Literature DB >> 17259360

Weak activity of haloalkane dehalogenase LinB with 1,2,3-trichloropropane revealed by X-Ray crystallography and microcalorimetry.

Marta Monincová1, Zbynek Prokop, Jitka Vévodová, Yuji Nagata, Jirí Damborsky.   

Abstract

1,2,3-Trichloropropane (TCP) is a highly toxic and recalcitrant compound. Haloalkane dehalogenases are bacterial enzymes that catalyze the cleavage of a carbon-halogen bond in a wide range of organic halogenated compounds. Haloalkane dehalogenase LinB from Sphingobium japonicum UT26 has, for a long time, been considered inactive with TCP, since the reaction cannot be easily detected by conventional analytical methods. Here we demonstrate detection of the weak activity (k(cat) = 0.005 s(-1)) of LinB with TCP using X-ray crystallography and microcalorimetry. This observation makes LinB a useful starting material for the development of a new biocatalyst toward TCP by protein engineering. Microcalorimetry is proposed to be a universal method for the detection of weak enzymatic activities. Detection of these activities is becoming increasingly important for engineering novel biocatalysts using the scaffolds of proteins with promiscuous activities.

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Year:  2007        PMID: 17259360      PMCID: PMC1828796          DOI: 10.1128/AEM.02416-06

Source DB:  PubMed          Journal:  Appl Environ Microbiol        ISSN: 0099-2240            Impact factor:   4.792


  19 in total

1.  An isothermal titration calorimetric method to determine the kinetic parameters of enzyme catalytic reaction by employing the product inhibition as probe.

Authors:  L Cai; A Cao; L Lai
Journal:  Anal Biochem       Date:  2001-12-01       Impact factor: 3.365

2.  Importance of product inhibition in the kinetics of the acylase hydrolysis reaction by differential stopped flow microcalorimetry.

Authors:  Magnus Stödeman; Frederick P Schwarz
Journal:  Anal Biochem       Date:  2002-09-15       Impact factor: 3.365

3.  Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel.

Authors:  Radka Chaloupková; Jana Sýkorová; Zbynek Prokop; Andrea Jesenská; Marta Monincová; Martina Pavlová; Masataka Tsuda; Yuji Nagata; Jirí Damborský
Journal:  J Biol Chem       Date:  2003-10-02       Impact factor: 5.157

4.  Beta-D-glucosidase reaction kinetics from isothermal titration microcalorimetry.

Authors:  Tina Jeoh; John O Baker; Mursheda K Ali; Michael E Himmel; William S Adney
Journal:  Anal Biochem       Date:  2005-10-13       Impact factor: 3.365

5.  Automated refinement for protein crystallography.

Authors:  V S Lamzin; K S Wilson
Journal:  Methods Enzymol       Date:  1997       Impact factor: 1.600

6.  Purification and characterization of a haloalkane dehalogenase of a new substrate class from a gamma-hexachlorocyclohexane-degrading bacterium, Sphingomonas paucimobilis UT26.

Authors:  Y Nagata; K Miyauchi; J Damborsky; K Manova; A Ansorgova; M Takagi
Journal:  Appl Environ Microbiol       Date:  1997-09       Impact factor: 4.792

7.  Quantitative analysis of substrate specificity of haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26.

Authors:  Jan Kmunícek; Kamila Hynková; Tomás Jedlicka; Yuji Nagata; Ana Negri; Federico Gago; Rebecca C Wade; Jirí Damborský
Journal:  Biochemistry       Date:  2005-03-08       Impact factor: 3.162

8.  Crystal structure of the haloalkane dehalogenase from Sphingomonas paucimobilis UT26.

Authors:  J Marek; J Vévodová; I K Smatanová; Y Nagata; L A Svensson; J Newman; M Takagi; J Damborský
Journal:  Biochemistry       Date:  2000-11-21       Impact factor: 3.162

9.  Haloalkane dehalogenase LinB from Sphingomonas paucimobilis UT26: X-ray crystallographic studies of dehalogenation of brominated substrates.

Authors:  Victor A Streltsov; Zbynek Prokop; Jirí Damborský; Yuji Nagata; Aaron Oakley; Matthew C J Wilce
Journal:  Biochemistry       Date:  2003-09-02       Impact factor: 3.162

10.  Biodegradation of 1,2,3-trichloropropane through directed evolution and heterologous expression of a haloalkane dehalogenase gene.

Authors:  Tjibbe Bosma; Jirí Damborský; Gerhard Stucki; Dick B Janssen
Journal:  Appl Environ Microbiol       Date:  2002-07       Impact factor: 4.792

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  5 in total

1.  A self-compartmentalizing hexamer serine protease from Pyrococcus horikoshii: substrate selection achieved through multimerization.

Authors:  Dóra K Menyhárd; Anna Kiss-Szemán; Éva Tichy-Rács; Balázs Hornung; Krisztina Rádi; Zoltán Szeltner; Klarissza Domokos; Ilona Szamosi; Gábor Náray-Szabó; László Polgár; Veronika Harmat
Journal:  J Biol Chem       Date:  2013-04-30       Impact factor: 5.157

2.  Biochemical characterization of haloalkane dehalogenases DrbA and DmbC, Representatives of a Novel Subfamily.

Authors:  Andrea Jesenská; Marta Monincová; Tána Koudeláková; Khomaini Hasan; Radka Chaloupková; Zbynek Prokop; Arie Geerlof; Jirí Damborsky
Journal:  Appl Environ Microbiol       Date:  2009-06-05       Impact factor: 4.792

Review 3.  Transformation and biodegradation of 1,2,3-trichloropropane (TCP).

Authors:  Ghufrana Samin; Dick B Janssen
Journal:  Environ Sci Pollut Res Int       Date:  2012-08-08       Impact factor: 4.223

4.  Structural and catalytic effects of surface loop-helix transplantation within haloalkane dehalogenase family.

Authors:  Martin Marek; Radka Chaloupkova; Tatyana Prudnikova; Yukari Sato; Pavlina Rezacova; Yuji Nagata; Ivana Kuta Smatanova; Jiri Damborsky
Journal:  Comput Struct Biotechnol J       Date:  2020-06-03       Impact factor: 7.271

5.  The acid-base-nucleophile catalytic triad in ABH-fold enzymes is coordinated by a set of structural elements.

Authors:  Alexander Denesyuk; Polytimi S Dimitriou; Mark S Johnson; Toru Nakayama; Konstantin Denessiouk
Journal:  PLoS One       Date:  2020-02-21       Impact factor: 3.240

  5 in total

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