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Matrawy AA, Khalil AI, Embaby AM. Molecular study on recombinant cold-adapted, detergent- and alkali stable esterase (EstRag) from Lysinibacillus sp.: a member of family VI. World J Microbiol Biotechnol 2022; 38:217. [PMID: 36070019 PMCID: PMC9452428 DOI: 10.1007/s11274-022-03402-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Accepted: 08/26/2022] [Indexed: 11/30/2022]
Abstract
Cold-adapted esterases have potential industrial applications. To fulfil the global continuous demand for these enzymes, a cold-adapted esterase member of family VI from Lysinibacillus sp. YS11 was cloned on pET-28b (+) vector and expressed in E. coli BL21(DE3) Rosetta cells for the first time. The open reading frame (654 bp: GenBank MT120818.1) encodes a polypeptide (designated EstRag: 217 amino acid residues). EstRag amino acid sequence has conserved esterase signature motifs: pentapeptide (GFSQG) and catalytic triad Ser110-Asp163-His194. EstRag 3D predicted model, built with LOMETS3 program, showed closest structural similarity to PDB 1AUO_A (esterase: Pseudomonas fluorescens); TM-align score program inferences. Purified EstRag to 9.28-fold, using Ni2+affinity agarose matrix, showed a single protein band (25 kDa) on SDS-PAGE, Km (0.031 mM) and Kcat/Km (657.7 s−1 mM−1) on p-NP-C2. Temperature and pH optima of EstRag were 35 °C and 8.0, respectively. EstRag was fully stable at 5–30 °C for 120 min and at pH(s) 8.0–10.0 after 24 h. EstRag activity (391.46 ± 0.009%) was impressively enhanced after 30 min preincubation with 5 mM Cu2+. EstRag retained full stability after 30 min pre-incubation with 0.1%(v/v) SDS, Triton X-100, and Tween-80. EstRag promising characteristics motivate performing guided evolution and industrial applications prospective studies.
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Affiliation(s)
- Amira A Matrawy
- Environmental Studies Department, Institute of Graduate Studies and Research, Alexandria University, 163 Horreya Avenue, P.O. Box 832, Chatby, 21526, Alexandria, Egypt
| | - Ahmed I Khalil
- Environmental Studies Department, Institute of Graduate Studies and Research, Alexandria University, 163 Horreya Avenue, P.O. Box 832, Chatby, 21526, Alexandria, Egypt
| | - Amira M Embaby
- Biotechnology Department, Institute of Graduate Studies and Research, Alexandria University, 163 Horreya Avenue, P.O. Box 832, Chatby, 21526, Alexandria, Egypt.
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Sustainable Biosynthesis of Esterase Enzymes of Desired Characteristics of Catalysis for Pharmaceutical and Food Industry Employing Specific Strains of Microorganisms. SUSTAINABILITY 2022. [DOI: 10.3390/su14148673] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Reactions catalysed by sustainably produced enzymes can contribute to the bioeconomy supporting several industries. Low-value compounds can be transformed into added-value products or high-resolution chemicals could be prepared in reactions catalysed by biocatalyst esterase enzymes. These enzymes can be synthesised by purposely isolated or genetically modified strains of microorganisms. Enzymes belonging to the hydrolase family catalyse the formation and hydrolysis of ester bonds to produce the desired esterified molecule. The synthesis of homo-chiral compounds can be accomplished either by chemical or biocatalytic processes, the latter being preferred with the use of microbial esterases. For varied applications, esterases with high stability and retained activity at lower and higher temperatures have been produced with strains isolated from extreme environments. For sustainable production of enzymes, higher productivity has been achieved by employing fast-growing Escherichia coli after incorporating plasmids of required characteristics from specific isolates. This is a review of the isolated and engineered strains used in the biosynthesis of esterase of the desired property, with the objective of a sustainable supply of enzymes, to produce products of industrial importance contributing to the economy.
