Thermostabilization of the uronate dehydrogenase from Agrobacterium tumefaciens by semi-rational design.

Abstract:

:Aldaric acids represent biobased 'top value-added chemicals' that have the potential to substitute petroleum-derived chemicals. Until today they are mostly produced from corresponding aldoses using strong chemical oxidizing agents. An environmentally friendly and more selective process could be achieved by using natural resources such as seaweed or pectin as raw material. These contain large amounts of uronic acids as major constituents such as glucuronic acid and galacturonic acid which can be converted into the corresponding aldaric acids via an enzyme-based oxidation using uronate dehydrogenase (Udh). The Udh from Agrobacterium tumefaciens (UdhAt) features the highest catalytic efficiency of all characterized Udhs using glucuronic acid as substrate (829 s-1 mM-1). Unfortunately, it suffers from poor thermostability. To overcome this limitation, we created more thermostable variants using semi-rational design. The amino acids for substitution were chosen according to the B factor in combination with four additional knowledge-based criteria. The triple variant A41P/H101Y/H236K showed higher kinetic and thermodynamic stability with a T 5015 value of 62.2 °C (3.2 °C improvement) and a ∆∆GU of 2.3 kJ/mol compared to wild type. Interestingly, it was only obtained when including a neutral mutation in the combination.

journal_name

AMB Express

journal_title

AMB Express

authors

Roth T,Beer B,Pick A,Sieber V

doi

10.1186/s13568-017-0405-2

subject

Has Abstract

pub_date

2017-12-01 00:00:00

pages

103

issue

1

issn

2191-0855

pii

10.1186/s13568-017-0405-2

journal_volume

7

pub_type

杂志文章
  • MicroRNA-466c-3p exerts protective effect on neuronal apoptosis and improves functional recovery post spinal cord injury via mitochondrial apoptotic pathway.

    abstract::Spinal cord injury (SCI) is involved with abnormal expression of miRNAs (miRs) which are responsible for some IIry injury responses which include apoptosis, inflammation and oxidative stress. Mechanisms involving miRs induced apoptosis still needs to be investigated. In the present work we developed a rat model of SCI...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-01033-3

    authors: An Y,Li J,Yuan Q,Fan M

    更新日期:2020-06-15 00:00:00

  • Mixed alcoholic fermentation of Schizosaccharomyces pombe and Lachancea thermotolerans and its influence on mannose-containing polysaccharides wine Composition.

    abstract::This study researched the winemaking performance of new biotechnology involving the cooperation of Lachancea and Schizosaccharomyces genera in the production of wine. In all fermentations where Lachancea thermotolerans was involved, higher lactic acid concentrations appeared, while all fermentations where Schizosaccha...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-019-0738-0

    authors: Benito Á,Calderón F,Benito S

    更新日期:2019-02-02 00:00:00

  • Cloning and expression of a novel α-1,3-arabinofuranosidase from Penicillium oxalicum sp. 68.

    abstract::The discovery and creation of biocatalysts for plant biomass conversion are essential for industrial demand and scientific research of the plant cell wall. α-1,2 and α-1,3-L-arabinofuranosidases are debranching enzymes that catalyzing hydrolytic release of α-L-arabinofuranosyl residues in plant cell wall. Gene databas...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-018-0577-4

    authors: Hu Y,Yan X,Zhang H,Liu J,Luo F,Cui Y,Wang W,Zhou Y

    更新日期:2018-04-02 00:00:00

  • Enzyme additives influence bacterial communities of Medicago sativa silage as determined by Illumina sequencing.

    abstract::The goal of the present study was to evaluate the effects of enzymes (cellulase combined with galactosidase) and their combination with Lactobacillus plantarum (LP) on bacterial diversity in alfalfa silages using high-throughput sequencing. Alfalfa forages were treated with or without cellulase + ɑ-galactosidase (CEGA...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-01158-5

    authors: Hu Z,Ma D,Niu H,Chang J,Yu J,Tong Q,Li S

    更新日期:2021-01-06 00:00:00

  • Utilization of vinasse for production of poly-3-(hydroxybutyrate-co-hydroxyvalerate) by Haloferax mediterranei.

