| cultivation characteristics of denitrification by thermophilic geobacillus sp. strain tdn01. | nine thermophilic denitrification bacteria were isolated from field soil, mud, and spa samples. the alignment of 16s rdna showed that all were identical to the genus geobacillus. two of the bacteria produced n2o and n2 gas and the other seven strains produced n2 gas from nitrate. we examined the growth substrates for geobacillus tdn01 and determined that sodium succinate, pyruvate, formate, acetate, glycerol, glucose, sucrose, and cellobiose well supported growth of the isolate. growth occurred ... | 2009 | 19436124 |
| functional analysis of the thermophilic denitrifying bacterium geobacillus sp. strain tdn01 in continuous culture. | the thermophilic denitrifying bacterium geobacillus sp. strain tdn01 was examined to determine the effects of nitrogen and carbon sources and nitrate and nitrite concentrations on denitrification in a batch culture. the specific nitrate removal rate was 12 times higher with ammonia than without ammonia. the consumption rates of nitrate and succinate were proportional. furthermore, the growth rates with 120 and 150 mm nitrate were only slightly lower than those with 60 mm and did not cause notabl ... | 2009 | 19436125 |
| the high-molecular-mass amylase (hmma) of geobacillus stearothermophilus atcc 12980 interacts with the cell wall components by virtue of three specific binding regions. | the complete nucleotide sequence encoding the high-molecular-mass amylase (hmma) of geobacillus stearothermophilus atcc 12980 was established by pcr techniques. based on the hmma gene sequence, the full-length rhmma, four n- or c-terminal rhmma truncations as well as three c-terminal rhmma fragments were cloned and heterologously expressed in escherichia coli. purified rhmma forms were used either for affinity studies with the recombinant (r) s-layer protein sbsc (rsbsc), peptidoglycan-containin ... | 2009 | 19460092 |
| structure of the sporulation histidine kinase inhibitor sda from bacillus subtilis and insights into its solution state. | the crystal structure of the dna-damage checkpoint inhibitor of sporulation, sda, from bacillus subtilis, has been solved by the mad technique using selenomethionine-substituted protein. the structure closely resembles that previously solved by nmr, as well as the structure of a homologue from geobacillus stearothermophilus solved in complex with the histidine kinase kinb. the structure contains three molecules in the asymmetric unit. the unusual trimeric arrangement, which lacks simple internal ... | 2009 | 19465772 |
| cold plasma technology: bactericidal effects on geobacillus stearothermophilus and bacillus cereus microorganisms. | cold plasma, also known as low temperature atmospheric pressure plasma (ltapp) is a novel technology consisting of neutral and charged particles, including free radicals, which can be used to destroy or inactivate microorganisms. research has been conducted regarding the effect of cold plasma on gram-positive bacteria; however, there is limited research regarding its ability to inactivate the spore-formers geobacillus stearothermophilus and bacillus cereus. | 2009 | 19470230 |
| safety evaluation of 1,4-alpha-glucan branching enzymes from bacillus stearothermophilus and aquifex aeolicus expressed in bacillus subtilis. | 1,4-alpha-glucan branching enzyme (be; ec 2.4.1.18) is a key biocatalyst in the synthesis of polysaccharides, and is therefore useful in the production of food ingredients. the bes evaluated in this study (be-01 and be-02) are obtained by fermentation of bacillus subtilis expressing the be gene from either bacillus stearothermophilus strain trbe14 or aquifex aeolicus strain vf5. the safety of be-01 and be-02 have not been previously evaluated, and therefore, both were subjected to standard toxic ... | 2009 | 19470400 |
| pcra helicase tightly couples atp hydrolysis to unwinding double-stranded dna, modulated by the initiator protein for plasmid replication, repd. | the plasmid replication initiator protein, repd, greatly stimulates the ability of the dna helicase, pcra, to unwind plasmid lengths of dna. unwinding begins at orid, the double-stranded origin of replication that repd recognizes and covalently binds to initiate replication. using a combination of plasmids containing orid and oligonucleotide structures that mimic parts of orid, the kinetics of dna nicking and separation have been determined, along with the coupling ratio between base separation ... | 2009 | 19473041 |
| thermophilic ethanologenesis: future prospects for second-generation bioethanol production. | strategies for improving fermentative ethanol production have focused almost exclusively on the development of processes based on the utilization of the carbohydrate fraction of lignocellulosic material. these so-called 'second-generation' technologies require metabolically engineered production strains that possess a high degree of catabolic versatility and are homoethanologenic. it has been suggested that the production of ethanol at higher temperatures would facilitate process design, and as ... | 2009 | 19481826 |
| bayesian model averaging for ligand discovery. | high-throughput screening (hts) is now a standard approach used in the pharmaceutical industry to identify potential drug-like lead molecules. the analysis linking biological data with molecular properties is a major goal in both academic and pharmaceutical research. this paper presents a bayesian analysis of high-dimensional descriptor data using markov chain monte carlo (mcmc) simulations for learning classification trees as a novel method for pharmacophore and ligand discovery. we use experim ... | 2009 | 19489531 |
| mcsb is a protein arginine kinase that phosphorylates and inhibits the heat-shock regulator ctsr. | all living organisms face a variety of environmental stresses that cause the misfolding and aggregation of proteins. to eliminate damaged proteins, cells developed highly efficient stress response and protein quality control systems. we performed a biochemical and structural analysis of the bacterial ctsr/mcsb stress response. the crystal structure of the ctsr repressor, in complex with dna, pinpointed key residues important for high-affinity binding to the promoter regions of heat-shock genes. ... | 2009 | 19498169 |
| cloning and characterization of flagellin genes and identification of flagellin glycosylation from thermophilic bacillus species. | flagellin glycosylation was identified in bacillus sp. ps3 and geobacillus stearothermophilus. in vivo complementation showed that these flagellin genes did not restore the motility of a bacillus subtilis flagellin mutant, whereas the genes encoding non-glycosylated flagellin from geobacillus kaustophilus and bacillus sp. kps3 restored motility. moreover, four types of flagellins expressed in b. subtilis were not glycosylated. we speculate that glycosylation is required for flagellar filament as ... | 2009 | 19502747 |
| crystal structure of an inverting gh 43 1,5-alpha-l-arabinanase from geobacillus stearothermophilus complexed with its substrate. | arabinanases are glycosidases that hydrolyse alpha-(1-->5)- arabinofuranosidic linkages found in the backbone of the pectic polysaccharide arabinan. here we describe the biochemical characterization and the enzyme-substrate crystal structure of an inverting family 43 arabinanase from geobacillus stearothermophilus t-6 (abnb). based on viscosity and reducing power measurements, and based on product analysis for the hydrolysis of linear arabinan by abnb, the enzyme works in an endo mode of action. ... | 2009 | 19505290 |
