In silico and experimental characterization of chimeric Bacillus thermocatenulatus lipase with the complete conserved pentapeptide of Candida rugosa lipase.

Abstract:

:Lipases are one of the highest value commercial enzymes as they have broad applications in detergent, food, pharmaceutical, and dairy industries. To provide chimeric Bacillus thermocatenulatus lipase (BTL2), the completely conserved pentapeptide (¹¹²Ala-His-Ser-Gln-Gly¹¹⁶) was replaced with similar sequences (²⁰⁷Gly-Glu-Ser-Ala-Gly²¹¹) of Candida rugosa lipase (CLR) at the nucleophilic elbow region. For this purpose, three mutations including A112G, H113E, and Q115A were inserted in the conserved pentapeptide sequence of btl2 gene. Based on the crystal structures of 2W22, the best structure of opened form of the chimeric lipases were garnered using the MODELLER v9.10 software. The native and chimeric lipases were docked to a set of ligands, and a trial version of Molegro Virtual Docker (MVD) software was used to obtain the energy values. Docking results confirmed chimeric lipase to be better than the native lipase. Following the in silico study, cloning experiments were conducted and expression of native and chimeric btl2 gene in Pichia pastoris was performed. The native and chimeric lipases were purified, and the effect of these mutations on characteristics of chimeric lipase studied and then compared with those of native lipase. Chimeric lipase exhibited 1.6-fold higher activity than the native lipase at 55 °C. The highest percentage of both lipases activity was observed at 60 °C and pH of 8.0. The ion Ca²⁺ slightly inhibited the activity of both lipases, whereas the organic solvent enhanced the lipase stability of chimeric lipase as compared with the native lipase. According to the results, the presence of two glycine residues at the conserved pentapeptide region of this chimeric lipase (¹¹²Gly-Glu-Ser-Ala-Gly¹¹⁶) may increase the flexibility of the nucleophilic elbow region and affect the enzyme activity level.

authors

Hosseini M,Karkhane AA,Yakhchali B,Shamsara M,Aminzadeh S,Morshedi D,Haghbeen K,Torktaz I,Karimi E,Safari Z

doi

10.1007/s12010-012-0014-0

subject

Has Abstract

pub_date

2013-02-01 00:00:00

pages

773-85

issue

3

eissn

0273-2289

issn

1559-0291

journal_volume

169

pub_type

杂志文章
  • Enhanced production of high-quality biomass, delta-aminolevulinic acid, bilipigments, and antioxidant capacity of a food alga Nostochopsis lobatus.

    abstract::The growing interest in natural food has raised the global demand for nutraceuticals. We studied enhanced production of biomass, delta-aminolevulinic acid (delta-ALA), bili pigments and antioxidant capacity of a food alga Nostochopsis lobatus in a full-factorial (three level) design with supplemental Zn, glutamine, an...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-008-8149-8

    authors: Pandey U,Pandey J

    更新日期:2008-08-01 00:00:00

  • Development of high-performance and rapid immunoassay for model food allergen lysozyme using antibody-conjugated bacterial magnetic particles and fully automated system.

    abstract::A high-performance and rapid chemiluminescence immunoassay for model food allergen lysozyme, one of the major allergenic components in egg white, using antibody-conjugated bacterial magnetic particles and a fully automated system was developed. This system contains a reaction station, tip rack, and an eight-tip pipett...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1385/abab:91-93:1-9:109

    authors: Sato R,Takeyama H,Tanaka T,Matsunaga T

    更新日期:2001-04-01 00:00:00

  • Enhanced secondary metabolite biosynthesis by elicitation in transformed plant root system: effect of abiotic elicitors.

    abstract::Plants generally produce secondary metabolites in nature as a defense mechanism against pathogenic and insect attack. In this study, we applied several abiotic elicitors in order to enhance growth and ginseng saponin biosynthesis in the hairy roots of Panax ginseng. Generally, elicitor treatments were found to inhibit...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1385/abab:130:1:436

    authors: Jeong GT,Park DH

    更新日期:2006-04-01 00:00:00

  • Extraction of co-products from biomass: example of thermal degradation of silymarin compounds in subcritical water.

