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1.
Sci Rep ; 11(1): 23982, 2021 12 14.
Article En | MEDLINE | ID: mdl-34907211

Identification of novel enzymes from lignin degrading microorganisms will help to develop biotechnologies for biomass valorization and aromatic hydrocarbons degradation. Bacillus ligniniphilus L1 grows with alkaline lignin as the single carbon source and is a great candidate for ligninolytic enzyme identification. The first dioxygenase from strain L1 was heterologously expressed, purified, and characterized with an optimal temperature and pH of 32.5 °C and 7.4, respectively. It showed the highest activity with 3-ethylcatechol and significant activities with other substrates in the decreasing order of 3-ethylcatechol > 3-methylcatechol > 3-isopropyl catechol > 2, 3-dihydroxybiphenyl > 4-methylcatechol > catechol. It did not show activities against other tested substrates with similar structures. Most reported catechol 2,3-dioxygenases (C23Os) are Fe2+-dependent whereas Bacillus ligniniphilus catechol 2,3-dioxygenase (BLC23O) is more Mn2+- dependent. At 1 mM, Mn2+ led to 230-fold activity increase and Fe2+ led to 22-fold increase. Sequence comparison and phylogenetic analyses suggested that BL23O is different from other Mn-dependent enzymes and uniquely grouped with an uncharacterized vicinal oxygen chelate (VOC) family protein from Paenibacillus apiaries. Gel filtration analysis showed that BLC23O is a monomer under native condition. This is the first report of a C23O from Bacillus ligniniphilus L1 with unique substrate preference, metal-dependency, and monomeric structure.


Bacillus/enzymology , Bacterial Proteins/chemistry , Catechol 2,3-Dioxygenase/chemistry , Iron/chemistry , Bacillus/genetics , Bacterial Proteins/genetics , Catechol 2,3-Dioxygenase/genetics , Substrate Specificity
2.
Int J Biol Macromol ; 188: 1012-1024, 2021 Oct 01.
Article En | MEDLINE | ID: mdl-34375665

The oxygenases have attracted considerable attention in enzyme-mediated bioremediation of xenobiotic compounds due to their high specificity, cost-effectiveness, and targeted field applications. Here, we performed a functional metagenomics approach to cope with culturability limitations to isolate a novel extradiol dioxygenase. Fosmid clone harboring dioxygenase gene was sequenced and analyzed by bioinformatics tools. One ring-cleaving dioxygenase RW4-MPC (metapyrocatechase) was purified and characterized to examine its degradation efficiency. The RW4-MPC was significantly active in the temperature and pH range of 5 to 40 °C, and 7-10, respectively, with an optimum temperature of 25 °C and pH 8. To gain insight into observed differential activity, Small-Angle X-ray Scattering (SAXS) data of the protein samples were analyzed, which brought forth that the RW4-MPC molecules form tight globular tetramers in solution. This native association was stable till 35 °C, and protein started to associate at higher temperatures, explaining heat-induced loss of function. Similarly, RW4-MPC aggregated or lost globular profile below pH 7 or at pH 10, respectively. The kinetic parameters showed the six folds high catalytic efficiency of RW4-MPC towards 2,3-dihydroxy biphenyl than catechol and its derivatives. RW4-MPC molecules showed remarkable retention of functionality in hypersaline conditions with more than 70% activity in a buffer having 3 M NaCl concentration. In concordance, SAXS data analysis showed retention of functional shape profile in hypersaline conditions. The halotolerant and oxygen insensitive nature of this enzyme makes it a potential candidate for bioremediation.


Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/metabolism , Metagenomics , Scattering, Small Angle , X-Ray Diffraction , Amino Acid Sequence , Catechol 2,3-Dioxygenase/isolation & purification , Circular Dichroism , Clone Cells , Enzyme Stability/drug effects , Hydrogen-Ion Concentration , Ions , Kinetics , Metals/pharmacology , Molecular Weight , Phylogeny , Recombinant Proteins/chemistry , Recombinant Proteins/isolation & purification , Sodium Chloride/pharmacology , Substrate Specificity/drug effects , Temperature
3.
J Hazard Mater ; 391: 122211, 2020 06 05.
Article En | MEDLINE | ID: mdl-32036315