| structure and conformational stability of a tetrameric thermostable n-succinylamino acid racemase. | the n-succinylamino acid racemases (nsaar) belong to the enolase superfamily and they are large homooctameric/hexameric species that require a divalent metal ion for activity. we describe the structure and stability of nsaar from geobacillus kaustophilus (gknsaar) in the absence and in the presence of co(2+) by using hydrodynamic and spectroscopic techniques. the co(2+), among other assayed divalent ions, provides the maximal enzymatic activity at physiological ph. the protein seems to be a tetr ... | 2009 | 19517534 |
| guidelines for interpretation of 16s rrna gene sequence-based results for identification of medically important aerobic gram-positive bacteria. | this study is believed to be the first to provide guidelines for facilitating interpretation of results based on full and 527 bp 16s rrna gene sequencing and microseq databases used for identifying medically important aerobic gram-positive bacteria. overall, full and 527 bp 16s rrna gene sequencing can identify 24 and 40 % of medically important gram-positive cocci (gpc), and 21 and 34 % of medically important gram-positive rods (gpr) confidently to the species level, whereas the full-microseq a ... | 2009 | 19528178 |
| identification of a novel two-peptide lantibiotic, lichenicidin, following rational genome mining for lanm proteins. | lantibiotics are ribosomally synthesized peptide antimicrobials which contain considerable posttranslational modifications. given their usually broad host range and their highly stable structures, there have been renewed attempts to identify and characterize novel members of the lantibiotic family in recent years. the increasing availability of bacterial genome sequences means that in addition to traditional microbiological approaches, in silico screening strategies may now be employed to the sa ... | 2009 | 19561184 |
| ambivalent incorporation of the fluorescent cytosine analogues tc and tco by human dna polymerase alpha and klenow fragment. | we studied the incorporation of the fluorescent cytidine analogues 1,3-diaza-2-oxophenothiazine (tc) and 1,3-diaza-2-oxophenoxazine (tco) by human dna polymerase alpha and klenow fragment of dna polymerase i (escherichia coli). these tricyclic nucleobases possess the regular hydrogen bonding interface of cytosine but are significantly expanded in size toward the major groove. despite the size alteration, both dna polymerases insert dtctp and dtcotp with remarkable catalytic efficiency. polymeriz ... | 2009 | 19580325 |
| the microbial signature of aerosols produced during the thermophilic phase of composting. | the microbial diversity of bioaerosols released during operational activities at composting plants is poorly understood. identification of bacteria and fungi present in such aerosols is the prerequisite for the definition of microbial indicators that could be used in dispersal and exposure studies. | 2010 | 19602015 |
| mg2+-assisted catalysis by b. stearothermophilus trprs is promoted by allosteric effects. | mn(2+)-assisted catalysis by b. stearothermophilus trprs parallels that in polymerases and reduces specificity in amino acid activation. as predicted by nonequilibrium molecular dynamics simulations, multivariant thermodynamic cycles with [atp]-dependent michaelis-menten kinetics and mn(2+) for mg(2+) substitution demonstrate energetic coupling of atp affinities to the metal; to lysines k111 and k192, which interact via the ppi leaving group; and to k195, which couples differently to the metal v ... | 2009 | 19604475 |
| toxicity assessment of the herbicide metolachlor comparative effects on bacterial and mitochondrial model systems. | metolachlor is one of the most intensively used chloroacetamide herbicides. however, its effects on the environment and on non-target animals and humans as well as its interference at a cell/molecular level have not yet been fully elucidated. the aim of this study was: firstly, to evaluate the potential toxicity of metolachlor at a cell/subcellular level by using two in vitro biological model systems (a strain of bacillus stearothermophilus and rat liver mitochondria); secondly, to evaluate the ... | 2009 | 19607910 |
| structural basis for thermostability revealed through the identification and characterization of a highly thermostable phosphotriesterase-like lactonase from geobacillus stearothermophilus. | a new enzyme homologous to phosphotriesterase was identified from the bacterium geobacillus stearothermophilus (gsp). this enzyme belongs to the amidohydrolase family and possesses the ability to hydrolyze both lactone and organophosphate (op) compounds, making it a phosphotriesterase-like lactonase (pll). gsp possesses higher op-degrading activity than recently characterized plls, and it is extremely thermostable. gsp is active up to 100 degrees c with an energy of activation of 8.0 kcal/mol to ... | 2009 | 19615330 |
| bhargavaea cecembensis gen. nov., sp. nov., isolated from the chagos-laccadive ridge system in the indian ocean. | a novel gram-positive, rod-shaped, non-motile, non-spore-forming bacterium, strain dse10(t), was isolated from a deep-sea sediment sample collected at a depth of 5904 m from the chagos-laccadive ridge system in the indian ocean. cells of strain dse10(t) were positive for catalase, oxidase, urease and lipase activities and contained iso-c(14 : 0), iso-c(15 : 0), iso-c(16 : 0) and anteiso-c(15 : 0) as the major fatty acids. the major respiratory quinones were mk-6 and mk-8 and the major lipids wer ... | 2009 | 19625444 |
| interaction of human dna polymerase alpha and dna polymerase i from bacillus stearothermophilus with hypoxanthine and 8-oxoguanine nucleotides. | to better understand how dna polymerases interact with mutagenic bases, we examined how human dna polymerase alpha (pol alpha), a b family enzyme, and dna polymerase from bacillus stearothermophilus (bf), an a family enzyme, generate adenine:hypoxanthine and adenine:8-oxo-7,8-dihydroguanine (8-oxog) base pairs. pol alpha strongly discriminated against polymerizing datp opposite 8-oxog, and removing n1, n(6), or n7 further inhibited incorporation, whereas removing n3 from datp dramatically increa ... | 2009 | 19642651 |
| the atpase cycle of pcra helicase and its coupling to translocation on dna. | the superfamily 1 bacterial helicase pcra has a role in the replication of certain plasmids, acting with the initiator protein (repd) that binds to and nicks the double-stranded origin of replication. pcra also translocates single-stranded dna with discrete steps of one base per atp hydrolyzed. individual rate constants have been determined for the dna helicase pcra atpase cycle when bound to either single-stranded dna or a double-stranded dna junction that also has repd bound. the fluorescent a ... | 2009 | 19647000 |
| safety evaluation of highly-branched cyclic dextrin and a 1,4-alpha-glucan branching enzyme from bacillus stearothermophilus. | highly-branched cyclic dextrin (hbcd), a dextrin food ingredient presently only used in japan, was investigated for digestibility and potential toxicity. hbcd was readily hydrolyzed in vitro to maltose and maltotriose by human salivary and porcine pancreatic alpha-amylases. incubation of hbcd with a rat intestinal homogenate, containing digestive enzymes, resulted in the formation of maltose, maltotriose, and maltotetraose, and with longer incubation times, resulted in the formation of glucose. ... | 2009 | 19651182 |
| evolved beta-galactosidases from geobacillus stearothermophilus with improved transgalactosylation yield for galacto-oligosaccharide production. | a mutagenesis approach was applied to the beta-galactosidase bgab from geobacillus stearothermophilus kve39 in order to improve its enzymatic transglycosylation of lactose into oligosaccharides. a simple screening strategy, which was based on the reduction of the hydrolysis of a potential transglycosylation product (lactosucrose), provided mutant enzymes possessing improved synthetic properties for the autocondensation product from nitrophenyl-galactoside and galacto-oligosaccharides (gos) from ... | 2009 | 19666723 |