    abstract::In an effort to increase revenues from a given feedstock, valuable co-products could be extracted prior to biochemical or thermochemical conversion with subcritical water. Although subcritical water shows significant promise in replacing organic solvents as an extraction solvent, compound degradation has been observed...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-009-8594-z

    authors: Duan L,Wallace SN,Engelberth A,Lovelady JK,Clausen EC,King JW,Carrier DJ

    更新日期:2009-08-01 00:00:00

  • Solid Flocculation and Emulsifying Activities of the Lipopolysaccharide Produced by Trichosporon mycotoxinivorans CLA2.

    abstract::The objective of this study was to evaluate the capability of a lipopolysaccharide, produced by Trichosporon mycotoxinivorans CLA2 using residue of biodiesel processing, to flocculate two different solids in suspension. In addition, the emulsifying activity and the stability of this lipopolysaccharide in response to p...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2332-0

    authors: Domingues VS,Monteiro AS,Ferreira GF,Santos VL

    更新日期:2017-05-01 00:00:00

  • Ultrafiltration of thin stillage from conventional and e-mill dry grind processes.

    abstract::We used ultrafiltration (UF) to evaluate membrane filtration characteristics of thin stillage and determine solids and nutrient compositions of filtered streams. To obtain thin stillage, corn was fermented using laboratory methods. UF experiments were conducted in batch mode under constant temperature and flow rate co...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-010-9114-x

    authors: Arora A,Dien BS,Belyea RL,Wang P,Singh V,Tumbleson ME,Rausch KD

    更新日期:2011-05-01 00:00:00

  • L-Ribose production from L-arabinose by immobilized recombinant Escherichia coli co-expressing the L-arabinose isomerase and mannose-6-phosphate isomerase genes from Geobacillus thermodenitrificans.

    abstract::L-Ribose is an important precursor for antiviral agents, and thus its high-level production is urgently demanded. For this aim, immobilized recombinant Escherichia coli cells expressing the L-arabinose isomerase and variant mannose-6-phosphate isomerase genes from Geobacillus thermodenitrificans were developed. The im...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-013-0547-x

    authors: Kim KR,Seo ES,Oh DK

    更新日期:2014-01-01 00:00:00

  • In silico characterization of alkaline proteases from different species of Aspergillus.

    abstract::A total of 49 protein sequences of alkaline proteases retrieved from GenBank representing different species of Aspergillus have been characterized for various physiochemical properties, homology search, multiple sequence alignment, motif, and super family search and phylogenetic tree construction. The sequence level h...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-011-9420-y

    authors: Morya VK,Yadav S,Kim EK,Yadav D

    更新日期:2012-01-01 00:00:00

  • Development of a differential volume reactor system for soil biodegradation studies.

    abstract::A bench scale experimental system was developed for the analysis of polycyclic aromatic hydrocarbon (PAH) degradation by mixed microbial cultures in PAH contaminated Manufactured Gas Plant (MGP) soils and on sand. The reactor system was chosen in order to provide a fundamental protocol capable for evaluating the perfo...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/BF02922585

    authors: Webb OF,Phelps TJ,Bienkowski PR,DiGrazia PM,Reed GD,Applegate B,White DC,Sayler GS

    更新日期:1991-04-01 00:00:00

  • Role of selenium supplementation and heat stress on trehalose and glutathione content in Saccharomyces cerevisiae.

    abstract::The role of selenium (Se) supplementation on glutathione, a potent intracellular redox buffer, and trehalose, a well-known stress protectant molecule, was studied. The amount of glutathione decreased significantly while that of trehalose showed a minor decrease in the cells grown in Se-supplemented medium. After heat ...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1385/abab:133:1:1

    authors: Sharma SC,Anand MS

    更新日期:2006-04-01 00:00:00

  • Expression and Characterization of a Novel Antifungal Exo-β-1,3-glucanase from Chaetomium cupreum.

