Literature DB >> 23303182

A novel transition-state analogue for lysozyme, 4-O-β-tri-N-acetylchitotriosyl moranoline, provided evidence supporting the covalent glycosyl-enzyme intermediate.

Makoto Ogata1, Naoyuki Umemoto, Takayuki Ohnuma, Tomoyuki Numata, Akari Suzuki, Taichi Usui, Tamo Fukamizo.   

Abstract

4-O-β-Di-N-acetylchitobiosyl moranoline (2) and 4-O-β-tri-N-acetylchitotriosyl moranoline (3) were produced by lysozyme-mediated transglycosylation from the substrates tetra-N-acetylchitotetraose, (GlcNAc)4, and moranoline, and the binding modes of 2 and 3 to hen egg white lysozyme (HEWL) was examined by inhibition kinetics, isothermal titration calorimetry (ITC), and x-ray crystallography. Compounds 2 and 3 specifically bound to HEWL, acting as competitive inhibitors with Ki values of 2.01 × 10(-5) and 1.84 × 10(-6) m, respectively. From ITC analysis, the binding of 3 was found to be driven by favorable enthalpy change (ΔHr°), which is similar to those obtained for 2 and (GlcNAc)4. However, the entropy loss (-TΔSr°) for the binding of 3 was smaller than those of 2 and (GlcNAc)4. Thus the binding of 3 was found to be more favorable than those of the others. Judging from the Kd value of 3 (760 nm), the compound appears to have the highest affinity among the lysozyme inhibitors identified to date. X-ray crystal structure of HEWL in a complex with 3 showed that compound 3 binds to subsites -4 to -1 and the moranoline moiety adopts an undistorted (4)C1 chair conformation almost overlapping with the -1 sugar covalently bound to Asp-52 of HEWL (Vocadlo, Davies, G. J., Laine, R., and Withers, S. G. (2001) Nature 412, 835-838). From these results, we concluded that compound 3 serves as a transition-state analogue for lysozyme providing additional evidence supporting the covalent glycosyl-enzyme intermediate in the catalytic reaction.

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Year:  2013        PMID: 23303182      PMCID: PMC3585046          DOI: 10.1074/jbc.M112.439281

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  31 in total

1.  Bound-solvent structures for microgravity-, ground control-, gel- and microbatch-grown hen egg-white lysozyme crystals at 1.8 A resolution.

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Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1999-04

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Authors:  I I Secemski; S S Lehrer; G E Lienhard
Journal:  J Biol Chem       Date:  1972-08-10       Impact factor: 5.157

3.  Lysozyme-catalyzed hydrolysis and transglycosylation reactions of bacterial cell wall oligosaccharides.

Authors:  D M Chipman; J J Pollock; N Sharon
Journal:  J Biol Chem       Date:  1968-02-10       Impact factor: 5.157

4.  Enzymatic synthesis of p-nitrophenyl N,N',N'',N'',N''''-pentaacetyl-beta-chitopentaoside in water-methanol system; significance as a substrate for lysozyme assay.

Authors:  T Usui; Y Hayashi; F Nanjo; Y Ishido
Journal:  Biochim Biophys Acta       Date:  1988-03-23

5.  Estimation of the free energy change of substrate binding lysozyme-catalyzed reactions.

Authors:  S Kuhara; E Ezaki; T Fukamizo; K Hayashi
Journal:  J Biochem       Date:  1982-07       Impact factor: 3.387

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Authors:  Y Nakae; K Ikeda; K Hamaguchi
Journal:  J Biochem       Date:  1975-05       Impact factor: 3.387

7.  Steady-state kinetic and calorimetric studies on the binding of Aspergillus niger glucoamylase with gluconolactone, 1-deoxynojirimycin, and beta-cyclodextrin.

Authors:  A Tanaka
Journal:  Biosci Biotechnol Biochem       Date:  1996-12       Impact factor: 2.043

8.  Facile synthesis of 4-O-β-N-acetylchitooligosyl 2-acetamido-2,3-dideoxydidehydro-gluconolactone based on the transformation of chitooligosaccharide and its suppressive effects against the furylfuramide-induced SOS response.

Authors:  Makoto Ogata; Ryota Takeuchi; Akari Suzuki; Hirofumi Hirai; Taichi Usui
Journal:  Biosci Biotechnol Biochem       Date:  2012-07-07       Impact factor: 2.043

9.  Site-directed mutagenesis of the catalytic residues Asp-52 and Glu-35 of chicken egg white lysozyme.

Authors:  B A Malcolm; S Rosenberg; M J Corey; J S Allen; A de Baetselier; J F Kirsch
Journal:  Proc Natl Acad Sci U S A       Date:  1989-01       Impact factor: 11.205

10.  Mechanism-based labeling defines the free energy change for formation of the covalent glycosyl-enzyme intermediate in a xyloglucan endo-transglycosylase.

Authors:  Kathleen Piens; Régis Fauré; Gustav Sundqvist; Martin J Baumann; Marc Saura-Valls; Tuula T Teeri; Sylvain Cottaz; Antoni Planas; Hugues Driguez; Harry Brumer
Journal:  J Biol Chem       Date:  2008-05-28       Impact factor: 5.157

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  5 in total

1.  Recent structural insights into the mechanism of lysozyme hydrolysis.

Authors:  Ichiro Tanaka; Ryota Nishinomiya; Ryosuke Goto; Shun Shimazaki; Toshiyuki Chatake
Journal:  Acta Crystallogr D Struct Biol       Date:  2021-02-19       Impact factor: 7.652

2.  Monomodular Pseudomonas aeruginosa phage JG004 lysozyme (Pae87) contains a bacterial surface-active antimicrobial peptide-like region and a possible substrate-binding subdomain.

Authors:  Roberto Vázquez; Mateo Seoane-Blanco; Virginia Rivero-Buceta; Susana Ruiz; Mark J van Raaij; Pedro García
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-03-04       Impact factor: 7.652

3.  Thermodynamic Analysis for Binding of 4-O-β-tri-N-acetylchitotriosyl Moranoline, a Transition State Analogue Inhibitor for Hen Egg White Lysozyme.

Authors:  Makoto Ogata; Tamo Fukamizo; Takayuki Ohnuma
Journal:  Front Mol Biosci       Date:  2021-06-10

4.  Crystallization of lysozyme with (R)-, (S)- and (RS)-2-methyl-2,4-pentanediol.

Authors:  Mark Stauber; Jean Jakoncic; Jacob Berger; Jerome M Karp; Ariel Axelbaum; Dahniel Sastow; Sergey V Buldyrev; Bruce J Hrnjez; Neer Asherie
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2015-02-26

5.  Modular endolysin of Burkholderia AP3 phage has the largest lysozyme-like catalytic subunit discovered to date and no catalytic aspartate residue.

Authors:  Barbara Maciejewska; Karol Źrubek; Akbar Espaillat; Magdalena Wiśniewska; Krzysztof P Rembacz; Felipe Cava; Grzegorz Dubin; Zuzanna Drulis-Kawa
Journal:  Sci Rep       Date:  2017-11-06       Impact factor: 4.379

  5 in total

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