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Neff C, Bellot F, Waern JB, Lambert F, Brandel J, Serratrice G, Gaboriau F, Policar C. Glycosiderophores: Synthesis of tris-hydroxamate siderophores based on a galactose or glycero central scaffold, Fe(III) complexation studies. J Inorg Biochem 2012; 112:59-67. [DOI: 10.1016/j.jinorgbio.2012.02.030] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2011] [Revised: 02/27/2012] [Accepted: 02/28/2012] [Indexed: 10/28/2022]
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2
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Desvergnes S, Courtiol-Legourd S, Daher R, Dabrowski M, Salmon L, Therisod M. Synthesis and evaluation of malonate-based inhibitors of phosphosugar-metabolizing enzymes: class II fructose-1,6-bis-phosphate aldolases, type I phosphomannose isomerase, and phosphoglucose isomerase. Bioorg Med Chem 2012; 20:1511-20. [PMID: 22269276 DOI: 10.1016/j.bmc.2011.12.050] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Revised: 12/20/2011] [Accepted: 12/22/2011] [Indexed: 11/29/2022]
Abstract
In the design of inhibitors of phosphosugar metabolizing enzymes and receptors with therapeutic interest, malonate has been reported in a number of cases as a good and hydrolytically-stable surrogate of the phosphate group, since both functions are dianionic at physiological pH and of comparable size. We have investigated a series of malonate-based mimics of the best known phosphate inhibitors of class II (zinc) fructose-1,6-bis-phosphate aldolases (FBAs) (e.g., from Mycobacterium tuberculosis), type I (zinc) phosphomannose isomerase (PMI) from Escherichia coli, and phosphoglucose isomerase (PGI) from yeast. In the case of FBAs, replacement of one phosphate by one malonate on a bis-phosphorylated inhibitor (1) led to a new compound (4) still showing a strong inhibition (K(i) in the nM range) and class II versus class I selectivity (up to 8×10(4)). Replacement of the other phosphate however strongly affected binding efficiency and selectivity. In the case of PGI and PMI, 5-deoxy-5-malonate-D-arabinonohydroxamic acid (8) yielded a strong decrease in binding affinities when compared to its phosphorylated parent compound 5-phospho-D-arabinonohydroxamic acid (2). Analysis of the deposited 3D structures of the kinetically evaluated enzymes complexed to the phosphate-based inhibitors indicate that malonate could be a good phosphate surrogate only if phosphate is not tightly bound at the enzyme active site, such as in position 7 of compound 1 for FBAs. These observations are of importance for further design of inhibitors of phosphorylated-compounds metabolizing enzymes with therapeutic interest.
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Affiliation(s)
- Stéphanie Desvergnes
- Univ. Paris-Sud, Laboratoire de Chimie Bioorganique et Bioinorganique, ICMMO, UMR8182, LabEx LERMIT, Orsay F-91405, France
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3
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Roux C, Bhatt F, Foret J, de Courcy B, Gresh N, Piquemal JP, Jeffery CJ, Salmon L. The reaction mechanism of type I phosphomannose isomerases: new information from inhibition and polarizable molecular mechanics studies. Proteins 2011; 79:203-20. [PMID: 21058398 DOI: 10.1002/prot.22873] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Type I phosphomannose isomerases (PMIs) are zinc-dependent metalloenzymes involved in the reversible isomerization of D-mannose 6-phosphate (M6P) and D-fructose 6-phosphate (F6P). 5-Phospho-D-arabinonohydroxamic acid (5PAH), an inhibitor endowed with nanomolar affinity for yeast (Type I) and Pseudomonas aeruginosa (Type II) PMIs (Roux et al., Biochemistry 2004; 43:2926-2934), strongly inhibits human (Type I) PMI (for which we report an improved expression and purification procedure), as well as Escherichia coli (Type I) PMI. Its K(i) value of 41 nM for human PMI is the lowest value ever reported for an inhibitor of PMI. 5-Phospho-D-arabinonhydrazide, a neutral analogue of the reaction intermediate 1,2-cis-enediol, is about 15 times less efficient at inhibiting both enzymes, in accord with the anionic nature of the postulated high-energy reaction intermediate. Using the polarizable molecular mechanics, sum of interactions between fragments ab initio computed (SIBFA) procedure, computed structures of the complexes between Candida albicans (Type I) PMI and the cyclic substrate β-D-mannopyranose 6-phosphate (β-M6P) and between the enzyme and the high-energy intermediate analogue inhibitor 5PAH are reported. Their analysis allows us to identify clearly the nature of each individual active site amino acid and to formulate a hypothesis for the overall mechanism of the reaction catalyzed by Type I PMIs, that is, the ring-opening and isomerization steps, respectively. Following enzyme-catalyzed ring-opening of β-M6P by zinc-coordinated water and Gln111 ligands, Lys136 is identified as the probable catalytic base involved in proton transfer between the two carbon atoms C1 and C2 of the substrate D-mannose 6-phosphate.