    abstract::A novel β-1,3-glucanase gene, designated Ccglu17A, was cloned from the biological control fungus Chaetomium cupreum Ame. Its 1626-bp open reading frame encoded 541 amino acids. The corresponding amino acid sequence showed highest identity (67 %) with a glycoside hydrolase family 17 β-1,3-glucanase from Chaetomium glob...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2325-z

    authors: Jiang C,Song J,Cong H,Zhang J,Yang Q

    更新日期:2017-05-01 00:00:00

  • Molecular Cloning and Characterization of a Novel Cold-Adapted Alkaline 1,3-α-3,6-Anhydro-L-galactosidase, Ahg558, from Gayadomonas joobiniege G7.

    abstract::Agar, a major polysaccharide of red algal cells, is degraded by β-agarases into neoagarobiose, which is further hydrolyzed into the monomers, D-galactose and 3,6-anhydro-L-galactose, by 1,3-α-3,6-anhydro-L-galactosidases including α-1,3-L-neoagarooligasaccharide hydrolase (α-NAOSH). A novel cold-adapted alkaline α-NAO...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-019-02963-w

    authors: Asghar S,Lee CR,Chi WJ,Kang DK,Hong SK

    更新日期:2019-08-01 00:00:00

  • An alpha-glucuronidase enzyme activity assay adaptable for solid phase screening.

    abstract::Glucuronic acid is a common chemical moiety that decorates the xylan polymer of hemicellulose. This chemical substituent impairs both enzymatic and acidic hydrolysis of xylosidic bonds. The alpha-glucuronidase enzyme hydrolyzes the 1,2-linked glucuronic acid from the terminal, non-reducing xylose of xylo-oligosacchari...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-008-8408-8

    authors: Lee CC,Wagschal K,Kibblewhite-Accinelli RE,Orts WJ,Robertson GH,Wong DW

    更新日期:2009-05-01 00:00:00

  • Development of a method to quantify gene expression levels for glycosylation pathway genes in chinese hamster ovary cell cultures.

    abstract::Changes in protein glycosylation owing to changes in environmental conditions are not well understood. To better understand these relationships, methods to quantify controlling factors are needed. Because enzymes are translated from genes, the ability to quantify gene expression levels for glycosylation-related enzyme...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1385/abab:125:3:159

    authors: Clark KJ,Harcum SW,Griffiths J,Bailey KM

    更新日期:2005-06-01 00:00:00

  • Simultaneous saccharification and fermentation of cellulosic biomass to acetic acid.

    abstract::A strain of Clostridium thermoaceticum (ATCC 49707) was evaluated for its homoacetate potential. This thermophilic anaerobe best produces acetate from glucose at pH 6.0 and 59 degrees C with a yield of 83% of theoretical. Enzyme hydrolysis of two substrates, a-cellulose and a pulp mill sludge, yielded 68% and 70% dige...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1385/abab:84-86:1-9:963

    authors: Borden JR,Lee YY,Yoon HH

    更新日期:2000-04-01 00:00:00

  • Biodiesel residual glycerol metabolism by Klebsiella pneumoniae: pool of metabolites under anaerobiosis and oxygen limitation as a function of feeding rates.

    abstract::The metabolism of residual glycerol from biodiesel synthesis by Klebsiella pneumoniae BLh-1 was investigated in this study. Batch and fed-batch cultivations were performed in bioreactors under anaerobic and oxygen limitation conditions. Results of batch cultivations showed that the main product was 1,3-propanediol (1,...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-013-0114-5

    authors: Rossi DM,de Souza EA,Ayub MA

    更新日期:2013-03-01 00:00:00

  • Identification of heat-related ESTs in moth bean through suppression subtraction hybridization.

    abstract::Moth bean (Vigna aconitifolia (Jacq.) Marechal), an important grain-legume crop grown in hot desert regions of Thar, under scorching sun rays, was investigated for heat tolerance at molecular level. In the present study, we constructed a forward suppression subtractive hybridization (SSH) cDNA library of heat tolerant...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-014-1011-2

    authors: Gurjar K,Rampuria S,Joshi U,Palit P,Bhatt KV,Mohapatra T,Sharma R

    更新日期:2014-08-01 00:00:00

  • Biosynthesis of silver nanoparticles by Bacillus stratosphericus spores and the role of dipicolinic acid in this process.