This study aims to clarify the interaction mechanism of substrate with catechol 2,3-dioxygenase (C23O) through multi-technique combination. A novel C23O (named C23O-2G) was cloned, heterogeneously expressed, and identified as a new member in subfamily I.2 of extradiol dioxygenases. Based on the simulations of molecular docking and dynamics, the exact binding sites of catechol on C23O-2G were identified, and the catalytic mechanism mediated by key residues was proposed. The roles of the predicted residues during catalysis were confirmed by site-directed mutagenesis, and the mutation of Thr254 could significantly increase catalytic efficiency and substrate specificity of C23O-2G. The binding and thermodynamic parameters obtained from fluorescence spectra suggested that catechol could effectively quench the intrinsic fluorescence of C23O-2G via static and dynamic quenching mechanisms and spontaneously formed C23O-2G/catechol complex by the binding forces of hydrogen bond and van der Waals force. The results of UV-vis spectra, synchronous fluorescence, and CD spectra revealed obvious changes in the microenvironment and conformation of C23O-2G, especially for the secondary structure. The atomic force microscope images further demonstrated the changes from an appearance point of view. This study could improve our mechanistic understanding of representative dioxygenases involved in aromatic compound degradation.


Catechol 2,3-Dioxygenase/chemistry , Catechols/chemistry , Binding Sites , Biophysical Phenomena , Catalysis , Catechol 2,3-Dioxygenase/genetics , Molecular Conformation , Molecular Docking Simulation , Molecular Dynamics Simulation , Mutation
4.
Protein J ; 37(5): 407-427, 2018 10.
Article En | MEDLINE | ID: mdl-30097830

The isolation and characterization of 42 unique nonfunctional missense mutants in the bacterial cytosolic ß-galactosidase and catechol 2,3-dioxygenase enzymes allowed us to examine some of the basic general trends regarding protein structure and function. A total of 6 out of the 42, or 14.29% of the missense mutants were in α-helices, 17 out of the 42, or 40.48%, of the missense mutants were in ß-sheets and 19 out of the 42, or 45.24% of the missense mutants were in unstructured coil, turn or loop regions. While α-helices and ß-sheets are undeniably important in protein structure, our results clearly indicate that the unstructured regions are just as important. A total of 21 out of the 42, or 50.00% of the missense mutants caused either amino acids located on the surface of the protein to shift from hydrophilic to hydrophobic or buried amino acids to shift from hydrophobic to hydrophilic and resulted in drastic changes in hydropathy that would not be preferable. There was generally good consensus amongst the widely used algorithms, Chou-Fasman, GOR, Qian-Sejnowski, JPred, PSIPRED, Porter and SPIDER, in their ability to predict the presence of the secondary structures that were affected by the missense mutants and most of the algorithms predicted that the majority of the 42 inactive missense mutants would impact the α-helical and ß-sheet secondary structures or the unstructured coil, turn or loop regions that they altered.


Bacterial Proteins/chemistry , Catechol 2,3-Dioxygenase/chemistry , Mutation, Missense , Salmonella enterica/enzymology , beta-Galactosidase/chemistry , Amino Acid Substitution , Bacterial Proteins/genetics , Catechol 2,3-Dioxygenase/genetics , Protein Structure, Secondary , Salmonella enterica/genetics , Structure-Activity Relationship , beta-Galactosidase/genetics
5.
J Basic Microbiol ; 58(3): 255-262, 2018 Mar.
Article En | MEDLINE | ID: mdl-29380863

Catechol 2,3-dioxygenase (C23O) from a new phenolic compound degrader Thauera sp. K11 was purified and characterized. The native form of the enzyme was determined as a homotetramer with a molecular weight of 140 kDa, and its isoelectric point was close to 6.4. One iron per enzyme subunit was detected using atom absorption spectroscopy, and the effective size of C23O in its dilute solution (0.2 g L-1 , pH 8.0) was 14.5 nm. The optimal pH and temperature were 8.4 and 45 °C, respectively. The addition of Mg2+ , Cu2+ , Fe2+ , and Mn2+ could improve the enzyme activity, while Ag+ was found to be a strong inhibitor. C23O was stable in alkali conditions (pH 7.6-11.0) and thermostable below 50 °C. The final purified C23O had a sheet content of 53%, consistent with the theoretical value. This showed that the purified catechol 2,3-dioxygenase folded with a reasonable secondary structure.


