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Wei T, Feng S, Shen Y, He P, Ma G, Yu X, Zhang F, Mao D. Characterization of a novel thermophilic pyrethroid-hydrolyzing carboxylesterase from Sulfolobus tokodaii into a new family. ACTA ACUST UNITED AC 2013. [DOI: 10.1016/j.molcatb.2013.07.022] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Liu T, Hao L, Wang R, Liu B. Molecular characterization of a thermostable aldehyde dehydrogenase (ALDH) from the hyperthermophilic archaeon Sulfolobus tokodaii strain 7. Extremophiles 2012; 17:181-90. [PMID: 23224332 DOI: 10.1007/s00792-012-0503-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2012] [Accepted: 11/22/2012] [Indexed: 11/25/2022]
Abstract
Aldehyde dehydrogenase (ALDH) is a widely distributed enzyme in nature. Although many ALDHs have been reported until now, the detailed enzymatic properties of ALDH from Archaea remain elusive. Herein, we describe the characterization of an ALDH from the hyperthermophilic archaeon Sulfolobus tokodaii. The enzyme (stALDH) could utilize various aldehydes as substrates, and maximal activity was found with acetaldehyde and the coenzyme NAD. The optimal temperature and pH were 80 °C and 8, respectively, and high thermostability was found with the half-life at 90 °C to be 4 h. The enzyme was considerably resistant to nitroglycerin (GTN) inhibition, which could be restored by reducing agent DTT or (±)-α-lipoic acid. Coenzyme NAD or NADP could regulate the enzymatic thermostability, as well as the esterase activity. Molecular modeling suggested that the enzyme harbored similar structural arrangement with its eukaryotic and bacterial counterparts. Sequence alignment showed the conserved catalytic residues E240 and C274 and cofactor interactive sites N142, K165, I168 and E370, the function of which were verified by site-directed mutagenesis analysis. This is the most thermostable ALDH reported until now and the unique property of this enzyme is potentially beneficial in the fields of biotechnology and biomedicine.
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Affiliation(s)
- Tianming Liu
- College of Food and Bioengineering, Shandong Provincial Key Laboratory of Microbial Engineering, Shandong Polytechnic University, Jinan, 250353, Shandong, People's Republic of China
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Liu B, Wu L, Liu T, Hong Y, Shen Y, Ni J. A MOFRL family glycerate kinase from the thermophilic crenarchaeon, Sulfolobus tokodaii, with unique enzymatic properties. Biotechnol Lett 2009; 31:1937-41. [PMID: 19690808 DOI: 10.1007/s10529-009-0089-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2009] [Revised: 07/15/2009] [Accepted: 07/15/2009] [Indexed: 10/20/2022]
Abstract
A glycerate kinase gene (ST2037) from the hyperthermophilic crenarchaeon Sulfolobus tokodaii was cloned and expressed in Escherichia coli. The purified homodimeric protein (45 kDa) specifically catalyzed the formation of 2-phosphoglycerate with D-glycerate as substrate. The thermostable enzyme displayed maximum activity (over 20 min) at 90 degrees C and pH 4.5. The maximal activity was in the presence of Co(2+). The MOFRL family glycerate kinase used AMP as phosphate donor with maximal activity towards GTP. These characteristics of the enzyme suggested its potential in the catalytic production of 2-phosphoglycerate.