| structure of the apo decarbamylated form of 2,3-diketo-5-methylthiopentyl-1-phosphate enolase from bacillus subtilis. | 2,3-diketo-5-methylthiopentyl-1-phosphate enolase (dk-mtp-1p enolase), a rubisco-like protein (rlp), catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate. the crystal structure of the apo decarbamylated form (e form) of bacillus subtilis dk-mtp-1p enolase (bs-dk-mtp-1p enolase) has been determined at 2.3 a resolution. the overall structure of the e form of bs-dk-mtp-1p enolase highly resembles that of geobacillus kaustophilus dk-mtp-1p enolase (gk-dk-mtp-1p enolase), with the e ... | 2009 | 19690372 |
| reclassification of geobacillus pallidus (scholz et al. 1988) banat et al. 2004 as aeribacillus pallidus gen. nov., comb. nov. | although anoxybacillus and geobacillus, two genera of thermophilic bacteria close to the genus bacillus, have only been described recently, the number of species in these genera has increased rapidly. four thermophilic, lipolytic strains (dr01, dr02, dr03 and dr04) isolated from a hot spring in veracruz (mexico), which could not be identified phenotypically, were subjected to 16s rrna gene sequence analysis. three strains were identified as belonging to the genus anoxybacillus, but strain dr03 w ... | 2010 | 19700455 |
| metabolic engineering of geobacillus thermoglucosidasius for high yield ethanol production. | we describe the metabolic engineering of two strains of geobacillus thermoglucosidasius to divert their fermentative carbon flux from a mixed acid pathway, to one in which ethanol becomes the major product. this involved elimination of the lactate dehydrogenase and pyruvate formate lyase pathways by disruption of the ldh and pflb genes, respectively, together with upregulation of expression of pyruvate dehydrogenase. unlike the situation in escherichia coli, pyruvate dehydrogenase is active unde ... | 2009 | 19703579 |
| evaluation of the efficacy of a low temperature steam and formaldehyde steriliser by using biological indicators. | | 2009 | 19703722 |
| molecular characterization of the alkb gene in the thermophilic geobacillus sp. strain mh-1. | an extremely thermophilic alkane-degrading bacterium, strain mh-1, was isolated from the deep subterranean petroleum reservoir in shengli oil field, pr china. based on its physiological characteristics and analysis of its 16s rrna gene sequence, strain mh-1 was identified as geobacillus stearothermophilus. strain mh-1 was able to grow at temperatures ranging from 50 to 72 degrees c and effectively degraded hexadecane as the sole carbon source at 70 degrees c. strain mh-1 degraded alkanes with di ... | 2009 | 19733653 |
| molecular interplay between the replicative helicase dnac and its loader protein dnai from geobacillus kaustophilus. | helicase loading factors are thought to transfer the hexameric ring-shaped helicases onto the replication fork during dna replication. however, the mechanism of helicase transfer onto dna remains unclear. in bacillus subtilis, the protein dnai, which belongs to the aaa+ family of atpases, is responsible for delivering the hexameric helicase dnac onto dna. here we investigated the interaction between dnac and dnai from geobacillus kaustophilus hta426 (gkdnac and gkdnai, respectively) and determin ... | 2009 | 19744498 |
| l-ribose production from l-arabinose by using purified l-arabinose isomerase and mannose-6-phosphate isomerase from geobacillus thermodenitrificans. | two enzymes, l-arabinose isomerase and mannose-6-phosphate isomerase, from geobacillus thermodenitrificans produced 118 g/liter l-ribose from 500 g/liter l-arabinose at ph 7.0, 70 degrees c, and 1 mm co(2+) for 3 h, with a conversion yield of 23.6% and a volumetric productivity of 39.3 g liter(-1) h(-1). | 2009 | 19749063 |
| epr and endor characterization of the reactive intermediates in the generation of no by cryoreduced oxy-nitric oxide synthase from geobacillus stearothermophilus. | cryoreduction epr/endor/step-annealing measurements with substrate complexes of oxy-gsnos (3; gsnos is nitric oxide synthase from geobacillus stearothermophilus) confirm that compound i (6) is the reactive heme species that carries out the gsnos-catalyzed (stage i) oxidation of l-arginine to n-hydroxy-l-arginine (noha), whereas the active species in the (stage ii) oxidation of noha to citrulline and hno/no(-) is the hydroperoxy-ferric form (5). when 3 is reduced by tetrahydrobiopterin (bh4), ins ... | 2009 | 19754116 |
| one-plasmid tunable coexpression for mycobacterial protein-protein interaction studies. | a single plasmid that allows controlled coexpression has been developed for use in mycobacteria. the tetracycline inducible promoter, pteto, was used to provide tetracycline-dependent induction of one gene, while the psmyc, pimyc, or phsp promoters were used to provide three different levels of constitutive expression of a second gene. the functions of these four individual promoters were established using green fluorescent protein (gfp) and a newly identified red fluorescence inducible protein ... | 2009 | 19760663 |
| residue tyr224 is critical for the thermostability of geobacillus sp. rd-2 lipase. | a thermophilic lipase (lipgrd) from geobacillus sp. rd-2, isolated from a hot spring in yunnan, china, was cloned and over-expressed in escherichia coli. the function of the conserved residue, tyr224, near the presumed temperature switch site was analyzed by site-directed saturation mutagenesis. the activity of the wild type lipgrd was optimal at 55 degrees c and ph 7.5, but that from mutant y224c was optimally active at 35 degrees c, whereas y224p lipase was optimally active at 65 degrees c. fu ... | 2010 | 19763406 |
| falsibacillus pallidus to replace the homonym bacillus pallidus zhou et al. 2008. | the prokaryotic species name bacillus pallidus zhou et al. 2008 is illegitimate because it is a later homonym of the name bacillus pallidus scholz et al. 1988 (bacteria, firmicutes, bacillales, bacillaceae, bacillus). although bacillus pallidus scholz et al. 1988 was transferred to the genus geobacillus as geobacillus pallidus comb. nov. in 2004, the species name bacillus pallidus scholz et al. 1988 remains validly published and has priority at that position [principle 8 of the bacteriological c ... | 2009 | 19767356 |
| restoring 3'-5' exonuclease activity of thermophilic geobacillus dna polymerase i using site-directed mutagenesis in active site. | three-dimensional structure and alignment analyses of 3'-5' exonuclease domain of dna polymerase i from thermophilic geobacillus sp. mkk show that the key catalytic amino acids in 3'-5' exonuclease domain are changed and the enzyme looses the activity. in order to render the activity, a catalytic module is constructed in the active site using site-directed mutagenesis. seven mutant clones of the enzyme are generated containing: m1 (v319d, e325l), m2 (a376d), m3 (d425f), m4 (insy446, k450d), m12 ... | 2009 | 19770007 |
| crystal structures of leishmania mexicana phosphoglycerate mutase suggest a one-metal mechanism and a new enzyme subclass. | the structures of leishmania mexicana cofactor-independent phosphoglycerate mutase (lm ipgam) crystallised with the substrate 3-phosphoglycerate at high and low cobalt concentrations have been solved at 2.00- and 1.90-a resolutions. both structures are very similar and the active site contains both 3-phosphoglycerate and 2-phosphoglycerate at equal occupancies (50%). lm ipgam co-crystallised with the product 2-phosphoglycerate yields the same structure. two co(2+) are coordinated within the acti ... | 2009 | 19781556 |
