Kd ) of ΔN 14-ΔC 89 when binding CSUs of different species was found to be 9.3-66.5 μM by using microscale thermophoresis. The ability of this peptide to activate different CSUs does not correlate well with its binding ability (Kd ) to these CSUs, thus implying that key interactions by specific residues is more important than binding ability in promoting enzymatic reactions. The high sequence similarity of the peptide ΔN 14-ΔC 89 to RSUs across species hints that this peptide represents the minimum activation motif in RSU and that it regulates all AHASs.
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Affiliation(s)
- Yuefang Zhao
- Department of Chemical Biology and State Key Laboratory of Elemento-organic Chemistry, Nankai University, Weijin 94, Tianjin 300071, China
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He Y, Niu C, Wen X, Xi Z. Biomacromolecular 3D-QSAR to Decipher Molecular Herbicide Resistance in Acetohydroxyacid Synthases. Mol Inform 2013; 32:139-44. [PMID: 27481275 DOI: 10.1002/minf.201200144] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2012] [Accepted: 01/05/2013] [Indexed: 11/06/2022]
Affiliation(s)
- Yinwu He
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, Nankai University, NO 94, Weijin Road, Tianjin, 300071, P. R. China fax: (+86) 022-23504782
| | - Congwei Niu
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, Nankai University, NO 94, Weijin Road, Tianjin, 300071, P. R. China fax: (+86) 022-23504782
| | - Xin Wen
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, Nankai University, NO 94, Weijin Road, Tianjin, 300071, P. R. China fax: (+86) 022-23504782
| | - Zhen Xi
- State Key Laboratory of Elemento-Organic Chemistry and Department of Chemical Biology, Nankai University, NO 94, Weijin Road, Tianjin, 300071, P. R. China fax: (+86) 022-23504782.
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He Y, Niu C, Li H, Wen X, Xi Z. Experimental and computational correlation and prediction on herbicide resistance for acetohydroxyacid synthase mutants to Bispyribac. Sci China Chem 2013. [DOI: 10.1007/s11426-013-4841-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Zhao Y, Wen X, Niu C, Xi Z. Arginine 26 and Aspartic Acid 69 of the Regulatory Subunit are Key Residues of Subunits Interaction of Acetohydroxyacid Synthase Isozyme III fromE. coli. Chembiochem 2012; 13:2445-54. [DOI: 10.1002/cbic.201200362] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2012] [Indexed: 11/08/2022]
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Clark RD. A perspective on the role of quantitative structure-activity and structure-property relationships in herbicide discovery. PEST MANAGEMENT SCIENCE 2012; 68:513-8. [PMID: 22323389 DOI: 10.1002/ps.3256] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2011] [Revised: 11/13/2011] [Accepted: 12/20/2011] [Indexed: 05/26/2023]
Abstract
BACKGROUND For the last 15 years the agrochemical industry has focused on using genetic modification to put genes that confer resistance to existing commercial herbicides into crop plants rather than on discovering new herbicides with novel modes of action. The widespread appearance of weeds resistant to those herbicides is now causing the industry to revive their herbicide discovery programs. RESULTS Elucidation of quantitative structure-activity relationships (QSARs) played a major role in the discovery and development of existing commercial herbicides, but the advent of genetically modified crops has caused published work (at least) in the area to drift from the industrial arena into academic studies. The focus has also turned inward, to refining models for established herbicide targets instead of elucidating new ones. CONCLUSION This perspective highlights the importance of QSARs and quantitative structure-property relationships (QSPRs) to herbicide discovery in an historical context and provides some guidance as to how they might profitably be applied going forward.
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Yang Q, Xu N, Zhu K, Lv X, Han PF. 5-Bromo-N-methyl-pyrimidin-2-amine. Acta Crystallogr Sect E Struct Rep Online 2012; 68:o111. [PMID: 22259398 PMCID: PMC3254458 DOI: 10.1107/s1600536811051531] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2011] [Accepted: 11/30/2011] [Indexed: 11/10/2022]
Abstract
In the title mol-ecule, C(5)H(6)BrN(3), the pyrimidine ring is essentially planar, with an r.m.s. deviation of 0.007 Å. The Br and N atoms substituted to the pyrimidine ring are coplanar with the ring [displacements = 0.032 (1) and 0.009 (5) Å, respectively], while the methyl C atom lies 0.100 (15) Å from this plane with a dihedral angle between the pyrimidine ring and the methyl-amine group of 4.5 (3)°. In the crystal, C-H⋯N, C-H⋯Br and N-H⋯N hydrogen bonds link the mol-ecules into a two-dimensional network in the (011) plane.
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Jaña G, Jiménez V, Villà-Freixa J, Prat-Resina X, Delgado E, Alderete J. Computational study on the carboligation reaction of acetohidroxyacid synthase: new approach on the role of the HEThDP- intermediate. Proteins 2010; 78:1774-88. [PMID: 20225259 DOI: 10.1002/prot.22693] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Acetohydroxyacid synthase (AHAS) is a thiamin diphosphate dependent enzyme that catalyses the decarboxylation of pyruvate to yield the hydroxyethyl-thiamin diphosphate (ThDP) anion/enamine intermediate (HEThDP(-)). This intermediate reacts with a second ketoacid to form acetolactate or acetohydroxybutyrate as products. Whereas the mechanism involved in the formation of HEThDP(-) from pyruvate is well understood, the role of the enzyme in controlling the carboligation reaction of HEThDP(-) has not been determined yet. In this work, molecular dynamics (MD) simulations were employed to identify the aminoacids involved in the carboligation stage. These MD studies were carried out over the catalytic subunit of yeast AHAS containing the reaction intermediate (HEThDP(-)) and a second pyruvate molecule. Our results suggest that additional acid-base ionizable groups are not required to promote the catalytic cycle, in contrast with earlier proposals. This finding leads us to postulate that the formation of acetolactate relies on the acid-base properties of the HEThDP(-) intermediate itself. PM3 semiempirical calculations were employed to obtain the energy profile of the proposed mechanism on a reduced model of the active site. These calculations confirm the role of HEThDP(-) intermediate as the ionizable group that promotes the carboligation and product formation steps of the catalytic cycle.
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Affiliation(s)
- Gonzalo Jaña
- Grupo de Química Teórica y Computacional, Facultad de Ciencias Químicas, Universidad de Concepción, Casilla 160-C, Concepción, Chile
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Insight into herbicide resistance of W574L mutant Arabidopsis thaliana acetohydroxyacid synthase: molecular dynamics simulations and binding free energy calculations. Sci China Chem 2010. [DOI: 10.1007/s11426-010-0024-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Homologous and heterologous interactions between catalytic and regulatory subunits of Escherichia coli acetohydroxyacid synthase I and III. ACTA ACUST UNITED AC 2009. [DOI: 10.1007/s11426-009-0213-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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