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Affiliation(s)
- Céline Roux
- Laboratoire de Chimie Bioorganique et Bioinorganique, ICMMO, Univ Paris-Sud, UMR 8182, Orsay F-91405, France
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4
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Sharma N, Kumari M, Kumar V, Chaudhry S. Synthesis, structural characterisation and antibacterial activity of bis(1-phenyl-1,3-butanedionato)non-oxovanadium(IV) hydroxamates. J Enzyme Inhib Med Chem 2010; 25:708-14. [DOI: 10.3109/14756360903540292] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Neeraj Sharma
- Department of Chemistry, Himachal Pradesh University, Summer Hill, Shimla 171005, India
| | - Meena Kumari
- Department of Chemistry, Himachal Pradesh University, Summer Hill, Shimla 171005, India
| | - Vijay Kumar
- Department of Chemistry, Himachal Pradesh University, Summer Hill, Shimla 171005, India
| | - S.C. Chaudhry
- Department of Chemistry, Himachal Pradesh University, Summer Hill, Shimla 171005, India
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5
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Sharma N, Kumari M, Kumar V, Chaudhry S, Kanwar S. Synthesis, characterization, and antibacterial activity of vanadium(IV) complexes of hydroxamic acids. J COORD CHEM 2009. [DOI: 10.1080/00958970903247712] [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]
Affiliation(s)
- Neeraj Sharma
- a Department of Chemistry , Himachal Pradesh University , Summer Hill , Shimla 171005 , India
| | - Meena Kumari
- a Department of Chemistry , Himachal Pradesh University , Summer Hill , Shimla 171005 , India
| | - Vijay Kumar
- a Department of Chemistry , Himachal Pradesh University , Summer Hill , Shimla 171005 , India
| | - S.C. Chaudhry
- a Department of Chemistry , Himachal Pradesh University , Summer Hill , Shimla 171005 , India
| | - S.S. Kanwar
- b Department of Biotechnology , Himachal Pradesh University , Summer Hill , Shimla 171005 , India
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6
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Roux C, Salmon L, Verchère-Béaur C. Preliminary studies on the inhibition of D-sorbitol-6-phosphate 2–dehydrogenase fromEscherichia coliwith substrate analogues. J Enzyme Inhib Med Chem 2008; 21:187-92. [PMID: 16791965 DOI: 10.1080/14756360500535260] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
Abstract
D-Sorbitol-6-phosphate 2-dehydrogenase catalyzes the NADH-dependent conversion of D-fructose 6-phosphate to D-sorbitol 6-phosphate and improved production and purification of the enzyme from Escherichia coli is reported. Preliminary inhibition studies of the enzyme revealed 5-phospho-D-arabinonohydroxamic acid and 5-phospho-D-arabinonate as new substrate analogue inhibitors of the F6P catalyzed reduction with IC50 values of (40 +/- 1) microM and (48 +/- 3) microM and corresponding Km/IC50 ratio values of 14 and 12, respectively. Furthermore, we report here the phosphomannose isomerase substrate D-mannose 6-phosphate as the best inhibitor of E. coli D-sorbitol-6-phosphate 2-dehydrogenase yet reported with an IC50 = 7.5 +/- 0.4 microM and corresponding Km/IC50 ratio = about 76.
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Affiliation(s)
- Céline Roux
- Laboratoire de Chimie Bioorganique et Bioinorganique, Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8124, Institut de Chimie Moléculaire et des Matériaux d'Orsay, Bâtiment 420, Université Paris-Sud XI, 91405 Orsay Cedex, France
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Bertazzi N, Casella G, D'Agati P, Fiore T, Mansueto C, Mansueto V, Pellerito C, Pellerito L, Scopelliti M. Synthesis and structural investigations on R2Sn(IV)-D-aldonic acid complexes (R = methyl; butyl). Their effect on a new toxicity test organism,Liza saliens(Osteichthyes, Mugilidae): a histological study. Appl Organomet Chem 2008. [DOI: 10.1002/aoc.1412] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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8
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Shang X, Wu J, Li Q. New Coordination Modes of Substituted Benzohydroxamic Acid with Dialkyltin(IV): Structural Diversity through Ligand Isomerization. Eur J Inorg Chem 2006. [DOI: 10.1002/ejic.200600546] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Xian‐mei Shang
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, P. R. China
- School of Pharmaceutical Science, Tongji Medical College,Huazhong University of Science and Technology, 13 Hangkong Road, Wuhan 430030, P. R. China
| | - Ji‐zhou Wu
- School of Pharmaceutical Science, Tongji Medical College,Huazhong University of Science and Technology, 13 Hangkong Road, Wuhan 430030, P. R. China
| | - Qing‐shan Li
- School of Pharmaceutical Science, Shanxi Medical University, Taiyuan 030001, P. R. China
- School of Pharmaceutical Science, Tongji Medical College,Huazhong University of Science and Technology, 13 Hangkong Road, Wuhan 430030, P. R. China
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Shen G, Rajan R, Zhu J, Bell CE, Pei D. Design and synthesis of substrate and intermediate analogue inhibitors of S-ribosylhomocysteinase. J Med Chem 2006; 49:3003-11. [PMID: 16686542 DOI: 10.1021/jm060047g] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
S-Ribosylhomocysteinase (LuxS) catalyzes the cleavage of the thioether linkage in S-ribosylhomocysteine (SRH) to produce homocysteine and 4,5-dihydroxy-2,3-pentanedione, the precursor of autoinducer 2. Inhibitors of LuxS should interfere with bacterial interspecies communication and potentially provide a novel class of antibacterial agents. LuxS utilizes a divalent metal ion as a Lewis acid during catalysis. In this work, a series of structural analogues of the substrate SRH and a 2-ketone intermediate were designed and synthesized. Kinetic studies indicate that the compounds act as reversible, competitive inhibitors against LuxS, with the most potent inhibitors having K(I) values in the submicromolar range. These represent the most potent LuxS inhibitors that have been reported to date. Cocrystal structures of LuxS bound with two of the inhibitors largely confirmed the design principles, i.e., the importance of both the homocysteine and ribose moieties in high-affinity binding to the LuxS active site.