    abstract:: Vinasse, a highly polluting waste of the ethanol industry was utilized for the production of polyhydroxyalkanoate (PHA) by the extremely halophilic archaeon, Haloferax mediterranei in shake-flasks. Following pre-treatment through adsorption on activated carbon, 25%-50% (v/v) pre-treated vinasse was utilized leading t...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-2-34

    authors: Bhattacharyya A,Pramanik A,Maji SK,Haldar S,Mukhopadhyay UK,Mukherjee J

    更新日期:2012-07-09 00:00:00

  • Adaptive response of Rhodococcus opacus PWD4 to salt and phenolic stress on the level of mycolic acids.

    abstract::Mycolata form a group of Gram-positive bacteria with unique cell envelope structures that are known for their high tolerance against antibiotics and both aromatic and aliphatic hydrocarbons. An important part of the unique surface structure of the mycolata is the presence of long chain α-alkyl-β-hydroxy fatty acids, t...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-016-0241-9

    authors: de Carvalho CCCR,Fischer MA,Kirsten S,Würz B,Wick LY,Heipieper HJ

    更新日期:2016-12-01 00:00:00

  • Bioconversion of curcumin into calebin-A by the endophytic fungus Ovatospora brasiliensis EPE-10 MTCC 25236 associated with Curcuma caesia.

    abstract::Calebin-A is a curcuminoid compound reported to be present in Curcuma longa rhizome. The current study was aimed to isolate and characterize calebin-A from Curcuma caesia rhizome and its production through biotransformation approach using endophytic fungus. C. caesia rhizomes of different ages were subjected to analys...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-019-0802-9

    authors: Majeed A,Majeed M,Thajuddin N,Arumugam S,Ali F,Beede K,Adams SJ,Gnanamani M

    更新日期:2019-05-29 00:00:00

  • Autolysis of Pichia pastoris induced by cold.

    abstract::The production of recombinant biopharmaceutical proteins is a multi-billion dollar market. Protein recovery represents a major part of the production costs. Pichia pastoris is one of the microbial systems most used for the production of heterologous proteins. The use of a cold-induced promoter to express lytic enzymes...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-017-0397-y

    authors: Bartolo-Aguilar Y,Dendooven L,Chávez-Cabrera C,Flores-Cotera LB,Hidalgo-Lara ME,Villa-Tanaca L,Marsch R

    更新日期:2017-12-01 00:00:00

  • Optimisation of enzymatic hydrolysis of cassava peel to produce fermentable sugars.

    abstract::Enzymatic hydrolysis of cassava peels was evaluated using cellulase and beta-glucanase enzymes and their mixtures at three different enzyme loadings with time. The pH of the medium used for hydrolysis was 5 and the temperature was 50 °C. The efficiency of the hydrolysis using beta-glucanase was better than cellulase a...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-015-0146-z

    authors: Bayitse R,Hou X,Bjerre AB,Saalia FK

    更新日期:2015-12-01 00:00:00

  • Microbial production of Propionic and Succinic acid from Sorbitol using Propionibacterium acidipropionici.

    abstract::Three sequential fermentative batches were carried out with cell recycle in four simultaneously operating bioreactors maintained at pH 6.5, 30°C, and 100 rpm. P. acidipropionici ATCC 4875 was able to produce propionic and succinic acid from sorbitol. The concentration of propionic acid decreased slightly from 39.5 ± 5...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-015-0095-6

    authors: Duarte JC,Valença GP,Moran PJ,Rodrigues JA

    更新日期:2015-02-20 00:00:00

  • Effect of the salts of deep ocean water on the production of cordycepin and adenosine of Cordyceps militaris-fermented product.