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Affiliation(s)
- Bo Liu
- College of Food and Bioengineering, Shandong Institute of Light Industry, Jinan, 250353, People's Republic of China
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Hong Y, Wu L, Liu B, Peng C, Sheng D, Ni J, Shen Y. Characterization of a glucan phosphorylase from the thermophilic archaeon Sulfolobus tokodaii strain 7. ACTA ACUST UNITED AC 2008. [DOI: 10.1016/j.molcatb.2007.11.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Yoneda K, Sakuraba H, Tsuge H, Katunuma N, Kuramitsu S, Kawabata T, Ohshima T. The first crystal structure of an archaeal helical repeat protein. Acta Crystallogr Sect F Struct Biol Cryst Commun 2005; 61:636-9. [PMID: 16511116 PMCID: PMC1952456 DOI: 10.1107/s1744309105019263] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2005] [Accepted: 06/17/2005] [Indexed: 11/10/2022]
Abstract
The crystal structure of ST1625p, a protein encoded by a hypothetical open reading frame ST1625 in the genome of the hyperthermophilic archaeon Sulfolobus tokodaii, was determined at 2.2 A resolution. The only sequence similarity exhibited by the amino-acid sequence of ST1625p was a 33% identity with the sequence of SSO0983p from S. solfataricus. The 19 kDa monomeric protein was observed to consist of a right-handed superhelix assembled from a tandem repeat of ten alpha-helices. A structural homology search using the DALI and MATRAS algorithms indicates that this protein can be classified as a helical repeat protein.
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Affiliation(s)
- Kazunari Yoneda
- Department of Biological Science and Technology, Faculty of Engineering, University of Tokushima, Tokushima 770-8506, Japan
| | - Haruhiko Sakuraba
- Department of Biological Science and Technology, Faculty of Engineering, University of Tokushima, Tokushima 770-8506, Japan
| | - Hideaki Tsuge
- Institute for Health Sciences, Tokushima Bunri University, Tokushima 770-8514, Japan
| | - Nobuhiko Katunuma
- Institute for Health Sciences, Tokushima Bunri University, Tokushima 770-8514, Japan
| | - Seiki Kuramitsu
- Department of Biology, Graduate School of Science, Osaka University, Japan
| | - Takeshi Kawabata
- Graduate School of Information Science, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan.
| | - Toshihisa Ohshima
- Department of Biological Science and Technology, Faculty of Engineering, University of Tokushima, Tokushima 770-8506, Japan
- Correspondence e-mail:
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Long Z, Lee JA, Okamoto T, Sekine M, Nimura N, Imai K, Yohda M, Maruyama T, Sumi M, Kamo N, Yamagishi A, Oshima T, Homma H. Occurrence of D-Amino Acids and a pyridoxal 5'-phosphate-dependent aspartate racemase in the acidothermophilic archaeon, Thermoplasma acidophilum. Biochem Biophys Res Commun 2001; 281:317-21. [PMID: 11181048 DOI: 10.1006/bbrc.2001.4353] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Free D-amino acid content in some archaea was investigated and D-forms of several amino acids were found in them. In the acidothermophilic archaeon, Thermoplasma acidophilum, the proportion of D-aspartate (D-Asp) to total Asp was as high as 39.7%. Crude extracts of Thermoplasma acidophilum had Asp-specific racemase activity that was pyridoxal 5'-phosphate (PLP)-dependent. The relative insensitivity to a SH-modifying reagent distinguished this activity from those of the PLP-independent Asp racemases found in other hyperthermophilic archaea (Matsumoto, M., et al., J. Bacteriol. 181, 6560-6563 1999). Thus, high levels of d-Asp should be produced by a new type(s) of Asp-specific racemase in Thermoplasma acidophilum, although the function of d-Asp in this archaeon remains unknown.
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Affiliation(s)
- Z Long
- School of Pharmaceutical Sciences, Kitasato University, Minato-ku, Tokyo 108-8641, Japan
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Sanz JL, Huber G, Huber H, Amils R. Using protein synthesis inhibitors to establish the phylogenetic relationships of the Sulfolobales order. J Mol Evol 1994; 39:528-32. [PMID: 7807541 DOI: 10.1007/bf00173422] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
The sensitivity of the cell-free protein synthesis systems from Acidanus brierleyi, Acidianus infernus, and Metallosphaera sedula, members of the archaeal order Sulfolobales, to 40 antibiotics with different specificities has been studied. The sensitivity patterns were compared to those of Sulfolobus solfataricus and other archaeal, bacterial, and eukaryotic systems. The comparative analysis shows that ribosomes from the sulfolobales are the most refractory to inhibitors of protein synthesis described so far. The sensitivity results have been used to ascertain in phylogenetic relationships among the members of the order Sulfolobales. The evolutionary significance of these results are analyzed in the context of the phylogenetic position of this group of extreme thermophilic microorganisms.