Catechol 2,3-Dioxygenase/isolation & purification , Catechol 2,3-Dioxygenase/metabolism , Thauera/enzymology , Catechol 2,3-Dioxygenase/chemistry , Coenzymes/analysis , Enzyme Stability , Hydrogen-Ion Concentration , Isoelectric Point , Metals/analysis , Molecular Weight , Protein Conformation , Protein Folding , Protein Multimerization , Spectrum Analysis , Temperature
6.
Int J Biol Macromol ; 106: 1107-1114, 2018 Jan.
Article En | MEDLINE | ID: mdl-28847603

Benzene, toluene, ethylbenzene, and xylene (BTEX) are highly water soluble, hence can contaminate a large volume of groundwater and soil, exhibiting a serious negative impact on human health. To get efficient biodegradation and bioremediation of BTEX in the highly salt and pH contaminated sites, this study captured, investigated and identified three novel haloalkaliphilic bacterial strains HA10, HA12 and HA14 belong to genus Pseudomonas that have strong capability to degrade BTEX at 7% NaCl (w/v) and pH 9. Study of enzymes in halophiles will help understanding the mechanism of BTEX degradation in saline and alkaline environments. Three novel catechol 2,3-dioxygenase genes C23O10, C23O12 and C23O14 were amplified, cloned and overexpressed from the three obtained haloalkaliphilic strains HA10, HA12 and HA14 respectively. Phylogenetic tree analysis for the three novel C23Os and their relatives formed a new branch. C23O12 and C23O14 showed activity with only catechol, while the activity was observed in C23O10 on catechol and 2,3-dihydroxybiphenyl. Kinetic properties analysis for C23O10 indicated that its preferred substrates were catechol and 2,3-Dihydroxybiphenyl. C23O10 activity severely affected and rapidly inactivated by 3-Chlorocatechol. This finding may be necessary for developing in-site bioremediation of BTEX contaminated sites in both highly saline and alkaline environments.


Biodegradation, Environmental , Catechol 2,3-Dioxygenase/chemistry , Pseudomonas/chemistry , Water Pollutants, Chemical/chemistry , Benzene/chemistry , Benzene/toxicity , Benzene Derivatives/chemistry , Benzene Derivatives/toxicity , Groundwater/chemistry , Pseudomonas/enzymology , Toluene/chemistry , Toluene/toxicity , Water Purification/methods , Xylenes/chemistry , Xylenes/toxicity
7.
Sci Rep ; 5: 17603, 2015 Dec 01.
Article En | MEDLINE | ID: mdl-26621792

Study of enzymes in halophiles will help to understand the mechanism of aromatic hydrocarbons degradation in saline environment. In this study, two novel catechol 2,3-dioxygenases (C23O1 and C23O2) were cloned and overexpressed from a halophilic bacterial consortium enriched from an oil-contaminated saline soil. Phylogenetic analysis indicated that the novel C23Os and their relatives formed a new branch in subfamily I.2.A of extradiol dioxygenases and the sequence differences were further analyzed by amino acid sequence alignment. Two enzymes with the halotolerant feature were active over a range of 0-30% salinity and they performed more stable at high salinity than in the absence of salt. Surface electrostatic potential and amino acids composition calculation suggested high acidic residues content, accounting for their tolerance to high salinity. Moreover, two enzymes were further characterized. The enzymes activity both increased in the presence of Fe(3+), Fe(2+), Cu(2+) and Al(3+) and showed no significant inhibition by other tested metal ions. The optimal temperatures for the C23Os were 40 °C and 60 °C and their best substrates were catechol and 4-methylcatechol respectively. As the firstly isolated and characterized catechol dioxygenases from halophiles, the two halotolerant C23Os presented novel characteristics suggesting their potential application in aromatic hydrocarbons biodegradation.


Bacterial Proteins , Catechol 2,3-Dioxygenase , Euryarchaeota , Microbial Consortia , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Bacterial Proteins/isolation & purification , Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/genetics , Catechol 2,3-Dioxygenase/isolation & purification , Enzyme Stability/physiology , Euryarchaeota/enzymology , Euryarchaeota/genetics , Hot Temperature , Substrate Specificity/physiology
8.
Chemistry ; 21(3): 1198-207, 2015 Jan 12.
Article En | MEDLINE | ID: mdl-25395055