    abstract::Cordyceps militaris is a type of entomogenous fungi and has been widely used as a medicinal fungus in Asia. Cordycepin produced by C. militaris has also been found to protect the liver. Moreover, deep ocean water (DOW) was proven to increase the functional compounds of functional fungi-fermented products. However, the...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-015-0140-5

    authors: Hung YP,Wang JJ,Wei BL,Lee CL

    更新日期:2015-12-01 00:00:00

  • Production, characterization and bioinformatics analysis of L-asparaginase from a new Stenotrophomonas maltophilia EMCC2297 soil isolate.

    abstract::An exhaustive screening program was applied for scoring a promising L-asparaginase producing-isolate. The recovered isolate was identified biochemically and molecularly and its L-asparaginase productivity was optimized experimentally and by Response Surface Methodology. The produced enzyme was characterized experiment...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-01005-7

    authors: Abdelrazek NA,Elkhatib WF,Raafat MM,Aboulwafa MM

    更新日期:2020-04-15 00:00:00

  • Construction of a simple biocatalyst using psychrophilic bacterial cells and its application for efficient 3-hydroxypropionaldehyde production from glycerol.

    abstract::Most whole cell biocatalysts have some problems with yields and productivities because of various metabolites produced as byproducts and limitations of substrate uptake. We propose a psychrophile-based simple biocatalyst for efficient bio-production using mesophilic enzymes expressed in psychrophilic Shewanella living...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-3-69

    authors: Tajima T,Fuki K,Kataoka N,Kudou D,Nakashimada Y,Kato J

    更新日期:2013-12-05 00:00:00

  • Family 1 carbohydrate binding-modules enhance saccharification rates.

    abstract::Cellulose degrading enzymes usually have a two-domain structure consisting of a catalytic domain and a non-catalytic carbohydrate-binding module. Although it is well known the importance of those modules in cell wall degrading process, their function is not yet fully understood. Here, we analyze the cellulose-hydrolys...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-014-0036-9

    authors: Mello BL,Polikarpov I

    更新日期:2014-04-25 00:00:00

  • Metagenomic analysis reveals potential interactions in an artificial coculture.

    abstract::Disentangling the interactions between cyanobacteria and associated bacterial community is important for understanding the mechanisms that mediate the formation of cyanobacterial blooms in freshwater ecosystems. Despite the fact that a metagenomic approach enables researchers to profile the structure of microbial comm...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-017-0490-2

    authors: Ren M,Zhang G,Ye Z,Qiao Z,Xie M,Lin Y,Li T,Zhao J

    更新日期:2017-11-02 00:00:00

  • Biotransformation of caffeoyl quinic acids from green coffee extracts by Lactobacillus johnsonii NCC 533.

    abstract::The potential of Lactobacillus johnsonii NCC 533 to metabolize chlorogenic acids from green coffee extract was investigated. Two enzymes, an esterase and a hydroxycinnamate decarboxylase (HCD), were involved in this biotransformation. The complete hydrolysis of 5-caffeoylquinic acid (5-CQA) into caffeic acid (CA) by L...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-3-28

    authors: Bel-Rhlid R,Thapa D,Kraehenbuehl K,Hansen CE,Fischer L

    更新日期:2013-05-21 00:00:00

  • Construction of cell-plastics as neo-plastics consisted of cell-layer provided green alga Chlamydomonas reinhardtii covered by two-dimensional polymer.

    abstract::Green alga Chlamydomonas reinhardtii has gained interest as a sustainable resource because it can be easily grown using CO2 as a carbon source owing to its high CO2 assimilating activity. Although the robustness of the cell wall of C. reinhardtii makes it difficult to extract its intracellular products, such property ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-01046-y

    authors: Nakanishi A,Iritani K,Sakihama Y,Ozawa N,Mochizuki A,Watanabe M

    更新日期:2020-06-10 00:00:00

  • High-level fed-batch fermentative expression of an engineered Staphylococcal protein A based ligand in E. coli: purification and characterization.