    abstract::Seeking for simple, rapid, and environmental-friendly routes to produce metal nanoparticles is quite attractive for various biotechnological applications. Biological synthesis method of silver nanoparticles has been found very promising due to their non-toxicity and simplicity. Here, the spores of Bacillus stratospher...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-014-1055-3

    authors: Hosseini-Abari A,Emtiazi G,Lee SH,Kim BG,Kim JH

    更新日期:2014-09-01 00:00:00

  • Opposing effects of external gibberellin and Daminozide on Stevia growth and metabolites.

    abstract::Steviol glycosides (SVglys) and gibberellins are originated from the shared biosynthesis pathway in Stevia (Stevia rebaudiana Bertoni). In this research, two experiments were conducted to study the opposing effects of external gibberellin (GA3) and Daminozide (a gibberellin inhibitor) on Stevia growth and metabolites....

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-014-1310-7

    authors: Karimi M,Hashemi J,Ahmadi A,Abbasi A,Pompeiano A,Tavarini S,Guglielminetti L,Angelini LG

    更新日期:2015-01-01 00:00:00

  • Properties of a thermostable nonspecific fructofuranosidase produced by Cladosporium cladosporioides cells for hydrolysis of Jerusalem artichoke extract.

    abstract::Thermostable invertase (E.C. 3.2.1.26) and inulinase 2,1-beta-D-fructan fructanohydrolase (E.C. 3.2.1.7) activities were produced by Cladosporium cladosporioides grown on sucrose, inulin, yam extract, or Jerusalem artichoke. The ratio I (inulinase)/S(invertase) activity was between 0.31 and 0.36. Both activities had h...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/BF02922120

    authors: Ferreira MS,De Andrade AV,Kennedy JF

    更新日期:1991-10-01 00:00:00

  • A biocompatible needle-type glucose sensor based on platinum-electroplated carbon electrode.

    abstract::A biocompatible needle-type glucose sensor with a 3-electrode configuration was constructed. A platinum-electroplated carbon stick was used as the working electrode, Ag/AgCl as the reference electrode, and a disposable hypodermic needle made of stainless steel as the counter electrode. A Nafion membrane, an immobilize...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/BF02921780

    authors: Chen CY,Tamiya E,Ishihara K,Kosugi Y,Su YC,Nakabayashi N,Karube I

    更新日期:1992-09-01 00:00:00

  • In Vivo Efficacy of Latex from Calotropis procera in Ameliorating Fever-Biochemical Characteristics and Plausible Mechanism.

    abstract::Calotropis procera latex fractions possessing anti-inflammatory property were characterized for their biochemical properties, compared for their efficacy in ameliorating fever in rats and their mechanism of action was elucidated. Aqueous fraction and methanol extract (AqDL and MeDL) were derived from the dried latex (...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2395-y

    authors: Kumar VL,Guruprasad B,Fatmi SMA,Chaudhary P,Alencar NMN,Lima-Filho JVM,Ramos MV

    更新日期:2017-07-01 00:00:00

  • Decolorization and biodegradation of Rubine GFL by microbial consortium GG-BL in sequential aerobic/microaerophilic process.

    abstract::This study represents the development of a new batch method by consortium GG-BL using two microbial cultures viz., Galactomyces geotrichum MTCC 1360 and Brevibacillus laterosporus MTCC 2298, by varying environmental conditions for the decolorization and biodegradation of Rubine GFL. Consortium was found to give better...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-012-9585-z

    authors: Waghmode TR,Kurade MB,Lade HS,Govindwar SP

    更新日期:2012-07-01 00:00:00

  • RAPD and ISSR Marker-Based Comparative Evaluation of Genetic Diversity Among Indian Germplasms of Euryale ferox: an Aquatic Food Plant.

