Research Topics
| Seiji NegoroSummaryAffiliation: University of Hyogo Country: Japan Publications
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Publications
X-ray crystallographic analysis of 6-aminohexanoate-dimer hydrolase: molecular basis for the birth of a nylon oligomer-degrading enzymeSeiji Negoro
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Himeji, Japan
J Biol Chem 280:39644-52. 2005..Here, we propose that amino acid replacements in the catalytic cleft of a preexisting esterase with the beta-lactamase fold resulted in the evolution of the nylon oligomer hydrolase...
6-Aminohexanoate oligomer hydrolases from the alkalophilic bacteria Agromyces sp. strain KY5R and Kocuria sp. strain KY2Kengo Yasuhira
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
Appl Environ Microbiol 73:7099-102. 2007..6% similarity to the enzyme in neutrophilic Arthrobacter sp. but had superior thermostability, activity under alkaline conditions, and affinity for nylon-related substrates, which would be advantageous for biotechnological applications...- Nylon-oligomer degrading enzyme/substrate complex: catalytic mechanism of 6-aminohexanoate-dimer hydrolaseSeiji Negoro
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
J Mol Biol 370:142-56. 2007..Present models illustrate why new activity against the nylon oligomer has evolved in an esterase with beta-lactamase folds, while retaining the original esterolytic functions... - Two alternative modes for optimizing nylon-6 byproduct hydrolytic activity from a carboxylesterase with a beta-lactamase fold: X-ray crystallographic analysis of directly evolved 6-aminohexanoate-dimer hydrolaseTaku Ohki
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Hyogo 671 2280, Japan
Protein Sci 18:1662-73. 2009..FEBS J 2009; 276:2547-2556). We propose here that there exist at least two alternative modes for optimizing the Ald-hydrolytic activity of a carboxylesterase with a beta-lactamase fold... - X-ray crystallographic analysis of the 6-aminohexanoate cyclic dimer hydrolase: catalytic mechanism and evolution of an enzyme responsible for nylon-6 byproduct degradationKengo Yasuhira
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Hyogo 671 2201, Japan
J Biol Chem 285:1239-48. 2010..On the basis of the structure and functional analysis, we discussed the catalytic mechanisms and evolution of NylA in comparison with other Ser-reactive hydrolases... 
Molecular design of a nylon-6 byproduct-degrading enzyme from a carboxylesterase with a beta-lactamase foldYasuyuki Kawashima
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Japan
FEBS J 276:2547-56. 2009....- Mutational analysis of 6-aminohexanoate-dimer hydrolase: relationship between nylon oligomer hydrolytic and esterolytic activitiesTaku Ohki
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
FEBS Lett 580:5054-8. 2006..D370Y increased esterolytic activity for glycerylbutyrate ca. 30-50-fold, whereas G181D decreased the activity to 30% of the parental enzyme... - Three-dimensional structure of nylon hydrolase and mechanism of nylon-6 hydrolysisSeiji Negoro
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Hyogo 671 2280
J Biol Chem 287:5079-90. 2012..Based on these data, we propose that NylC should be designated as nylon hydrolase (or nylonase). Three potential uses of NylC for industrial and environmental applications are also discussed... - Comparison of acyl-CoA synthetic activities and enantioselectivity toward 2-arylpropanoic acids in firefly luciferasesDai ichiro Kato
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo
Biosci Biotechnol Biochem 75:1758-62. 2011..In addition, by determining the kinetic parameters at various pH values, we verified that the k(cat) parameter contributed to the preferential enantioselectivity of this enzyme... - Identification and characterization of another 4-nitrophenol degradation gene cluster, nps, in Rhodococcus sp. strain PN1Kenta Yamamoto
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
J Biosci Bioeng 111:687-94. 2011..These results indicate that this nps gene cluster, in addition to the nph gene cluster, is also involved in 4-NP degradation in strain PN1... - Crystallization and X-ray diffraction analysis of 6-aminohexanoate-dimer hydrolase from Arthrobacter sp. KI72Taku Ohki
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2201, Japan
Acta Crystallograph Sect F Struct Biol Cryst Commun 61:928-30. 2005..37, c = 113.09 A. Diffraction data were collected from native and methylmercuric chloride derivative crystals to resolutions of 1.75 and 1.80 A, respectively... - Crystallization and X-ray diffraction analysis of nylon-oligomer hydrolase (NylC) from Agromyces sp. KY5RKengo Yasuhira
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Himeji, Hyogo, Japan