    abstract::The major platform for high level recombinant protein production is based on genetically modified microorganisms like Escherichia coli (E. coli) due to its short dividing time, ability to use inexpensive substrates and additionally, its genetics is comparatively simple, well characterized and can be manipulated easily...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-015-0155-y

    authors: Kangwa M,Yelemane V,Polat AN,Gorrepati KD,Grasselli M,Fernández-Lahore M

    更新日期:2015-12-01 00:00:00

  • Changes in feeding habits promoted the differentiation of the composition and function of gut microbiotas between domestic dogs (Canis lupus familiaris) and gray wolves (Canis lupus).

    abstract::Wolves (Canis lupus) and their domesticated and close relatives, dogs (Canis lupus familiaris), have great differences in their diets and living environments. To the best of our knowledge, the fundamental question of how the abundance and function of the gut microbiota of domestic dogs evolved to adapt to the changes ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-018-0652-x

    authors: Lyu T,Liu G,Zhang H,Wang L,Zhou S,Dou H,Pang B,Sha W,Zhang H

    更新日期:2018-08-02 00:00:00

  • Natural antibacterial agents from arid-region pretreated lignocellulosic biomasses and extracts for the control of lactic acid bacteria in yeast fermentation.

    abstract::Bacterial contamination is one of the major challenges faced by yeast fermentation industries as the contaminating microorganisms produce lactic acid and acetic acid, which reduces the viability of yeast, and hence fermentation yields. The primary bacterial contaminants of yeast fermentations are lactic acid bacteria ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-018-0654-8

    authors: Haris S,Fang C,Bastidas-Oyanedel JR,Prather KJ,Schmidt JE,Thomsen MH

    更新日期:2018-08-06 00:00:00

  • Improvement of efficiency of brown coal biosolubilization by novel recombinant Fusarium oxysporum laccase.

    abstract::Clean coal technologies (e.g. coal biosolubilization) are of essential value, especially in Europe, where coal is the national wealth and other energy sources like crude oil are not available. Fusarium oxysporum LOCK 1134, the strain isolated from brown coal, efficiently biosolubilizes lignite. The obtained liquefied ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-018-0669-1

    authors: Kwiatos N,Jędrzejczak-Krzepkowska M,Strzelecki B,Bielecki S

    更新日期:2018-08-22 00:00:00

  • Methanogenic biodegradation of C9 to C12n-alkanes initiated by Smithella via fumarate addition mechanism.

    abstract::In the present study, a methanogenic alkane-degrading (a mixture of C9 to C12n-alkanes) culture enriched from production water of a low-temperature oil reservoir was established and assessed. Significant methane production was detected in the alkane-amended enrichment cultures compared with alkane-free controls over a...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-0956-5

    authors: Ji JH,Zhou L,Mbadinga SM,Irfan M,Liu YF,Pan P,Qi ZZ,Chen J,Liu JF,Yang SZ,Gu JD,Mu BZ

    更新日期:2020-02-01 00:00:00

  • In vitro production of two chitinolytic proteins with an inhibiting effect on the insect coffee berry borer, Hypothenemus hampei (Ferrari) (Coleoptera: Curculionidae) and the fungus Hemileia vastatrix the most limiting pests of coffee crops.

    abstract:: Two genes from Streptomyces albidoflavus, one exochitinase (905-bp) and an endochitinase (1100-bp) were functionally expressed in Escherichia coli in form of a fusion protein with a maltose binding protein (MBP). The goal was to produce and test proteins that inhibit both the coffee berry borer insect Hypothenemus ha...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-2-22

    authors: Martínez CP,Echeverri C,Florez JC,Gaitan AL,Góngora CE

    更新日期:2012-03-30 00:00:00

  • Functional characterization and structural modeling of synthetic polyester-degrading hydrolases from Thermomonospora curvata.