| gene cloning and characterization of an aldehyde dehydrogenase from long-chain alkane-degrading geobacillus thermoleovorans b23. | geobacillus thermoleovorans b23 is capable of degrading long-chain alkanes at 70 degrees c. bt-aldh, an aldehyde dehydrogenase gene in b23, was located in the upstream region of p21 whose expression level was dramatically increased when alkane degradation was started (kato et al. 2009, bmc microbiol 9:60). like p21, transcription level of bt-aldh was also increased upon alkane degradation. bt-aldh (497 aa, mw = 53,886) was overproduced in escherichia coli, purified, and characterized biochemical ... | 2010 | 19787414 |
| the n-terminal region is crucial for the thermostability of the g-domain of bacillus stearothermophilus ef-tu. | bacterial elongation factor tu (ef-tu) is a model monomeric g protein composed of three covalently linked domains. previously, we evaluated the contributions of individual domains to the thermostability of ef-tu from the thermophilic bacterium bacillus stearothermophilus. we showed that domain 1 (g-domain) sets up the basal level of thermostability for the whole protein. here we chose to locate the thermostability determinants distinguishing the thermophilic domain 1 from a mesophilic domain 1. ... | 2010 | 19800034 |
| aspergillusol a, an alpha-glucosidase inhibitor from the marine-derived fungus aspergillus aculeatus. | a new tyrosine-derived metabolite, aspergillusol a (4), was isolated on a gram scale, together with a methyl ester of 4-hydroxyphenylpyruvic acid oxime (5) and secalonic acid a, from the marine-derived fungus aspergillus aculeatus cri323-04. the tetraol in 4 was identified as erythritol by comparison of the 1h nmr spectrum of its benzoylated derivative with those of benzoylated erythritol (7) and d-threitol (8), as well as by cellulose-based chiral hplc analysis. aspergillusol a (4) selectively ... | 2009 | 19824618 |
| identifying assembly-inhibiting and assembly-tolerant sites in the sbsb s-layer protein from geobacillus stearothermophilus. | surface layer (s-layer) proteins self-assemble into two-dimensional crystalline lattices that cover the cell wall of all archaea and many bacteria. we have generated assembly-negative protein variants of high solubility that will facilitate high-resolution structure determination. assembly-negative versions of the s-layer protein sbsb from geobacillus stearothermophilus pv72/p2 were obtained using an insertion mutagenesis screen. the haemagglutinin epitope tag was inserted at 23 amino acid posit ... | 2010 | 19836402 |
| atomic substitution reveals the structural basis for substrate adenine recognition and removal by adenine dna glycosylase. | adenine dna glycosylase catalyzes the glycolytic removal of adenine from the promutagenic a.oxog base pair in dna. the general features of dna recognition by an adenine dna glycosylase, bacillus stearothermophilus muty, have previously been revealed via the x-ray structure of a catalytically inactive mutant protein bound to an a:oxog-containing dna duplex. although the structure revealed the substrate adenine to be, as expected, extruded from the dna helix and inserted into an extrahelical activ ... | 2009 | 19841264 |
| structural basis for translational fidelity ensured by transfer rna lysidine synthetase. | maturation of precursor transfer rna (pre-trna) includes excision of the 5' leader and 3' trailer sequences, removal of introns and addition of the cca terminus. nucleotide modifications are incorporated at different stages of trna processing, after the rna molecule adopts the proper conformation. in bacteria, trna(ile2) lysidine synthetase (tils) modifies cytidine into lysidine (l; 2-lysyl-cytidine) at the first anticodon of trna(ile2) (refs 4-9). this modification switches trna(ile2) from a me ... | 2009 | 19847269 |
| identification and characterization of thermophilic bacteria isolated from hot springs in turkey. | the present study was conducted to identify and characterize the thermophilic bacteria isolated from various hot springs in turkey by using phenotypic and genotypic methods including fatty acid methyl ester and rep-pcr profilings, and 16s rrna sequencing. the data of fatty acid analysis showed the presence of 17 different fatty acids in 15 bacterial strains examined in this study. six fatty acids, 15:0 iso, 15:0 anteiso, 16:0, 16:0 iso, 17:0 iso, and 17:0 anteiso, were present in all strains. th ... | 2009 | 19850088 |
| towards the structure of the c-terminal part of the s-layer protein sbsc. | the s-layer protein sbsc from geobacillus stearothermophilus atcc 12980 is the most prevalent single protein produced by the bacterium and covers the complete bacterial surface in the form of a two-dimensional crystalline monolayer. in order to elucidate the structural features of the assembly domains, several n-terminally truncated fragments of sbsc have been crystallized. crystals obtained from recombinant fragments showed anisotropic diffraction to a maximum of 3.5 a resolution using synchrot ... | 2009 | 19851018 |
| biosorption of heavy metals from industrial waste water by geobacillus thermodenitrificans. | the metal binding capacity of the thermophilic bacteria geobacillus thermodenitrificans isolated from damodar river, india was assessed using synthetic metal solutions and industrial waste water. biosorption preference of dead biomass of g. thermodenitrificans for the synthetic metal solutions was in the following order fe(+3)>cr(+3)>co(+2)>cu(+2)>zn(+2)>cd(+2)>ag(+)>pb(+2). it reduced the concentration of fe(+3) (91.31%), cr(+3) (80.80%), co(+2) (79.71%), cu(+2) (57.14%), zn(+2) (55.14%), cd(+2 ... | 2010 | 19864059 |
| icmf is a fusion between the radical b12 enzyme isobutyryl-coa mutase and its g-protein chaperone. | coenzyme b(12) is used by two highly similar radical enzymes, which catalyze carbon skeleton rearrangements, methylmalonyl-coa mutase and isobutyryl-coa mutase (icm). icm catalyzes the reversible interconversion of isobutyryl-coa and n-butyryl-coa and exists as a heterotetramer. in this study, we have identified >70 bacterial proteins, which represent fusions between the subunits of icm and a p-loop gtpase and are currently misannotated as methylmalonyl-coa mutases. we designate this fusion prot ... | 2010 | 19864421 |
| ph-triggered disassembly in a caged protein complex. | self-assembling protein cage structures have many potential applications in nanotechnology, one of which is therapeutic delivery. for intracellular targeting, ph-controlled disassembly of virus-like particles and release of their molecular cargo is particularly strategic. we investigated the potential of using histidines for introducing ph-dependent disassembly in the e2 subunit of pyruvate dehydrogenase. two subunit interfaces likely to disrupt stability, an intratrimer interface (the n-terminu ... | 2009 | 19874026 |
| purification and characterization of a thermostable phytate resistant alpha-amylase from geobacillus sp. lh8. | a thermophilic and amylolytic bacterium (lh8) was isolated from the hot spring of larijan in iran at 65 degrees c. identification of strain lh8 by 16s rdna sequence analysis showed that lh8 strain belongs to the geobacillus sp. with 99% sequence similarity with the 16s rdna of geobacillus thermodenitrificans. a new alpha-amylase (ga) was extracted from this strain and purified by ion-exchange chromatography. sds-page showed a single band with an apparent molecular mass of 52kda. the optimum temp ... | 2010 | 19874846 |