New tripodal ligand L2 featuring three different pyridyl/imidazolyl-based N-donor units at a bridgehead C atom, from which one of the imidazolyl units is separated by a phenylene linker, was synthesized and investigated with regards to copper(I) complexation. The resulting complex [(L2)Cu]OTf (2(OTf)), the known complex [(L1)Cu]OTf (1(OTf); L1 differs from L2 in that it lacks the phenylene spacer) and [(L3)Cu]OTf (3(OTf)), prepared from a known chiral, tripodal, N-donor ligand featuring pyridyl, pyrazolyl, and imidazolyl donors, were tested as catalysts for the oxidation of sodium 2,4-di-tert-butylphenolate (NaDTBP) with O2. Indeed, they mediated NaDTBP oxidation to give mainly the corresponding catecholate and quinone (Q). None of the complexes 1(OTf), 2(OTf), and 3(OTf) is superior to the others, as yields were comparable and, if the presence of protons is guaranteed by concomitant addition of the phenol DTBP, the oxidation can also be performed catalytically. For all complexes stoichiometric oxidations under certain conditions (concentrated solutions, high NaDTBP content) were found to also generate products typical for metal-mediated intradiol cleavage of the catecholate with O2. As shown representatively for 1(OTf) this dioxygenation sets in at a later stage of the reaction. Initially a copper species responsible for the monooxygenation must form from 1(OTf)/NaDTBP/O2, and only thereafter is the copper species responsible for dioxygenation formed and consumes Q as substrate. Hence, under these circumstances complexes 1(OTf)-3(OTf) show both monooxygenase and catechol dioxygenase activity.


Catechol 2,3-Dioxygenase/chemistry , Coordination Complexes/chemistry , Copper/chemistry , Mixed Function Oxygenases/chemistry , Catalysis , Catechol 2,3-Dioxygenase/metabolism , Catechols/chemistry , Coordination Complexes/metabolism , Hydroxylation , Mixed Function Oxygenases/metabolism , Oxidation-Reduction , Phenols/chemistry , Quinones/chemistry
9.
Acta Biochim Pol ; 61(4): 705-10, 2014.
Article En | MEDLINE | ID: mdl-25337606

c23o gene, encoding catechol 2,3-dioxygenase from Planococcus sp. strain S5 was randomly mutagenized to generate variant forms of the enzyme with higher degradation activity. Additionally, the effect of introduced mutations on the enzyme structure was analyzed based on the putative 3D models the wild-type and mutant enzymes. C23OB58 and C23OB81 mutant proteins with amino acid substitutions in close proximity to the enzyme surface or at the interface and in the vicinity of the enzyme active site respectively showed the lowest activity towards all catecholic substrates. The relative activity of C23OC61 mutant towards para-substituted catechols was 20-30% lower of the wild-type enzyme. In this mutant all changes: F191I, C268R, Y272H, V280A and Y293D were located within the conserved regions of C-terminal domain. From these F191I seems to have significant implications for enzyme activity. The highest activity towards different catechols was found for mutant C23OB65. R296Q mutation improved the activity of C23O especially against 4-chlorocatechol. The relative activity of above-mentioned mutant detected against this substrate was almost 6-fold higher than the wild-type enzyme. These results should facilitate future engineering of the enzyme for bioremediation.


Bacterial Proteins/metabolism , Catechol 2,3-Dioxygenase/metabolism , Planococcus Bacteria/enzymology , Bacterial Proteins/chemistry , Catechol 2,3-Dioxygenase/chemistry , Catechols/metabolism , Mutagenesis , Protein Structure, Secondary , Substrate Specificity
10.
ScientificWorldJournal ; 2014: 598518, 2014.
Article En | MEDLINE | ID: mdl-24693238

Catechol 2,3-dioxygenases (C23Os, E.C.1.13.12.2) are two domain enzymes that catalyze degradation of monoaromatic hydrocarbons. The catalytically active C-domain of all known C23Os comprises ferrous ion ligands as well as residues forming active site pocket. The aim of this work was to examine and discuss the effect of nonsense mutation at position 289 on the activity of catechol 2,3-dioxygenase from Planococcus strain. Although the mutant C23O showed the same optimal temperature for activity as the wild-type protein (35 °C), it exhibited activity slightly more tolerant to alkaline pH. Mutant enzyme exhibited also higher affinity to catechol as a substrate. Its K(m) (66.17 µM) was approximately 30% lower than that of wild-type enzyme. Interestingly, removal of the C-terminal residues resulted in 1.5- to 1.8-fold (P < 0.05) increase in the activity of C23OB61 against 4-methylcatechol and 4-chlorocatechol, respectively, while towards catechol the activity of the protein dropped to about 80% of that of the wild-type enzyme. The results obtained may facilitate the engineering of the C23O for application in the bioremediation of polluted areas.