Acta Crystallogr Sect F Struct Biol Cryst Commun 67:892-5. 2011..86, b = 214.45, c = 478.80 Å. The anomalous difference Patterson map of the K(2)PtCl(4)-derivative crystal suggested that the space group was I222 rather than I2(1)2(1)2(1)... - Immunoassay using microfluid filters constructed by deep X-ray lithographyKatsuhiro Matsui
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Himeji, Hyogo, Japan
Biosci Biotechnol Biochem 71:3098-101. 2007.... - Crystallization and X-ray diffraction analysis of 6-aminohexanoate-cyclic-dimer hydrolase from Arthrobacter sp. KI72Kengo Yasuhira
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
Acta Crystallograph Sect F Struct Biol Cryst Commun 62:1209-11. 2006..0. The crystal is hexagonal, with unit-cell parameters a = b = 130.75, c = 58.23 A. Diffraction data were collected from native and mercury(II) dichloride-derivative crystals to resolutions of 1.90 and 2.06 A, respectively... - Purification and characterization of alkylcatechol 2,3-dioxygenase from butylphenol degradation pathway of Pseudomonas putida MT4Masahiro Takeo
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2201, Japan
J Biosci Bioeng 104:309-14. 2007..4, 8.4, and 6.5 microM and 25.8, 76.9, and 18.0 U mg(-1), respectively. These results suggest that BupB has broad substrate specificity for 4-n-alkylcatechols... - Purification and gene cloning of an enantioselective thioesterification enzyme from Brevibacterium ketoglutamicum KU1073, a deracemization bacterium of 2-(4-chlorophenoxy)propanoic acidDai ichiro Kato
Graduate School of Engineering, University of Hyogo, Himeji, Hyogo, Japan
Biosci Biotechnol Biochem 74:2405-12. 2010..This result indicates that MCAD1 should be classified into a family of medium-chain acyl-CoA synthetase. This novel activity has never been reported for this family... - Mechanism of 4-nitrophenol oxidation in Rhodococcus sp. Strain PN1: characterization of the two-component 4-nitrophenol hydroxylase and regulation of its expressionMasahiro Takeo
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2201, Japan
J Bacteriol 190:7367-74. 2008..The 4-NP hydroxylase showed comparable oxidation activities for phenol and 4-chlorophenol to that for 4-NP and weaker activities for 3-NP and 4-NC... - New application of firefly luciferase--it can catalyze the enantioselective thioester formation of 2-arylpropanoic acidDai ichiro Kato
Graduate School of Engineering, University of Hyogo, Himeji, Hyogo, Japan
FEBS J 274:3877-85. 2007..These results suggest that LUC-H could catalyze the kinetic resolution of 2-arylpropanoic acid efficiently and would be a new option for the preparation of optically active 2-substituted carboxylic acids... - Two identical nonylphenol monooxygenase genes linked to IS6100 and some putative insertion sequence elements in Sphingomonas sp. NP5Masahiro Takeo
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
Microbiology 158:1796-807. 2012..3-Methyl-3-octanol, probably originating from the alkyl side chain, was also detected as the metabolite. These results indicate that these two nmoA genes are involved in the NP degradation ability of strain NP5... - Genetic organization of nylon-oligomer-degrading enzymes from alkalophilic bacterium, Agromyces sp. KY5RKengo Yasuhira
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
J Biosci Bioeng 104:521-4. 2007..However, we found several genetic rearrangements between the two DNA regions. Here, we discuss the possible mechanisms underlying the genetic rearrangements... - Enzyme-linked immunosorbent assay for nonylphenol using antibody-bound microfluid filters in vertical fluidic operationKatsuhiro Matsui
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2280, Japan
J Biosci Bioeng 104:347-50. 2007..Through the optimization of the immunoassay, nonylphenol was quantitatively detected at the range of 0.1-10 ng/ml... - Characterization of alkylphenol degradation gene cluster in Pseudomonas putida MT4 and evidence of oxidation of alkylphenols and alkylcatechols with medium-length alkyl chainMasahiro Takeo
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671 2201, Japan
J Biosci Bioeng 102:352-61. 2006..These results suggest that MT4 is a very useful strain in the biodegradation of a wide range of APs with a medium-length alkyl chain, which known nonylphenol-degrading Sphingomonas strains have never degraded... - Purification and characterization of catechol 2,3-dioxygenase from the aniline degradation pathway of Acinetobacter sp. YAA and its mutant enzyme, which resists substrate inhibitionMasahiro Takeo
Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, Himeji, Hyogo, Japan
Biosci Biotechnol Biochem 71:1668-75. 2007..Kinetic analysis of these enzymes revealed that the wild-type enzyme suffered from substrate inhibition at >2 microM, while the mutant enzyme loosened substrate inhibition...