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Affiliation(s)
- Gang Shen
- Department of Chemistry and of Molecular and Cellular Biochemistry, Ohio State Biochemistry Program, The Ohio State University, 100 West 18th Avenue, Columbus, Ohio 43210, USA
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Dardonville C, Rinaldi E, Barrett MP, Brun R, Gilbert IH, Hanau S. Selective Inhibition of Trypanosoma brucei 6-Phosphogluconate Dehydrogenase by High-Energy Intermediate and Transition-State Analogues. J Med Chem 2004; 47:3427-37. [PMID: 15189039 DOI: 10.1021/jm031066i] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Two series of compounds were designed to mimic the transition state and high-energy intermediates (HEI) of the enzymatic reaction of 6-phosphogluconate dehydrogenase (6PGDH). Sulfoxide analogues (7-11) were designed to mimic the transition state during the oxidation of the substrate to 3-keto-6-phosphogluconate, an enzyme-bound intermediate of the enzyme. Hydroxamate and amide derivatives of d-erythronic acid were designed to mimic the 1,2-cis-enediol HEI of the 6PGDH reaction. These two series of compounds were assayed as competitive inhibitors of the Trypanosoma brucei and sheep liver enzymes, and their selectivity value (ratio sheep/parasite) was calculated. The sulfoxide transition-state analogues showed weak and selective inhibition of the T. brucei enzyme. The hydroxamic derivatives showed potent and selective inhibition of the T. brucei 6PGDH with a Ki in the nanomolar range.
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Affiliation(s)
- Christophe Dardonville
- Welsh School of Pharmacy, Redwood Building, Cardiff University, King Edward VII Avenue, Cardiff CF10 3XF, United Kingdom
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11
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Synthesis and evaluation of new 4-phospho-d-erythronic acid derivatives as competitive inhibitors of spinach ribose-5-phosphate isomerase. Tetrahedron Lett 2004. [DOI: 10.1016/j.tetlet.2003.11.038] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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12
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Muri EMF, Mishra H, Avery MA, Williamson JS. Design and Synthesis of Heterocyclic Hydroxamic Acid Derivatives as Inhibitors ofHelicobacterpyloriUrease. SYNTHETIC COMMUN 2003. [DOI: 10.1081/scc-120021024] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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13
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Luzyanin KV, Kukushkin VY, Kuznetsov ML, Garnovskii DA, Haukka M, Pombeiro AJL. Novel reactivity mode of hydroxamic acids: a metalla-pinner reaction. Inorg Chem 2002; 41:2981-6. [PMID: 12033909 DOI: 10.1021/ic025554c] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The reaction between the nitrile complex trans-[PtCl(4)(EtCN)(2)] and benzohydroxamic acids RC(6)H(4)C([double bond]O)NHOH (R = p-MeO, p-Me, H, p-Cl, o-HO) proceeds smoothly in CH(2)Cl(2) at approximately 45 degrees C for 2-3 h (sealed tube) or under focused 300 W microwave irradiation for approximately 15 min at 50 degrees C giving, after workup, good yields of the imino complexes [PtCl(4)[NH[double bond]C(Et)ON[double bond]C(OH)(C(6)H(4)R)](2)] which derived from a novel metalla-Pinner reaction. The complexes [PtCl(4)[NH[double bond]C(Et)ON[double bond]C(OH)(C(6)H(4)R)](2)] were characterized by elemental analyses (C, H, N), FAB mass spectrometry, and IR and (1)H and (13)C[(1)H] spectroscopies, and [PtCl(4)[NH[double bond]C(Et)ON[double bond]C(OH)(Ph)](2)] (as the bis-dimethyl sulfoxide solvate), by X-ray single-crystal diffraction. The latter disclosed its overall trans-configuration with the iminoacyl species in the hydroximic tautomeric form in E-configuration which is held by N[bond]H...N hydrogen bond between the imine [double bond]NH atom and the hydroximic N atom.
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