Carbon Dioxide/chemistry , Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/isolation & purification , Hydrocarbons, Aromatic/chemistry , Planococcus Bacteria/enzymology , Catechol 2,3-Dioxygenase/metabolism , Enzyme Activation , Enzyme Stability , Planococcus Bacteria/classification , Species Specificity , Structure-Activity Relationship , Substrate Specificity
11.
Biophys Chem ; 180-181: 145-52, 2013.
Article En | MEDLINE | ID: mdl-23994541

We have investigated the structure of recombinant catechol 2, 3-dioxygenase (C23O) purified from two species in which the enzyme has evolved to function at different temperature. The two species are mesophilic bacterium Pseudomonas putida strain mt-2 and thermophilic archaea Sulfolobus acidocaldariusDSM639. Using the primary sequence analysis, we show that both C23Os have only 30% identity and 48% similarity but contain conserved amino acid residues forming an active site area around the iron ion. The corresponding differences in homology, but structural similarity in active area residues, appear to provide completely different responses to heating the two enzymes. We confirm this by small angle X-ray scattering and demonstrate that the overall structure of C23O from P. putida is slightly different from its crystalline form whereas the solution scattering of C23O from S. acidocaldarius at temperatures between 4 and 85°C ideally fits the calculated scattering from the single crystal structure. The thermostability of C23O from S. acidocaldarius correlates well with conformation in solution during thermal treatment. The similarity of the two enzymes in primary and tertiary structure may be taken as a confirmation that two enzymes have evolved from a common ancestor.


Catechol 2,3-Dioxygenase/chemistry , Pseudomonas putida/enzymology , Sulfolobus acidocaldarius/enzymology , Amino Acid Sequence , Catalytic Domain , Catechol 2,3-Dioxygenase/genetics , Catechol 2,3-Dioxygenase/metabolism , Molecular Sequence Data , Protein Stability , Protein Structure, Tertiary , Recombinant Proteins/biosynthesis , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Scattering, Small Angle , Sequence Alignment , Sequence Homology, Amino Acid , Temperature , X-Ray Diffraction
12.
J Mol Microbiol Biotechnol ; 23(6): 381-90, 2013.
Article En | MEDLINE | ID: mdl-23921803

In this study, the catechol 2,3-dioxygenase gene that encodes a 307- amino-acid protein was cloned from Planococcus sp. S5. The protein was identified to be a member of the superfamily I, subfamily 2A of extradiol dioxygenases. In order to study residues and regions affecting the enzyme's catalytic parameters, the c23o gene was randomly mutated by error-prone PCR. The wild-type enzyme and mutants containing substitutions within either the C-terminal or both domains were functionally produced in Escherichia coli and their activity towards catechol was characterized. The C23OB65 mutant with R296Q substitution showed significant tolerance to acidic pH with an optimum at pH 5.0. In addition, it showed activity more than 1.5 as high as that of the wild type enzyme and its Km was 2.5 times lower. It also showed altered sensitivity to substrate inhibition. The results indicate that residue at position 296 plays a role in determining pH dependence of the enzyme and its activity. Lower activity toward catechol was shown for mutants C23OB58 and C23OB81. Despite lower activity, these mutants showed higher affinity to catechol and were more sensitive to substrate concentration than nonmutated enzyme.


Catechol 2,3-Dioxygenase/genetics , Catechol 2,3-Dioxygenase/metabolism , Planococcaceae/enzymology , Amino Acid Sequence , Amino Acid Substitution , Catechol 2,3-Dioxygenase/chemistry , Catechols/metabolism , Cloning, Molecular , DNA Mutational Analysis , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , Enzyme Stability , Escherichia coli/genetics , Escherichia coli/metabolism , Hydrogen-Ion Concentration , Kinetics , Molecular Sequence Data , Mutant Proteins/chemistry , Mutant Proteins/genetics , Mutant Proteins/metabolism , Planococcaceae/genetics , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Sequence Analysis, DNA , Sequence Homology, Amino Acid
13.
Bioresour Technol ; 131: 420-8, 2013 Mar.
Article En | MEDLINE | ID: mdl-23376198