| functional roles of a structural element involving na+-pi interactions in the catalytic site of t1 lipase revealed by molecular dynamics simulations. | interactions between metal ions and pi systems (metal-pi interactions) are known to confer significant stabilization energy. however, in biological systems, few structures with metal-pi coordination have been determined; thus, its roles must still be elucidated. the cation-pi interactions are not correctly described by current molecular mechanics even when using a polarizable force field, and thus they require quantum mechanical calculations for accurate estimation. however, the huge computation ... | 2009 | 19886661 |
| entrapment and structure of an extrahelical guanine attempting to enter the active site of a bacterial dna glycosylase, mutm. | mutm, a bacterial dna glycosylase, protects genome integrity by catalyzing glycosidic bond cleavage of 8-oxoguanine (oxog) lesions, thereby initiating base excision dna repair. the process of searching for and locating oxog lesions is especially challenging, because of the close structural resemblance of oxog to its million-fold more abundant progenitor, g. extrusion of the target nucleobase from the dna double helix to an extrahelical position is an essential step in lesion recognition and cata ... | 2010 | 19889642 |
| a new xylanase from thermoacidophilic alicyclobacillus sp. a4 with broad-range ph activity and ph stability. | we have identified a highly ph-adaptable and stable xylanase (xyna4) from the thermoacidophilic alicyclobacillus sp. a4, a strain that was isolated from a hot spring in yunnan province, china. the gene (xyna4) that encodes this xylanase was cloned, sequenced, and expressed in escherichia coli. it encodes a 338-residue polypeptide with a calculated molecular mass of 42.5 kda. the deduced amino acid sequence is most similar to (53% identity) an endo-1,4-beta-xylanase from geobacillus stearothermop ... | 2010 | 19916085 |
| ribosomal interaction of bacillus stearothermophilus translation initiation factor if2: characterization of the active sites. | infb-encoded translation initiation factor if2 contains a non-conserved n-terminal domain and two conserved domains (g and c) constituted by three (g1, g2 and g3) and two (c1 and c2) sub-domains. here, we show that: (i) bacillus stearothermophilus if2 complements in vivo an escherichia coli infb null mutation and (ii) the n-domain of b. stearothermophilus if2, like that of e. coli if2, provides a strong yet dispensable interaction with 30 s and 50 s subunits in spite of the lack of any size, seq ... | 2010 | 19917289 |
| endo- and exo-inulinases: enzyme-substrate interaction and rational immobilization. | three-dimensional models of exoinulinase from bacillus stearothermophilus and endoinulinase from aspergillus niger were built up by means of homology modeling. the crystal structure of exoinulinase from aspergillus awamori was used as a template, which is the sole structure of inulinase resolved so far. docking and molecular dynamics simulations were performed to investigate the differences between the two inulinases in terms of substrate selectivity. the analysis of the structural differences b ... | 2010 | 19941325 |
| characterization of the anthranilate degradation pathway in geobacillus thermodenitrificans ng80-2. | anthranilate is an important intermediate of tryptophan metabolism. in this study, a hydroxylase system consisting of an fadh(2)-utilizing monooxygenase (gtng_3160) and an fad reductase (gtng_3158), as well as a bifunctional riboflavin kinase/fmn adenylyltransferase (gtng_3159), encoded in the anthranilate degradation gene cluster in geobacillus thermodenitrificans ng80-2 were functionally characterized in vitro. gtng_3159 produces fad to be reduced by gtng_3158 and the reduced fad (fadh(2)) is ... | 2010 | 19942660 |
| evaluation of the vitek2 bcl card for identification of bacillus species and other aerobic endosporeformers. | to evaluate the performance of the vitek2 bacillus identification card (bcl) for the identification of aerobic endospore-forming bacteria, using fresh isolates and reference strains. | 2010 | 19943885 |
| structural tightening and interdomain communication in the catalytic cycle of phosphoglycerate kinase. | changes in amide-nh chemical shift and hydrogen exchange rates as phosphoglycerate kinase progresses through its catalytic cycle have been measured to assess whether they correlate with changes in hydrogen bonding within the protein. four representative states were compared: the free enzyme, a product complex containing 3-phosphoglyceric acid (3pg), a substrate complex containing adp and a transition-state analogue (tsa) complex containing a 3pg-alf(4)(-)-adp moiety. there are an overall increas ... | 2010 | 19944703 |
| absorption, steady-state fluorescence, fluorescence lifetime, and 2d self-assembly properties of engineered fluorescent s-layer fusion proteins of geobacillus stearothermophilus nrs 2004/3a. | s-layer fusion protein technology was used to design four different fluorescent fusion proteins with three different gfp mutants and the red fluorescent protein mrfp1. their absorption spectra, steady-state fluorescence, and fluorescence lifetime were investigated as a function of ph. it was found that fluorescence intensities and lifetime of the gfp mutant s-layer fusion proteins decreased about 50% between ph 6 and ph 5. the spectral properties of the red s-layer fusion protein were minimally ... | 2010 | 19954211 |
| on the importance of the small domain in the thermostability of thermoalkalophilic lipases from l1 and t1: insights from molecular dynamics simulation. | an all-atom level md simulation in explicit solvent at high temperature is a powerful technique to increase our knowledge about the structurally important regions modulating thermal stability in thermenzymes. in this respect, two large-sized thermoalkalophilic enzymes from bacillus stearothermophilus l1 (l1 lipase) and geobacillus zalihae strain t1 (t1 lipase) are well-established representatives. in this paper, comparative results from temperature-induced md simulations of both model systems at ... | 2010 | 19958281 |
| modification of progesterone and testosterone by a food-borne thermophile geobacillus kaustophilus. | the present work was carried out to study structural modification of steroids by geobacillus kaustophilus, a bacterial thermophile present in milk and the environment. incubation of progesterone and testosterone with g. kaustophilus at 65 degrees c resulted in oxygenated steroid nuclei. the oxygenation of the steroid molecule was stereo specific. seven metabolites of progesterone horizontal line 6beta/6alpha-hydroxytestosterone, 20-hydroxyprogesterone, 6beta-/6alpha-20-dihydroxyprogesterone, 5al ... | 2010 | 19961354 |
| a group i self-splicing intron in the flagellin gene of the thermophilic bacterium geobacillus stearothermophilus. | a group i intron that can be spliced in vivo and in vitro was identified in the flagellin gene of the thermophilic bacterium geobacillus stearothermophilus. we also found one or two intervening sequences (ivs) of flagellin genes in five additional bacterial species. furthermore, we report the presence of these sequences in two sites of a highly conserved region in the flagellin gene. | 2009 | 19966479 |
| characterization of thermostable fmn-dependent nadh azoreductase from the moderate thermophile geobacillus stearothermophilus. | the gene encoding an fmn-dependent nadh azoreductase, azrg, from thermophilic geobacillus stearothermophilus was cloned and functionally expressed in recombinant escherichia coli. purified recombinant azrg is a homodimer of 23 kda and bore fmn as a flavin cofactor. the optimal temperature of azrg was 85 degrees c for the degradation of methyl red (mr). azrg remained active for 1 h at 65 degrees c and for 1 month at 30 degrees c, demonstrating both superior thermostability and long-term stability ... | 2010 | 19997911 |
