Literature DB >> 25392000

Structural insight into amino group-carrier protein-mediated lysine biosynthesis: crystal structure of the LysZ·LysW complex from Thermus thermophilus.

Ayako Yoshida1, Takeo Tomita1, Tsutomu Fujimura2, Chiharu Nishiyama3, Tomohisa Kuzuyama1, Makoto Nishiyama4.   

Abstract

In the biosynthesis of lysine by Thermus thermophilus, the metabolite α-ketoglutarate is converted to the intermediate α-aminoadipate (AAA), which is protected by the 54-amino acid acidic protein LysW. In this study, we determined the crystal structure of LysZ from T. thermophilus (TtLysZ), an amino acid kinase that catalyzes the second step in the AAA to lysine conversion, which was in a complex with LysW at a resolution of 1.85 Å. A crystal analysis coupled with isothermal titration calorimetry of the TtLysZ mutants for TtLysW revealed tight interactions between LysZ and the globular and C-terminal extension domains of the LysW protein, which were mainly attributed to electrostatic forces. These results provided structural evidence for LysW acting as a protecting molecule for the α-amino group of AAA and also as a carrier protein to guarantee better recognition by biosynthetic enzymes for the efficient biosynthesis of lysine.
© 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

Entities:  

Keywords:  Biosynthesis; Carrier Protein; Crystal Structure; Evolution; Isothermal Titration Calorimetry (ITC); Lysine Biosynthesis; Thermophile

Mesh:

Substances:

Year:  2014        PMID: 25392000      PMCID: PMC4281745          DOI: 10.1074/jbc.M114.595983

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


  40 in total

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Journal:  Structure       Date:  2002-03       Impact factor: 5.006

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Journal:  Bioinformatics       Date:  1999-04       Impact factor: 6.937

3.  Automated structure solution, density modification and model building.

Authors:  Thomas C Terwilliger
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2002-10-21

4.  A prokaryotic gene cluster involved in synthesis of lysine through the amino adipate pathway: a key to the evolution of amino acid biosynthesis.

Authors:  H Nishida; M Nishiyama; N Kobashi; T Kosuge; T Hoshino; H Yamane
Journal:  Genome Res       Date:  1999-12       Impact factor: 9.043

5.  Characterization of homoisocitrate dehydrogenase involved in lysine biosynthesis of an extremely thermophilic bacterium, Thermus thermophilus HB27, and evolutionary implication of beta-decarboxylating dehydrogenase.

Authors:  Junichi Miyazaki; Nobuyuki Kobashi; Makoto Nishiyama; Hisakazu Yamane
Journal:  J Biol Chem       Date:  2002-11-08       Impact factor: 5.157

6.  Functional and evolutionary relationship between arginine biosynthesis and prokaryotic lysine biosynthesis through alpha-aminoadipate.

Authors:  J Miyazaki; N Kobashi; M Nishiyama; H Yamane
Journal:  J Bacteriol       Date:  2001-09       Impact factor: 3.490

7.  Aspartate kinase-independent lysine synthesis in an extremely thermophilic bacterium, Thermus thermophilus: lysine is synthesized via alpha-aminoadipic acid not via diaminopimelic acid.

Authors:  N Kobashi; M Nishiyama; M Tanokura
Journal:  J Bacteriol       Date:  1999-03       Impact factor: 3.490

8.  Characterization of a lysK gene as an argE homolog in Thermus thermophilus HB27.

Authors:  Junichi Miyazaki; Nobuyuki Kobashi; Tomoyuki Fujii; Makoto Nishiyama; Hisakazu Yamane
Journal:  FEBS Lett       Date:  2002-02-13       Impact factor: 4.124

9.  Automated MAD and MIR structure solution.

Authors:  T C Terwilliger; J Berendzen
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10.  Characterization of bacterial homocitrate synthase involved in lysine biosynthesis.

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  6 in total

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Journal:  Extremophiles       Date:  2021-07-01       Impact factor: 2.395

2.  Amino-group carrier-protein-mediated secondary metabolite biosynthesis in Streptomyces.

Authors:  Fumihito Hasebe; Kenichi Matsuda; Taro Shiraishi; Yushi Futamura; Takeshi Nakano; Takeo Tomita; Ken Ishigami; Hikari Taka; Reiko Mineki; Tsutomu Fujimura; Hiroyuki Osada; Tomohisa Kuzuyama; Makoto Nishiyama
Journal:  Nat Chem Biol       Date:  2016-09-26       Impact factor: 15.040

3.  Crystal Structure of the LysY·LysW Complex from Thermus thermophilus.

Authors:  Tetsu Shimizu; Takeo Tomita; Tomohisa Kuzuyama; Makoto Nishiyama
Journal:  J Biol Chem       Date:  2016-03-09       Impact factor: 5.157

4.  Lysine Biosynthesis of Thermococcus kodakarensis with the Capacity to Function as an Ornithine Biosynthetic System.

Authors:  Ayako Yoshida; Takeo Tomita; Haruyuki Atomi; Tomohisa Kuzuyama; Makoto Nishiyama
Journal:  J Biol Chem       Date:  2016-08-26       Impact factor: 5.157

5.  Biosynthesis of 3-thia-α-amino acids on a carrier peptide.

Authors:  Yue Yu; Wilfred A van der Donk
Journal:  Proc Natl Acad Sci U S A       Date:  2022-07-05       Impact factor: 12.779

6.  Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea.

Authors:  Friedhelm Pfeiffer; Mike Dyall-Smith
Journal:  Genes (Basel)       Date:  2021-06-24       Impact factor: 4.096

  6 in total

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