In this study, a specific PCR primer set was successfully designed for alkylcatechol 2, 3-dioxygenase genes and applied to detect the presence of this biomarker in 4-t-octylphenol-degrading Acinetobacter sp. strain OP5. A gene cluster (ophRBA1A2A3A4A5A6CEH) encoding multicomponent phenol hydroxylase and alkylcatechol 2, 3-dioxygenase was then cloned from this strain and showed the highest homology to those involved in the published medium-chain alkylphenol gene clusters. The pure enzyme of recombinant cell harboring ophB showed meta-cleavage activities for 4-methylcatechol (1,435%), 4-ethylcatechol (982%), catechol (100%), 4-t-butylcatechol (16.6%), and 4-t-octylcatechol (3.2%). The results suggest that the developed molecular technique is useful and easy in detection of medium/long-chain alkylphenol degradation gene cluster. In addition, it also provides a better understanding of the distribution of biodegradative genes and pathway for estrogenic-active long-chain alkylphenols in bacteria.


Acinetobacter/enzymology , Acinetobacter/genetics , Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/metabolism , Multigene Family/genetics , Phenols/metabolism , Acinetobacter/isolation & purification , Biodegradation, Environmental , Catechol 2,3-Dioxygenase/genetics , Metabolism , Phenols/isolation & purification
14.
Bioresour Technol ; 133: 293-300, 2013 Apr.
Article En | MEDLINE | ID: mdl-23434805

In vitro degradation of pyrene was studied in MSM by three bacterial strains individually, designated as BP10, NJ2 and P2. Among these strains, NJ2 was the highest degrader (60%) of pyrene, followed by BP10 (44%) and the least was P2 (42%) in MSM with pyrene (50 µg ml(-1)) in 8 days. During pyrene degradation, catechol 1,2 dioxygenase (C12O) activity was induced by 13 folds in BP10 and 17 folds in P2 as compared to catechol 2,3 dioxygenase (C23O). However, in NJ2, C23O activity was augmented 1.3 times more than C12O. This clearly indicated that C12O played a major role in pyrene degradation by BP10 and P2, while in NJ2, C23O contributed more to degradation process than C12O. Molecular weight of highly inducible C12O was determined as ~64 kDa by size exclusion chromatography and as ~32 kDa on denaturing SDS PAGE in BP10 which indicated dimeric nature of the enzyme.


Bacteria/drug effects , Bacteria/enzymology , Catechol 1,2-Dioxygenase/isolation & purification , Catechol 2,3-Dioxygenase/isolation & purification , Culture Media/pharmacology , Pyrenes/metabolism , Bacteria/genetics , Bacteria/growth & development , Bacterial Proteins/metabolism , Base Sequence , Biodegradation, Environmental/drug effects , Catechol 1,2-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/chemistry , Electrophoresis, Polyacrylamide Gel , Hydrogen-Ion Concentration/drug effects , Molecular Sequence Data , Molecular Weight , Oxidation-Reduction/drug effects , Phylogeny
15.
Bioprocess Biosyst Eng ; 35(3): 449-57, 2012 Mar.
Article En | MEDLINE | ID: mdl-21858702

The effect of cyclic anaerobic-aerobic conditions on the biodegradative capability of the mixed microbial culture for the azo dye Remazol Brilliant Violet 5R (RBV-5R) was investigated in the sequencing batch reactor (SBR) fed with a synthetic textile wastewater. The SBR had a 12-h cycle time with anaerobic-aerobic periods of 3/9, 6/6 and 9/3 h. General SBR performance was assessed by measurement of catabolic enzymes (catechol 2,3-dioxygenase, azo reductase), chemical oxygen demand (COD), color and amount of aromatic amines. In this study, under steady-state conditions, the anaerobic period of the cyclic SBR was found to allow the reductive decolorization of azo dye. Longer anaerobic periods resulted in higher color removal efficiencies, approximately 71% for the 3-h, 87% for 6-h and 92% for the 9-h duration. Total COD removal efficiencies were over 84% under each of the cyclic conditions and increased as the length of the anaerobic period was increased; however, the highest color removal rate was attained for the cycle with the shortest anaerobic period of 3 h. During the decolorization of RBV-5R, two sulfonated aromatic amines (benzene based and naphthalene based) were formed. Additionally, anaerobic azo reductase enzyme was found to be positively affected with the increasing duration of the anaerobic period; however; it was vice versa for the aerobic catechol 2,3-dioxygenase (C23DO) enzyme.