| deciphering the flexibility and dynamics of geobacillus zalihae strain t1 lipase at high temperatures by molecular dynamics simulation. | the stability of biocatalysts is an important criterion for a sustainable industrial operation economically. t1 lipase is a thermoalkalophilic enzyme derived from geobacillus zalihae strain t1 (t1 lipase) that was isolated from palm oil mill effluent (pome) in malaysia. we report here the results of high temperatures molecular dynamics (md) simulations of t1 lipase in explicit solvent. we found that the n-terminal moiety of this enzyme was accompanied by a large flexibility and dynamics during t ... | 2009 | 20001926 |
| encounter and extrusion of an intrahelical lesion by a dna repair enzyme. | how living systems detect the presence of genotoxic damage embedded in a million-fold excess of undamaged dna is an unresolved question in biology. here we have captured and structurally elucidated a base-excision dna repair enzyme, mutm, at the stage of initial encounter with a damaged nucleobase, 8-oxoguanine (oxog), nested within a dna duplex. three structures of intrahelical oxog-encounter complexes are compared with sequence-matched structures containing a normal g base in place of an oxog ... | 2009 | 20010681 |
| dry thermal resistance of bacillus anthracis (sterne) spores and spores of other bacillus species: implications for biological agent destruction via waste incineration. | to obtain needed data on the dry thermal resistance of bacillus anthracis spores and other bacillus species for waste incinerator applications. | 2010 | 20015207 |
| proteomic analysis of interactions between a deep-sea thermophilic bacteriophage and its host at high temperature. | the virus-host interaction is essential to understanding the role that viruses play in ecological and geochemical processes in deep-sea vent ecosystems. virus-induced changes in cellular gene expression and host physiology have been studied extensively. however, the molecular mechanism of interaction between a bacteriophage and its host at high temperature remains poorly understood. in the present study, the virus-induced gene expression profile of geobacillus sp. e263, a thermophile isolated fr ... | 2010 | 20015994 |
| effectiveness of inoculation with isolated geobacillus strains in the thermophilic stage of vegetable waste composting. | an inoculum containing two amylolytic and three cellulolytic thermophilic bacteria, isolated from a preceding compost pile and identified as geobacillus species by 16s rrna gene sequencing, was applied to a mixture of market waste, rice straw and cow dung (5:1:0.2) so that the initial cell density was 2 x 10(8) colony forming unit (cfu) per gram dry weight at 55 degrees celsius. the inoculation increased the total cell count particularly in the thermophilic stage as determined by flow cytometry. ... | 2010 | 20036532 |
| roles of rubisco and the rubisco-like protein in 5-methylthioadenosine metabolism in the nonsulfur purple bacterium rhodospirillum rubrum. | ribulose 1,5-bisphosphate carboxylase/oxygenase (rubisco) catalyzes the assimilation of atmospheric co(2) into organic matter and is thus central to the existence of life on earth. the beginning of the 2000s was marked by the discovery of a new family of proteins, the rubisco-like proteins (rlps), which are structural homologs of rubisco. rlps are unable to catalyze co(2) fixation. the rlps from chlorobaculum tepidum, bacillus subtilis, geobacillus kaustophilus, and microcystis aeruginosa have b ... | 2010 | 20038587 |
| heterogeneous properties of individual molecules of beta-galactosidase from the thermophilic bacteria geobacillus stearothermophilus. | single enzyme molecule assays were performed on beta-galactosidase from the thermophilic bacteria geobacillus stearothermophilus using a capillary electrophoresis-based continuous flow assay and the substrate ddao-beta-d: -galactoside. the enzyme was found to be heterogeneous with respect to catalytic rate, electrophoretic mobility and activation energy of catalysis. catalytic rate was also found to vary over time for individual molecules at elevated temperature. comparison with beta-galactosida ... | 2010 | 20049517 |
| antioxidant activity of biotransformed sex hormones facilitated by bacillus stearothermophilus. | bacillus stearothermophilus, a thermophilic bacterium isolated from kuwaiti desert, when incubated with exogenous progesterone for 10 days at 65 degrees c produced two monohydroxylated, two dihydroxy isomers of progesterone and a b-seco compound. these metabolites were purified by tlc and hplc followed by their identification through (1)h, (13)c nmr and other spectroscopic data. microbial hydroxylation of 17beta-estradiol resulted in the production of estrone. the effect of some inducers resulte ... | 2010 | 20072930 |
| conformational transitions in dna polymerase i revealed by single-molecule fret. | the remarkable fidelity of most dna polymerases depends on a series of early steps in the reaction pathway which allow the selection of the correct nucleotide substrate, while excluding all incorrect ones, before the enzyme is committed to the chemical step of nucleotide incorporation. the conformational transitions that are involved in these early steps are detectable with a variety of fluorescence assays and include the fingers-closing transition that has been characterized in structural studi ... | 2010 | 20080740 |
| geobacillus sp., a thermophilic soil bacterium producing volatile antibiotics. | geobacillus, a bacterial genus, is represented by over 25 species of gram-positive isolates from various man-made and natural thermophilic areas around the world. an isolate of this genus (m-7) has been acquired from a thermal area near yellowstone national park, mt and partially characterized. the cells of this organism are globose (ca. 0.5 mu diameter), and they are covered in a matrix capsule which gives rise to elongate multicelled bacilliform structures (ranging from 3 to 12 mum) as seen by ... | 2010 | 20091406 |
| characterization of hyperthermostable alpha-amylase from geobacillus sp. iiptn. | a newly isolated geobacillus sp. iiptn (mtcc 5319) from the hot spring of uttarakhand's himalayan region produced a hyperthermostable alpha-amylase. the microorganism was characterized by biochemical tests and 16s rrna gene sequencing. the optimal temperature and ph were 60 degrees c and 6.5, respectively, for growth and enzyme production. although it was able to grow in temperature ranges from 50 to 80 degrees c and ph 5.5-8.5. maximum enzyme production was in exponential phase with activity 13 ... | 2010 | 20094713 |
| refolding of the non-specific neutral protease from bacillus stearothermophilus proceeds via an autoproteolytically sensitive intermediate. | a very thermostable variant of the thermolysin-like protease from bacillus stearothermophilus (g8c/n60c) was previously created by introduction of a disulfide bond into the cysteine-free pseudo-wild type variant (pwt) and thus fixing the unfolding region 56-69. in the present paper, we show that g8c/n60c and pwt can be reactivated from the completely unfolded states, accessible at >or=7.5m guanidine hydrochloride, and analyze the kinetics of folding, autoproteolytic degradation and aggregation. ... | 2010 | 20096501 |
| structural basis of substrate binding in wsaf, a rhamnosyltransferase from geobacillus stearothermophilus. | carbohydrate polymers are medically and industrially important. the s-layer of many gram-positive organisms comprises protein and carbohydrate polymers and forms an almost paracrystalline array on the cell surface. not only is this array important for the bacteria but it has potential application in the manufacture of commercially important polysaccharides and glycoconjugates as well. the s-layer glycoprotein glycan from geobacillus stearothermophilus nrs 2004/3a is mainly composed of repeating ... | 2010 | 20097205 |