    abstract::Euryale ferox Salisbury is an important aquatic food plant cultivated largely in eastern India. E. ferox is a monotypic genus, and breeding programmes have mostly relied on the variability present in the primary gene pool. Knowledge of the genetic structure of the population is limited, and there are very few reports ...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2171-z

    authors: Kumar H,Priya P,Singh N,Kumar M,Choudhary BK,Kumar L,Singh IS,Kumar N

    更新日期:2016-12-01 00:00:00

  • Production of Mycophenolic Acid by Penicillium brevicompactum Using Solid State Fermentation.

    abstract::Solid-state fermentation using the microfungus Penicillium brevicompactum for the production of mycophenolic acid is reported in this paper. Of the initial substrates tested (whole wheat, cracked wheat, long grain Basmati rice, and short grain Parmal rice), Parmal rice proved to be the best. Under initial conditions, ...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2313-3

    authors: Patel G,Patil MD,Soni S,Chisti Y,Banerjee UC

    更新日期:2017-05-01 00:00:00

  • Production and characterization of a milk-clotting protease produced in submerged fermentation by the thermophilic fungus Thermomucor indicae-seudaticae N31.

    abstract::Proteases are some of the most important industrial enzymes, and one of their main applications is for the production of cheese in the dairy industry. Due to a shortage of animal rennet, microbial coagulant proteases are being sought. In this work, the production of microbial rennet from Thermomucor indicae-seudaticae...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-013-0655-7

    authors: Silva BL,Geraldes FM,Murari CS,Gomes E,Da-Silva R

    更新日期:2014-02-01 00:00:00

  • Potential of Kalopanax septemlobus leaf extract in synthesis of silver nanoparticles for selective inhibition of specific bacterial strain in mixed culture.

    abstract::Silver nanoparticles (AgNPs) were synthesised using Kalopanax septemlobus plant leaf extracts. UV-visible spectrophotometric, Fourier-transform infrared, electron dispersive X-ray spectroscopy, scanning electron microscopy (SEM) and transmission electron microscopy (TEM) analyses confirmed synthesis of AgNPs. TEM micr...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-014-1077-x

    authors: Salunke BK,Sawant SS,Kim BS

    更新日期:2014-09-01 00:00:00

  • Molecular Cloning, Expression Analysis, and Preliminarily Functional Characterization of the Gene Encoding Protein Disulfide Isomerase from Jatropha curcas.

    abstract::Reactive oxygen species (ROS) in plants, arising from various environmental stresses, impair the thiol-contained proteins that are susceptible to irregular oxidative formation of disulfide bonds, which might be alleviated by a relatively specific modifier called protein disulfide isomerase (PDI). From our previous dat...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-015-1585-3

    authors: Wang H,Zou Z,Gong M

    更新日期:2015-05-01 00:00:00

  • The Effect of Ionic Liquid Pretreatment on the Bioconversion of Tomato Processing Waste to Fermentable Sugars and Biogas.

    abstract::Tomato pomace is an abundant lignocellulosic waste stream from industrial tomato processing and therefore a potential feedstock for production of renewable biofuels. However, little research has been conducted to determine if pretreatment can enhance release of fermentable sugars from tomato pomace. Ionic liquids (ILs...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2061-4

    authors: Allison BJ,Cádiz JC,Karuna N,Jeoh T,Simmons CW

    更新日期:2016-08-01 00:00:00

  • Comparative Analyses of the Relative Effects of Various Mutations in Major Histocompatibility Complex I-a Way to Predict Protein-Protein Interactions.

    abstract::Protein-protein interactions (PPIs) play pivotal roles in most of the biological processes. PPI dysfunctions are therefore associated with disease situations. Mutations often lead to PPI dysfunctions, but there are certain other types of mutations which do not cause any appreciable abnormalities. This second type of m...

    journal_title:Applied biochemistry and biotechnology

    pub_type: 杂志文章

    doi:10.1007/s12010-016-2090-z

    authors: Ali A,Biswas R,Bhattacharjee S,Nath P,Pan S,Bagchi A

    更新日期:2016-09-01 00:00:00