Azo Compounds/chemistry , Coloring Agents/chemistry , Naphthalenesulfonates/chemistry , Textile Industry , Waste Disposal, Fluid/methods , Water Purification/methods , Aerobiosis , Anaerobiosis , Azo Compounds/metabolism , Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/metabolism , Coloring Agents/metabolism , Naphthalenesulfonates/metabolism
16.
Bioresour Technol ; 102(4): 3709-15, 2011 Feb.
Article En | MEDLINE | ID: mdl-21177104

An investigation was carried out for in vitro degradation of fluoranthene by four bacterial strains (PSM6, PSM7, PSM10 and PSM11) isolated from the petroleum sludge. Although all the strains registered their growth in MSM with 100 ppm fluoranthene, PSM11 growth was better than other strains. Growth of bacterial strains invariably corresponded to their degradation potential of fluoranthene. After 168 h of incubation, 61% fluoranthene was degraded by PSM11, followed by PSM10 (48%) and PSM6 (42%) and the least was recorded in PSM7 (41%). Besides, 11% loss in fluoranthene was attributed to abiotic factors. Thirty-eight times more activity of catechol 2,3-dioxygenase than catechol 1,2-dioxygenase showed that it played a significant role in fluoranthene degradation. Molecular weight of catechol 2,3-dioxygenase isolated from PSM11 was determined as ∼ 136 kDa by size exclusion chromatography and 34 kDa on denaturing SDS-PAGE, indicating tetrameric nature of the enzyme.


Biodegradation, Environmental , Fluorenes/chemistry , Petroleum/analysis , Sewage/chemistry , Biotechnology/methods , Catechol 1,2-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/chemistry , Chromatography/methods , Electrophoresis, Polyacrylamide Gel , Fluorenes/metabolism , In Vitro Techniques , Iron/chemistry , Phylogeny , Spectrophotometry, Ultraviolet/methods , Stem Cells , Time Factors
17.
Biochemistry (Mosc) ; 75(5): 562-9, 2010 May.
Article En | MEDLINE | ID: mdl-20632934

The ability of Pseudomonas fluorescens 26K strain to utilize naphthalene at concentrations up to 600 mg/liter as the sole source of carbon and energy in mineral liquid media was shown. Using HPLC, TLC, and mass-spectrometry, the intermediates of naphthalene transformation by this strain were identified as naphthalene cis-1,2-dihydrodiol, salicylaldehyde, salicylate, catechol, 2-hydroxymuconic semialdehyde, and 1-naphthol. Catechol 2,3-dioxygenase (a homotetramer with native molecular mass 125 kDa) and NAD+-dependent homohexameric naphthalene cis-1,2-dihydrodiol dehydrogenase with native molecular mass 160 kDa were purified from crude extract of the strain and characterized. NAD+-dependent homodimeric salicylaldehyde dehydrogenase with molecular mass 110 kDa was purified and characterized for the first time. Based on the data, a pathway of naphthalene degradation by P. fluorescens 26K is suggested.


Aldehyde Oxidoreductases/chemistry , Catechol 2,3-Dioxygenase/chemistry , Naphthalenes/metabolism , Oxidoreductases Acting on CH-CH Group Donors/chemistry , Pseudomonas fluorescens/enzymology , Aldehyde Oxidoreductases/isolation & purification , Aldehydes/analysis , Catechol 2,3-Dioxygenase/isolation & purification , Catechols/analysis , Chromatography, High Pressure Liquid , Electrophoresis, Polyacrylamide Gel , Fatty Acids, Unsaturated/analysis , Mass Spectrometry , Naphthols/analysis , Oxidoreductases Acting on CH-CH Group Donors/isolation & purification , Salicylates/analysis
18.
Appl Biochem Biotechnol ; 162(1): 116-26, 2010 Sep.
Article En | MEDLINE | ID: mdl-19688300

Catechol-2, 3-dioxygenase (C23O) from Pseudomonas sp. CGMCC2953 identified in our laboratory, which is one of the key enzymes responsible for phenanthrene biodegradation, was expected to get better characteristics tolerant to environment for its further application. With the aim of improving the enzyme properties by introducing intermolecular disulfide bonds, X-ray structure of a C23O from Pseudomonas putida MT-2, a highly conserved homologous with the C23O from Pseudomonas sp. CGMCC2953, was directly used to find the potential sites for forming disulfide bonds between two monomers of the target C23O. Two sites, Ala229 and His294, were identified and mutated to cysteine, respectively, by using site mutagenesis. The expected disulfide bond between these two CYS residues was confirmed with both molecular modeling and experimental results. The optimum temperature of the mutated enzyme was widened from 40 to 40 approximately 50 degrees C. The mutated C23O became more alkalescency stable compared with the wild-type enzyme, e.g., 75% of the maximal enzyme activity retained even under pH 9.5 while 50% residue for the wild-type one. Improvement of thermostability of the mutated C230 with the redesigned disulfide was also confirmed.