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Bowles IE, Pool EH, Lancaster BS, Lawson EK, Savas CP, Kartje ZJ, Severinac L, Cho DH, Macbeth MR, Johnson RJ, Hoops GC. Transition metal cation inhibition of Mycobacterium tuberculosis esterase RV0045C. Protein Sci 2021; 30:1554-1565. [PMID: 33914998 DOI: 10.1002/pro.4089] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Revised: 03/16/2021] [Accepted: 04/27/2021] [Indexed: 12/16/2022]
Abstract
Mycobacterium tuberculosis virulence is highly metal-dependent with metal availability modulating the shift from the dormant to active states of M. tuberculosis infection. Rv0045c from M. tuberculosis is a proposed metabolic serine hydrolase whose folded stability is dependent on divalent metal concentration. Herein, we measured the divalent metal inhibition profile of the enzymatic activity of Rv0045c and found specific divalent transition metal cations (Cu2+ ≥ Zn2+ > Ni2+ > Co2+ ) strongly inhibited its enzymatic activity. The metal cations bind allosterically, largely affecting values for kcat rather than KM . Removal of the artificial N-terminal 6xHis-tag did not change the metal-dependent inhibition, indicating that the allosteric inhibition site is native to Rv0045c. To isolate the site of this allosteric regulation in Rv0045c, the structures of Rv0045c were determined at 1.8 Å and 2.0 Å resolution in the presence and absence of Zn2+ with each structure containing a previously unresolved dynamic loop spanning the binding pocket. Through the combination of structural analysis with and without zinc and targeted mutagenesis, this metal-dependent inhibition was traced to multiple chelating residues (H202A/E204A) on a flexible loop, suggesting dynamic allosteric regulation of Rv0045c by divalent metals. Although serine hydrolases like Rv0045c are a large and diverse enzyme superfamily, this is the first structural confirmation of allosteric regulation of their enzymatic activity by divalent metals.
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Affiliation(s)
- Isobel E Bowles
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Emily H Pool
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Benjamin S Lancaster
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Emily K Lawson
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Christopher P Savas
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Zach J Kartje
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Luke Severinac
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - David H Cho
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Mark R Macbeth
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - R Jeremy Johnson
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
| | - Geoffrey C Hoops
- Department of Chemistry and Biochemistry, Butler University, Indianapolis, Indiana, USA
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Koh ICC, Badrul Nizam BH, Muhammad Abduh Y, Abol Munafi AB, Iehata S. Molecular Characterization of Microbiota Associated With Sperm of Malaysian Mahseer Tor tambroides. Evol Bioinform Online 2019; 15:1176934319850821. [PMID: 31217688 PMCID: PMC6558542 DOI: 10.1177/1176934319850821] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Accepted: 04/22/2019] [Indexed: 11/15/2022] Open
Abstract
Malaysian Mahseer (Tor tambroides) is considered as a good
prospect for aquaculture in Malaysia. However, knowledge about Malaysian
Mahseer-associated sperm microbiota is still limited, although some studies
reported that sperm-related bacteria are a factor in the decline of sperm
quality, as sperm may become the carrier of pathogenic bacteria to the egg. The
goal of this study was to evaluate the sperm microbiota associated with
Malaysian Mahseer from 3 different locations (Universiti Malaysia Terengganu
[UMT], Ajil, and Pahang) using polymerase chain reaction denaturing gradient gel
electrophoresis (PCR-DGGE) fingerprinting and to compare location differences by
cluster analysis. Our results showed that the UMT sample had different sperm
microbiota composition and a different trend in its relationship with sperm
quality. Correlation analysis showed a relationship between bacterial diversity
and sperm quality. Phylogenetic analysis indicated that sperm microbiota was
composed of diverse phyla, including Proteobacteria, Firmicutes, and
Actinobacteria. Interestingly, bacteria such as Salinisphaera
sp., Pelomonas sp., and Staphylococcus spp.
were detected in all the locations, suggesting that these bacteria are
indigenous bacterial members of the Malaysian Mahseer sperm microbiota, although
their function is still unclear.