    abstract::Thermomonospora curvata is a thermophilic actinomycete phylogenetically related to Thermobifida fusca that produces extracellular hydrolases capable of degrading synthetic polyesters. Analysis of the genome of T. curvata DSM43183 revealed two genes coding for putative polyester hydrolases Tcur1278 and Tcur0390 sharing...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-014-0044-9

    authors: Wei R,Oeser T,Then J,Kühn N,Barth M,Schmidt J,Zimmermann W

    更新日期:2014-06-03 00:00:00

  • Microbial community analysis in biocathode microbial fuel cells packed with different materials.

    abstract:: Biocathode MFCs using microorganisms as catalysts have important advantages in lowering cost and improving sustainability. Electrode materials and microbial synergy determines biocathode MFCs performance. In this study, four materials, granular activated carbon (GAC), granular semicoke (GS), granular graphite (GG) an...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-2-21

    authors: Sun Y,Wei J,Liang P,Huang X

    更新日期:2012-03-29 00:00:00

  • The two-component system CepRS regulates the cephamycin C biosynthesis in Streptomyces clavuligerus F613-1.

    abstract::During industrial fermentation, Streptomyces clavuligerus F613-1 simultaneously produces primary product clavulanic acid (CA) and cephamycin C. The cephamycin C biosynthetic gene cluster and pathway have been basically elucidated and the CcaR positive regulator was found to control the cephamycin genes expression. How...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-019-0844-z

    authors: Fu J,Qin R,Zong G,Zhong C,Zhang P,Kang N,Qi X,Cao G

    更新日期:2019-07-27 00:00:00

  • The regulatory effect of Lactobacillus rhamnosus GG on T lymphocyte and the development of intestinal villi in piglets of different periods.

    abstract::The maturation and development of T cells were not completed until T cells were selected in thymus. It was not until the early 1960s that j.f.a.p. discovered the importance of thymus in T cell development. Twelve healthy piglets were randomly divided into two groups, the experimental group (LGG group) and the control ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-020-00980-1

    authors: Shonyela SM,Feng B,Yang W,Yang G,Wang C

    更新日期:2020-04-17 00:00:00

  • Bioprospecting for acidophilic lipid-rich green microalgae isolated from abandoned mine site water bodies.

    abstract::With fossil fuel sources in limited supply, microalgae show tremendous promise as a carbon neutral source of biofuel. Current microalgae biofuel strategies typically rely on growing high-lipid producing laboratory strains of microalgae in open raceways or closed system photobioreactors. Unfortunately, these microalgae...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/2191-0855-4-7

    authors: Eibl JK,Corcoran JD,Senhorinho GN,Zhang K,Hosseini NS,Marsden J,Laamanen CA,Scott JA,Ross GM

    更新日期:2014-03-26 00:00:00

  • Bacterial secretion of soluble and functional trivalent scFv-based N-terminal trimerbodies.

    abstract::Recombinant antibodies are used with great success in many different diagnostic and therapeutic applications. A variety of protein expression systems are available, but nowadays almost all therapeutic antibodies are produced in mammalian cell lines due to their complex structure and glycosylation requirements. However...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-015-0137-0

    authors: Blanco-Toribio A,Álvarez-Cienfuegos A,Sainz-Pastor N,Merino N,Compte M,Sanz L,Blanco FJ,Álvarez-Vallina L

    更新日期:2015-12-01 00:00:00

  • Genomic insights into a robust gamma-aminobutyric acid-producer Lactobacillus brevis CD0817.

    abstract::Lactobacillus brevis CD0817, a strain isolated from a healthy adult gut, was currently the most efficient lactic acid bacterial cell factory for gamma-aminobutyric acid. In this study, the complete genome sequence of CD0817 was determined and compared with some related L. brevis genomes. The CD0817 genome consists of ...

    journal_title:AMB Express

    pub_type: 杂志文章

    doi:10.1186/s13568-019-0799-0

    authors: Gao D,Chang K,Ding G,Wu H,Chen Y,Jia M,Liu X,Wang S,Jin Y,Pan H,Li H

    更新日期:2019-05-24 00:00:00