Catechol 2,3-Dioxygenase/genetics , Catechol 2,3-Dioxygenase/metabolism , Mutagenesis, Site-Directed/methods , Amino Acid Sequence , Catechol 2,3-Dioxygenase/chemistry , Conserved Sequence , Disulfides/chemistry , Enzyme Stability , Escherichia coli/genetics , Hydrogen-Ion Concentration , Internet , Kinetics , Models, Molecular , Molecular Sequence Data , Mutation , Protein Conformation , Pseudomonas/enzymology , Temperature
19.
J Phys Chem B ; 114(2): 987-92, 2010 Jan 21.
Article En | MEDLINE | ID: mdl-20038148

A bacterium, Pseudomonas putida SH1, which can catabolize phenol, naphthalene, or cresol as the sole carbon and energy source, was isolated from a petroleum-contaminated site in Taiwan. The catechol 2,3-dioxygenase (C23O) was purified from this bacterial strain when grown on naphthalene as the sole carbon and energy source. The enzyme is composed of four identical subunits with a native molecular weight of 128 +/- 5 kD. Small-angle neutron scattering (SANS) techniques were employed to study the thermal effects on the structural conformation of this enzyme in solution. The SANS measurements revealed distinct changes in the size of the enzyme between 50 and 80 degrees C, and the size was not restored during the subsequent cooling. The enzyme started to denature at 55 degrees C, and the structure was destroyed by the time the temperature reached 80 degrees C, at which the enzyme had become more than twice the original size. The optimal catalytic temperature of the enzyme was at 50 degrees C. The half-life of the activity at this temperature was 45 min. The enzyme activity increases starting from 25 degrees C and reaches its maximum at 50 degrees C, below which no obvious change in the size of the enzyme is found. Noticeable enlargement of the enzyme is revealed when the enzymatic activity starts to fall. By combination of SANS measurement and biochemical properties of the enzyme, this study demonstrates the correlation of enzyme size in solution and catalytic activity upon a heat treatment. In addition, for a protein composed of multiple subunits, the shape of the enzyme and the dissociation of the enzyme subunits in a thermal cycle were also demonstrated by SANS methodology.


Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/metabolism , Pseudomonas putida/enzymology , Amino Acid Sequence , Catechol 2,3-Dioxygenase/isolation & purification , Enzyme Stability , Models, Molecular , Molecular Sequence Data , Protein Conformation , Sequence Alignment , Temperature
20.
Inorg Chem ; 47(24): 11847-56, 2008 Dec 15.
Article En | MEDLINE | ID: mdl-19006298

A series of high-spin iron(III) complexes, {N-R-2-[(pyridin-2-ylmethyl)amino]acetamide}FeCl(3) [R = mesityl (1b), 2,6-Et(2)C(6)H(3) (2b), and 2,6-i-Pr(2)C(6)H(3) (3b)], that functionally emulate the intradiol catechol dioxygenase enzyme are reported. In particular, these enzyme mimics, 1b, 2b, and 3b, which utilized molecular oxygen in carrying out the intradiol catechol cleavage of 3,5-di-tert-butylcatechol with high regioselectivity (ca. 81-85%) at room temperature under ambient conditions, were designed by employing a new class of a facially bound [N(2)O] ligand, namely, N-R-2-[(pyridin-2-ylmethyl)amino]acetamide [R = mesityl (1a), 2,6-Et(2)C(6)H(3) (2a), and 2,6-i-Pr(2)C(6)H(3) (3a)]. The density functional theory studies revealed that the intradiol catechol cleavage reaction proceeded by an iron(III) peroxo intermediate that underwent 1,2-Criegee rearrangement to yield the intradiol catechol cleaved products analogous to the native enzyme.


Catechol 2,3-Dioxygenase/chemistry , Catechol 2,3-Dioxygenase/metabolism , Catechols/metabolism , Nitrogen Oxides/chemistry , Electron Spin Resonance Spectroscopy/methods , Iron/chemistry , Kinetics , Ligands , Models, Molecular , Molecular Conformation , Oxygen/chemistry , Thermodynamics , X-Ray Diffraction
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