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Affiliation(s)
- J L Sanz
- Centro de Biología Molecular, Universidad Autónoma de Madrid, Cantoblanco, Spain
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Abstract
During the last decade, great advances have been made in the study of bacterial genomes which is perhaps better described by the term bacterial genomics. The application of powerful techniques, such as pulsed-field gel electrophoresis of macro-restriction fragments of genomic DNA, has freed the characterisation of the chromosomes of many bacteria from the constraints imposed by classical genetic analysis. It is now possible to analyse the genome of virtually every microorganism by direct molecular methods and to construct detailed physical and gene maps. In this review, the various practical approaches are compared and contrasted, and some of the emerging themes of bacterial genomics, such as the size, shape, number and organisation of chromosomes are discussed.
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Affiliation(s)
- S T Cole
- Unité de Génétique Moléculaire Bactérienne, Institut Pasteur, Paris, France
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Borges KM, Bergquist PL. Pulsed-field gel electrophoresis study of the genome ofCaldocellum saccharolyticum. Curr Microbiol 1993. [DOI: 10.1007/bf01576828] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Kondo S, Yamagishi A, Oshima T. A physical map of the sulfur-dependent archaebacterium Sulfolobus acidocaldarius 7 chromosome. J Bacteriol 1993; 175:1532-6. [PMID: 7680342 PMCID: PMC193243 DOI: 10.1128/jb.175.5.1532-1536.1993] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Abstract
A chromosomal map of the sulfur-dependent thermoacidophilic archaebacterium Sulfolobus acidocaldarius 7 was constructed with four restriction enzymes: NotI, BssHII, RsrII, and EagI. The map indicated that the chromosome is a single circular DNA of 2,760 +/- 20 kb (mean +/- standard error of the mean). rRNA genes were also mapped. They were located at one site in the genome.
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Affiliation(s)
- S Kondo
- Department of Life Science, Tokyo Institute of Technology, Yokohama, Japan
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Chapter 15 Halobacterial genes and genomes. ACTA ACUST UNITED AC 1993. [DOI: 10.1016/s0167-7306(08)60264-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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Chapter 11 Chromosome structure, DNA topoisomerases, and DNA polymerases in archaebacteria (archaea). ACTA ACUST UNITED AC 1993. [DOI: 10.1016/s0167-7306(08)60260-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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Abstract
Recent progress in studies on the bacterial chromosome is summarized. Although the greatest amount of information comes from studies on Escherichia coli, reports on studies of many other bacteria are also included. A compilation of the sizes of chromosomal DNAs as determined by pulsed-field electrophoresis is given, as well as a discussion of factors that affect gene dosage, including redundancy of chromosomes on the one hand and inactivation of chromosomes on the other hand. The distinction between a large plasmid and a second chromosome is discussed. Recent information on repeated sequences and chromosomal rearrangements is presented. The growing understanding of limitations on the rearrangements that can be tolerated by bacteria and those that cannot is summarized, and the sensitive region flanking the terminator loci is described. Sources and types of genetic variation in bacteria are listed, from simple single nucleotide mutations to intragenic and intergenic recombinations. A model depicting the dynamics of the evolution and genetic activity of the bacterial chromosome is described which entails acquisition by recombination of clonal segments within the chromosome. The model is consistent with the existence of only a few genetic types of E. coli worldwide. Finally, there is a summary of recent reports on lateral genetic exchange across great taxonomic distances, yet another source of genetic variation and innovation.
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Affiliation(s)
- S Krawiec
- Department of Biology, Lehigh University, Bethlehem, Pennsylvania 18015
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