| a mas nmr study of the bacterial abc transporter artmp. | atp-binding cassette (abc) transport systems facilitate the translocation of substances, like amino acids, across cell membranes energised by atp hydrolysis. this work describes first structural studies on the abc transporter artmp from geobacillus stearothermophilus in native lipid environment by magic-angle spinning nmr spectroscopy. the 2d crystals of artmp and 3d crystals of isolated artp were prepared in different nucleotide-bound or -unbound states. from selectively (13)c,(15)n-labelled ar ... | 2010 | 20099290 |
| magnetic circular dichroism spectroscopic characterization of the nos-like protein from geobacillus stearothermophilus (gsnos). | nitric oxide synthase (nos) catalyzes the nadph- and o(2)-dependent oxidation of l-arginine (l-arg) to nitric oxide (no) and citrulline via an n(g)-hydroxy-l-arginine (nha) intermediate. mammalian noss have been studied quite extensively; other eukaryotes and some prokaryotes appear to express nos-like proteins comparable to the oxygenase domain of mammalian noss. in this study, a recombinant nos-like protein from the thermostable bacterium geobacillus stearothermophilus (gsnos) has been charact ... | 2010 | 20110129 |
| biochemical and structural properties of gamma-glutamyl transpeptidase from geobacillus thermodenitrificans: an enzyme specialized in hydrolase activity. | gamma-glutamyltranspeptidases (gamma-gts) catalyze the transfer of the gamma-glutamyl moiety of glutathione and related gamma-glutamyl amides to water (hydrolysis) or to amino acids and peptides (transpeptidation) and play a key role in glutathione metabolism. recently, gamma-gts have been considered attractive pharmaceutical targets for cancer and useful tools to produce gamma-glutamyl compounds. to find out gamma-gts with special properties we have chosen microorganisms belonging to geobacillu ... | 2010 | 20138205 |
| alkaline ph-dependent differential unfolding characteristics of mesophilic and thermophilic homologs of dimeric serine hydroxymethyltransferase. | environmental variables such as ph can significantly influence the folding and stability of a protein molecule. in the present investigation, we compared the alkaline ph-induced unfolding of two homologous serine hydroxymethyltransferase from mesophilic bacillus subtilis (bsshmt) and thermophilic bacillus stearothermophilus (bstshmt) using various biophysical techniques. the thermophilic enzyme bstshmt was found to be more resistant to alkaline denaturation compared to its mesophilic counterpart ... | 2010 | 20152942 |
| the second extracellular loop of pore-forming subunits of atp-binding cassette transporters for basic amino acids plays a crucial role in interaction with the cognate solute binding protein(s). | in the thermophile geobacillus stearothermophilus, the uptake of basic amino acids is mediated by an abc transporter composed of the substrate binding protein (receptor) artj and a homodimer each of the pore-forming subunit, artm, and the nucleotide-binding subunit, artp. we recently identified two putative binding sites in artj that might interact with the art(mp)(2) complex, thereby initiating the transport cycle (a. vahedi-faridi et al., j. mol. biol. 375:448-459, 2008). here we investigated ... | 2010 | 20154136 |
| characterization of a broad-range aldehyde dehydrogenase involved in alkane degradation in geobacillus thermodenitrificans ng80-2. | an aldehyde dehydrogenase (aldh) involved in alkane degradation in crude oil-degrading geobacillus thermodenitrificans ng80-2 was characterized in vitro. the aldh was expressed heterologously in escherichia coli and purified as a his-tagged homotetrameric protein with a subunit of 57 kda based on sds-page and native-page analysis. the purified aldh-oxidized alkyl aldehydes ranging from formaldehyde (cā) to eicosanoic aldehyde (cāā) with the highest activity on cā. it also oxidized several aromat ... | 2010 | 20171064 |
| the structure of dinb from geobacillus stearothermophilus: a representative of a unique four-helix-bundle superfamily. | the crystal structure of the dinb gene product from geobacillus stearothermophilus (gsdinb) is reported at 2.5 a resolution. the dinb gene is one of the dna-damage-induced genes and the corresponding protein, dinb, is the founding member of a pfam family with no known function. the protein contains a four-helix up-down-down-up bundle that has previously been described in the literature in three disparate proteins: the enzyme mdmpi (mycothiol-dependent maleylpyruvate isomerase), yfit and ttha0303 ... | 2010 | 20208147 |
| [enzymatic transglycosylation of natural and modified nucleosides by immobilized thermostable nucleoside phosphorylases from geobacillus stearothermophilus]. | natural and modified purine nucleosides have been synthesized using the recombinant thermostable enzymes purine nucleoside phosphorylase ii (ec 2.4.2.1) and pyrimidine nucleoside phosphorylase (ec 2.4.2.2) from geobacillus stearothermophilus b-2194. the enzymes were produced in recombinant e. coli strains and covalently immobilized on aminopropylsilochrom ap-cpg-170 after heating the cell lysates and the removal of coagulated thermolabile proteins. the resulting preparations of thermostable nucl ... | 2009 | 20208582 |
| comparison of the effectiveness of sterilizing endodontic files by 4 different methods: an in vitro study. | sterilization is the best method to counter the threats of microorganisms. the purpose of sterilization in the field of health care is to prevent the spread of infectious diseases. in dentistry, it primarily relates to processing reusable instruments to prevent cross-infection. the aim of this study was to investigate the efficacy of 4 methods of sterilizing endodontic instruments: autoclaving, carbon dioxide laser sterilization, chemical sterilization (with glutaraldehyde) and glass-bead steril ... | 2010 | 20215664 |
| studying subunit-subunit interactions in a bacterial abc transporterby in vitro assembly. | the thermostable arginine abc transporter of geobacillus stearothermophilus consists of a solute binding protein, artj; a transmembrane subunit, artm; and a nucleotide-binding subunit, artp. an artm/his(6)-artp complex was functionally assembled from separately purified subunits as demonstrated by assaying stimulation of its atpase activity by arginine-loaded artj in proteoliposomes. studying in vitro assembly with variants carrying mutations in the conserved q loop and/or the eaa loop of artp a ... | 2010 | 20226162 |
| mutation analysis of the interaction of b-type cytochrome c oxidase with its natural substrate cytochrome c-551. | heme-copper oxidases in the respiratory chain are classified into three subfamilies: a-, b- and c-types. cytochrome bo(3)-type cytochrome c oxidase from thermophilic bacillus is a b-type oxidase that is thought to interact with cytochrome c through hydrophobic interactions. this is in contrast to a-type oxidases, which bind cytochrome c molecules primarily through electrostatic forces between acidic residues in the oxidase subunit ii and basic residues within cytochromes. in order to investigate ... | 2010 | 20226371 |
| improved yields of cyclic nigerosylnigerose from starch by pretreatment with a thermostable branching enzyme. | cyclic nigerosylnigerose (cnn) is produced enzymatically from starch by the combined action of 6-alpha-glucosyltransferase and 3-alpha-isomaltosyltransferase. in our previous study, alpha-1,6-branching chains found in the structure of amylopectin and glycogen were shown to be favorable for cnn formation by the two enzymes. therefore, we examined whether the introduction of alpha-1,6-branch points into starch using the action of branching enzyme (be) could improve the yield of cnn from starch. th ... | 2010 | 20226381 |
