Literature DB >> 24100570

Crystallization and X-ray diffraction analysis of nylon hydrolase (NylC) from Arthrobacter sp. KI72.

Keisuke Nagai1, Kengo Yasuhira, Yusuke Tanaka, Dai-ichiro Kato, Masahiro Takeo, Yoshiki Higuchi, Seiji Negoro, Naoki Shibata.   

Abstract

Nylon hydrolase (NylC) encoded by Arthrobacter plasmid pOAD2 (NylCp2) was expressed in Escherichia coli JM109 and purified by ammonium sulfate fractionation, anion-exchange column chromatography and gel-filtration chromatography. NylCp2 was crystallized by the sitting-drop vapour-diffusion method with ammonium sulfate as a precipitant in 0.1 M HEPES buffer pH 7.5 containing 0.2 M NaCl and 25% glycerol. Diffraction data were collected from the native crystal to a resolution of 1.60 Å. The obtained crystal was spindle shaped and belonged to the C-centred orthorhombic space group C2221, with unit-cell parameters a=70.84, b=144.90, c=129.05 Å. A rotation and translation search gave one clear solution containing two molecules per asymmetric unit.

Entities:  

Keywords:  Arthrobacter; nylon hydrolase; plasmid pOAD2

Mesh:

Substances:

Year:  2013        PMID: 24100570      PMCID: PMC3792678          DOI: 10.1107/S1744309113024263

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN: 1744-3091


  16 in total

Review 1.  Biodegradation of nylon oligomers.

Authors:  S Negoro
Journal:  Appl Microbiol Biotechnol       Date:  2000-10       Impact factor: 4.813

2.  Mutational analysis of 6-aminohexanoate-dimer hydrolase: relationship between nylon oligomer hydrolytic and esterolytic activities.

Authors:  Taku Ohki; Yoshiaki Wakitani; Masahiro Takeo; Kengo Yasuhira; Naoki Shibata; Yoshiki Higuchi; Seiji Negoro
Journal:  FEBS Lett       Date:  2006-08-28       Impact factor: 4.124

3.  Genetic organization of nylon-oligomer-degrading enzymes from alkalophilic bacterium, Agromyces sp. KY5R.

Authors:  Kengo Yasuhira; Yuki Uedo; Masahiro Takeo; Dai-ichiro Kato; Seiji Negoro
Journal:  J Biosci Bioeng       Date:  2007-12       Impact factor: 2.894

4.  Crystallization and X-ray diffraction analysis of nylon-oligomer hydrolase (NylC) from Agromyces sp. KY5R.

Authors:  Kengo Yasuhira; Naoki Shibata; Yasuhito Tanaka; Naoya Kumagai; Yusuke Tanaka; Keisuke Nagai; Dai-ichiro Kato; Masahiro Takeo; Seiji Negoro; Yoshiki Higuchi
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-07-19

5.  X-ray crystallographic analysis of the 6-aminohexanoate cyclic dimer hydrolase: catalytic mechanism and evolution of an enzyme responsible for nylon-6 byproduct degradation.

Authors:  Kengo Yasuhira; Naoki Shibata; Go Mongami; Yuki Uedo; Yu Atsumi; Yasuyuki Kawashima; Atsushi Hibino; Yusuke Tanaka; Young-Ho Lee; Dai-ichiro Kato; Masahiro Takeo; Yoshiki Higuchi; Seiji Negoro
Journal:  J Biol Chem       Date:  2009-11-03       Impact factor: 5.157

6.  Solvent content of protein crystals.

Authors:  B W Matthews
Journal:  J Mol Biol       Date:  1968-04-28       Impact factor: 5.469

7.  Evolutionary adaptation of plasmid-encoded enzymes for degrading nylon oligomers.

Authors:  H Okada; S Negoro; H Kimura; S Nakamura
Journal:  Nature       Date:  1983 Nov 10-16       Impact factor: 49.962

8.  6-Aminohexanoate oligomer hydrolases from the alkalophilic bacteria Agromyces sp. strain KY5R and Kocuria sp. strain KY2.

Authors:  Kengo Yasuhira; Yasuhito Tanaka; Hiroshi Shibata; Yasuyuki Kawashima; Akira Ohara; Dai-ichiro Kato; Masahiro Takeo; Seiji Negoro
Journal:  Appl Environ Microbiol       Date:  2007-09-07       Impact factor: 4.792

9.  Overview of the CCP4 suite and current developments.

Authors:  Martyn D Winn; Charles C Ballard; Kevin D Cowtan; Eleanor J Dodson; Paul Emsley; Phil R Evans; Ronan M Keegan; Eugene B Krissinel; Andrew G W Leslie; Airlie McCoy; Stuart J McNicholas; Garib N Murshudov; Navraj S Pannu; Elizabeth A Potterton; Harold R Powell; Randy J Read; Alexei Vagin; Keith S Wilson
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-03-18

10.  Phaser crystallographic software.

Authors:  Airlie J McCoy; Ralf W Grosse-Kunstleve; Paul D Adams; Martyn D Winn; Laurent C Storoni; Randy J Read
Journal:  J Appl Crystallogr       Date:  2007-07-13       Impact factor: 3.304

View more
  2 in total

1.  Structural basis of the correct subunit assembly, aggregation, and intracellular degradation of nylon hydrolase.

Authors:  Seiji Negoro; Naoki Shibata; Young-Ho Lee; Ikki Takehara; Ryo Kinugasa; Keisuke Nagai; Yusuke Tanaka; Dai-Ichiro Kato; Masahiro Takeo; Yuji Goto; Yoshiki Higuchi
Journal:  Sci Rep       Date:  2018-06-27       Impact factor: 4.379

Review 2.  Plastics: Environmental and Biotechnological Perspectives on Microbial Degradation.

Authors:  Dominik Danso; Jennifer Chow; Wolfgang R Streit
Journal:  Appl Environ Microbiol       Date:  2019-09-17       Impact factor: 4.792

  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.