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Affiliation(s)
- Ivan Chong Chu Koh
- School of Fisheries and Aquaculture Sciences, University Malaysia Terengganu, Kuala Nerus, Malaysia.,Institute Aquaculture Tropical, University Malaysia Terengganu, Kuala Nerus, Malaysia
| | - Bin Hassan Badrul Nizam
- School of Fisheries and Aquaculture Sciences, University Malaysia Terengganu, Kuala Nerus, Malaysia
| | - Yazid Muhammad Abduh
- School of Fisheries and Aquaculture Sciences, University Malaysia Terengganu, Kuala Nerus, Malaysia
| | | | - Shumpei Iehata
- School of Fisheries and Aquaculture Sciences, University Malaysia Terengganu, Kuala Nerus, Malaysia
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Characterization and mutation anaylsis of a cold-active bacterial hormone-sensitive lipase from Salinisphaera sp. P7-4. Arch Biochem Biophys 2019; 663:132-142. [DOI: 10.1016/j.abb.2019.01.010] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2018] [Revised: 01/10/2019] [Accepted: 01/10/2019] [Indexed: 11/18/2022]
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Santiago M, Ramírez-Sarmiento CA, Zamora RA, Parra LP. Discovery, Molecular Mechanisms, and Industrial Applications of Cold-Active Enzymes. Front Microbiol 2016; 7:1408. [PMID: 27667987 PMCID: PMC5016527 DOI: 10.3389/fmicb.2016.01408] [Citation(s) in RCA: 141] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2016] [Accepted: 08/25/2016] [Indexed: 11/17/2022] Open
Abstract
Cold-active enzymes constitute an attractive resource for biotechnological applications. Their high catalytic activity at temperatures below 25°C makes them excellent biocatalysts that eliminate the need of heating processes hampering the quality, sustainability, and cost-effectiveness of industrial production. Here we provide a review of the isolation and characterization of novel cold-active enzymes from microorganisms inhabiting different environments, including a revision of the latest techniques that have been used for accomplishing these paramount tasks. We address the progress made in the overexpression and purification of cold-adapted enzymes, the evolutionary and molecular basis of their high activity at low temperatures and the experimental and computational techniques used for their identification, along with protein engineering endeavors based on these observations to improve some of the properties of cold-adapted enzymes to better suit specific applications. We finally focus on examples of the evaluation of their potential use as biocatalysts under conditions that reproduce the challenges imposed by the use of solvents and additives in industrial processes and of the successful use of cold-adapted enzymes in biotechnological and industrial applications.
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Affiliation(s)
- Margarita Santiago
- Department of Chemical Engineering and Biotechnology, Centre for Biochemical Engineering and Biotechnology, Universidad de ChileSantiago, Chile
| | - César A. Ramírez-Sarmiento
- Schools of Engineering, Medicine and Biological Sciences, Institute for Biological and Medical Engineering, Pontificia Universidad Católica de ChileSantiago, Chile
| | - Ricardo A. Zamora
- Departamento de Biología, Facultad de Ciencias, Universidad de ChileSantiago, Chile
| | - Loreto P. Parra
- Schools of Engineering, Medicine and Biological Sciences, Institute for Biological and Medical Engineering, Pontificia Universidad Católica de ChileSantiago, Chile
- Department of Chemical and Bioprocesses Engineering, School of Engineering, Pontificia Universidad Católica de ChileSantiago, Chile
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Pranaw K, Singh S, Dutta D, Chaudhury S, Ganguly S, Nain L. Biodegradation of dimethyl phthalate by an entomopathogenic nematode symbiont Xenorhabdus indica strain KB-3. INTERNATIONAL BIODETERIORATION & BIODEGRADATION 2014; 89:23-28. [DOI: 10.1016/j.ibiod.2014.01.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/19/2023]
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Kim YO, Park IS, Kim HK, Nam BH, Kong HJ, Kim WJ, Kim DG, Kim BS, Jee YJ, Song JH, Lee SJ. Shewanella sp. Ke75 esterase with specificity for p-nitorphenyl butyrate: Gene cloning and characterization. ACTA ACUST UNITED AC 2013. [DOI: 10.1007/s13765-012-2089-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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