| substrate specificity and biochemical properties of m3.bstf5i dna methyltransferase from the bstf5i restriction-modification system. | optimal conditions for dna methylation by the m3.bstf5i enzyme from bacillus stearothermophilus and kinetic parameters of lambda phage dna modification and that of a number of oligonucleotide substrates are established. comparison of m1.bstf5i and m3.bstf5i kinetic parameters revealed that with similar temperature optima and affinity for dna, m3.bstf5i has nearly fourfold lower turnover number (0.24 min(-1)) and modifies the hemimethylated recognition site with lower efficiency under optimal con ... | 2010 | 20331425 |
| structural study of carboxylesterase from hyperthermophilic bacteria geobacillus stearothermophilus by molecular dynamics simulation. | carboxylesterases are ubiquitous enzymes with important physiological, industrial and medical applications such as synthesis and hydrolysis of stereo specific compounds, including the metabolic processing of drugs, and antimicrobial agents. here, we have performed molecular dynamics simulations of carboxylesterase from hyperthermophilic bacterium geobacillus stearothermophilus (gsest) for 10ns each at five different temperatures namely at 300k, 343k, 373k, 473k and 500k. profiles of root mean sq ... | 2010 | 20347362 |
| preparation of carboxylated magnetic particles for the efficient immobilization of c-terminally lysine-tagged bacillus stearothermophilus aminopeptidase ii. | this article reports the synthesis and use of surface-modified iron oxide particles for the simultaneous purification and immobilization of bacillus stearothermophilus aminopeptidase ii (bsapii) tagged c-terminally with either tri- or nona-lysines (bsapii-lys(3/9)). the carboxylated magnetic particles were prepared by the simple co-precipitation of fe(3+)/fe(2+) in aqueous medium and then subsequently modified with adipic acid. transmission electron microscopy (tem) micrographs showed that the c ... | 2010 | 20373125 |
| enzymatic synthesis of glycosylated puerarin using maltogenic amylase from bacillus stearothermophilus expressed in bacillus subtilis. | the maltogenic amylase from bacillus stearothermophilus (bsma) is a valuable biocatalyst that has been used to transglycosylate natural glycosides to improve solubility. to ensure safety, bsma was produced in bacillus subtilis, using new shuttle vector-based expression vectors. the transglycosylation of puerarin was also conducted with crude bsma and analyzed. | 2010 | 20393999 |
| understanding catalytic specificity in alanine racemase from quantum mechanical and molecular mechanical simulations of the arginine 219 mutant. | alanine racemase (alar) catalyzes the interconversion between l-ala and d-ala with the aid of the cofactor pyridoxal 5'-phosphate (plp). the pyridine nitrogen in plp in the wild-type enzyme is unprotonated due to interaction with arg219, a rare feature among plp-dependent enzymes. herein, we performed combined quantum mechanics and molecular mechanics molecular dynamics simulations to study the arg219glu mutant alar. in this form of the enzyme, the plp-pyridine nitrogen is protonated. this study ... | 2010 | 20394349 |
| pcr detection of thermophilic spore-forming bacteria involved in canned food spoilage. | thermophilic bacteria that form highly heat-resistant spores constitute an important group of spoilage bacteria of low-acid canned food. a pcr assay was developed in order to rapidly trace these bacteria. three pcr primer pairs were designed from rrna gene sequences. these primers were evaluated for the specificity and the sensitivity of detection. two primer pairs allowed detection at the species level of geobacillus stearothermophilus and moorella thermoacetica/thermoautrophica. the other pair ... | 2010 | 20397018 |
| enhanced production of lipase by the thermophilic geobacillus stearothermophilus strain-5 using statistical experimental designs. | statistically based experimental designs were applied to optimize the cultural conditions for the production of a glycerol-inducible lipase from the thermophilic geobacillus stearothermophilus strain-5. the effect of nineteen culture conditions on enzyme production was evaluated using plackett-burman factorial design. tween 80, k(2)hpo(4), glycerol and glucose were the most significant factors in improving enzyme production. the selected parameters were then further investigated using central co ... | 2010 | 20412872 |
| a selection that reports on protein-protein interactions within a thermophilic bacterium. | many proteins can be split into fragments that exhibit enhanced function upon fusion to interacting proteins. while this strategy has been widely used to create protein-fragment complementation assays (pcas) for discovering protein-protein interactions within mesophilic organisms, similar assays have not yet been developed for studying natural and engineered protein complexes at the temperatures where thermophilic microbes grow. we describe the development of a selection for protein-protein inte ... | 2010 | 20418388 |
| detection of fusarium graminearum dna using a loop-mediated isothermal amplification (lamp) assay. | loop-mediated isothermal amplification (lamp) of dna is a simple, cost effective, and rapid method for the specific detection of genomic dna using a set of six oligonucleotide primers with eight binding sites hybridizing specifically to different regions of a target gene, and a thermophilic dna polymerase from geobacillus stearothermophilus for dna amplification. the method has been applied in various assays for the diagnosis of bacterial and viral infections of humans and animals, sexing of bov ... | 2010 | 20442002 |
| molecular dynamics studies on t1 lipase: insight into a double-flap mechanism. | t1 lipase is isolated from the palm geobacillus zalihae strain t1 in malaysia, functioning as a secreted protein responsible for the catalyzing hydrolysis of long-chain triglycerides into fatty acids and glycerol at high temperatures. in the current study, using 30 ns molecular dynamics simulations at different temperatures, an aqueous activation was detected for t1 lipase. this aqueous activation in t1 lipase was mainly caused by a double-flap movement mechanism. the double flaps were constitut ... | 2010 | 20443585 |
| physicochemical characteristics of a thermostable gellan lyase from geobacillus stearothermophilus 98. | a purified thermostable gellan lyase, produced by a thermophilic bacterium, geobacillus stearothermophilus 98, was characterized in relation to its physicochemical properties. the gellan lyase was established to have a molecular weight of 216 kda, defined by capillary gel electrophoresis. amino acid analysis revealed high quantities of lys, his, ala, val, ile, glx, and pro residues. the circular dichroism revealed 45% beta-structure and practically lack of a-spiral domains. kinetic studies showe ... | 2010 | 20469643 |
| thermostable l-arabinose isomerase from bacillus stearothermophilus iam 11001 for d-tagatose production: gene cloning, purification and characterisation. | d-tagatose, as one of the rare sugars, has been found to be a natural and safe low-calorie sweetener in food products and is classified as a gras substance. l-arabinose isomerase (l-ai, ec 5.3.1.4), catalysing the isomerisations of l-arabinose and d-galactose to l-ribulose and d-tagatose respectively, is considered to be the most promising enzyme for the production of d-tagatose. | 2010 | 20474051 |