Publications
| Title | Abstract | Year Filter | PMID(sorted descending) Filter |
|---|
| crystal structure of the deinococcus radiodurans single-stranded dna-binding protein suggests a mechanism for coping with dna damage. | single-stranded dna (ssdna)-binding (ssb) proteins are uniformly required to bind and protect single-stranded intermediates in dna metabolic pathways. all bacterial and eukaryotic ssb proteins studied to date oligomerize to assemble four copies of a conserved domain, called an oligonucleotide/oligosaccharide-binding (ob) fold, that cooperate in nonspecific ssdna binding. the vast majority of bacterial ssb family members function as homotetramers, with each monomer contributing a single ob fold. ... | 2004 | 15159541 |
| characterization of a nudix hydrolase from deinococcus radiodurans with a marked specificity for (deoxy)ribonucleoside 5'-diphosphates. | nudix hydrolases form a protein family whose function is to hydrolyse intracellular nucleotides and so regulate their levels and eliminate potentially toxic derivatives. the genome of the radioresistant bacterium deinococcus radiodurans encodes 25 nudix hydrolases, an unexpectedly large number. these may contribute to radioresistance by removing mutagenic oxidised and otherwise damaged nucleotides. characterisation of these hydrolases is necessary to understand the reason for their presence. her ... | 2004 | 15147580 |
| distinctive protein signatures provide molecular markers and evidence for the monophyletic nature of the deinococcus-thermus phylum. | the deinococcus-thermus group of species is currently recognized as a distinct phylum solely on the basis of their branching in 16s rrna trees. no unique biochemical or molecular characteristics that can distinguish this group from all other bacteria are known at present. in this work, we describe eight conserved indels (viz., inserts or deletions) in seven widely distributed proteins that are distinctive characteristics of the deinococcus-thermus phylum but are not found in any other group of b ... | 2004 | 15126471 |
| structural studies of the nudix hydrolase dr1025 from deinococcus radiodurans and its ligand complexes. | we have determined the crystal structure, at 1.4a, of the nudix hydrolase dr1025 from the extremely radiation resistant bacterium deinococcus radiodurans. the protein forms an intertwined homodimer by exchanging n-terminal segments between chains. we have identified additional conserved elements of the nudix fold, including the metal-binding motif, a kinked beta-strand characterized by a proline two positions upstream of the nudix consensus sequence, and participation of the n-terminal extension ... | 2004 | 15123424 |
| ring-shaped architecture of recr: implications for its role in homologous recombinational dna repair. | recr, together with recf and reco, facilitates reca loading in the recf pathway of homologous recombinational dna repair in procaryotes. the human rad52 protein is a functional counterpart of recfor. we present here the crystal structure of recr from deinococcus radiodurans (dr recr). a monomer of dr recr has a two-domain structure: the n-terminal domain with a helix-hairpin-helix (hhh) motif and the c-terminal domain with a cys4 zinc-finger motif, a toprim domain and a walker b motif. four such ... | 2004 | 15116069 |
| purification and some properties of superoxide dismutase from deinococcus radiophilus, the uv-resistant bacterium. | the superoxide dismutase (sod, ec 1.15.1.1) of deinococcus radiophilus, a bacterium extraordinarily resistant to uv, ionizing radiations, and oxidative stress, was purified 1,920-fold with a 58% recovery yield from the cell-free extract of stationary cells by steps of ammonium sulfate fractionation and superdex g-75 gel-filtration chromatography. a specific activity of the purified enzyme preparation was ca. 31,300 u mg(-1) protein. d. radiophilus sod is mn/fesod, judging by metal analysis and i ... | 2004 | 15106001 |
| expression, purification, crystallization and preliminary crystal structure analysis of the deinococcus radiodurans organic hydroperoxide-resistance protein. | the organic hydroperoxide-resistance protein (dr1857) from deinococcus radiodurans has been expressed, purified and crystallized. the crystals are suitable for x-ray analysis, diffract to at least 2.3 a resolution, have unit-cell parameters a = 45.7, b = 59.6, c = 49.7 a, beta = 90.43 degrees and belong to space group p2(1). the calculated matthews coefficient of 2.1 a(3) da(-1) coupled with a calculated solvent content of approximately 42% is consistent with the presence of a homodimer in the a ... | 2004 | 15103139 |
| binding to pyruvylated compounds as an ancestral mechanism to anchor the outer envelope in primitive bacteria. | electron microscopy of isolated cell walls of the ancient bacterium thermus thermophilus revealed that most of the peptidoglycan (pg) surface, apart from the septal region, was shielded against specific alphapg antibodies. on the other hand, an antiserum raised against s-layer-attached cell wall fragments (alphasac) bound to most of the surface except for the septal regions. treatments with alpha-amylase and pronase e made the entire cell wall surface uniformly accessible to alphapg and severely ... | 2004 | 15101975 |
| chemiluminescence assay for reactive oxygen species scavenging activities and inhibition on oxidative damage of dna in deinococcus radiodurans. | free radical scavenging effects of the cellular protein extracts from two strains of deinococcus radiodurans and escherichia coli against o2-, h2o2 and *oh were investigated by chemiluminescence (cl) methods. the cellular protein extracts of d. radiodurans r1 and kd8301 showed higher scavenging effects on o2- than that of e. coli. d. radiodurans r1 and kd8301 also strongly scavenged h2o2 with an ec50 (50% effective concentration) of 0.12 and 0.2 mg/ml, respectively, compared to that of e. coli ( ... | 2004 | 15098207 |
| gene prediction using the self-organizing map: automatic generation of multiple gene models. | many current gene prediction methods use only one model to represent protein-coding regions in a genome, and so are less likely to predict the location of genes that have an atypical sequence composition. it is likely that future improvements in gene finding will involve the development of methods that can adequately deal with intra-genomic compositional variation. | 2004 | 15070404 |
| the genome sequence of the extreme thermophile thermus thermophilus. | thermus thermophilus hb27 is an extremely thermophilic, halotolerant bacterium, which was originally isolated from a natural thermal environment in japan. this organism has considerable biotechnological potential; many thermostable proteins isolated from members of the genus thermus are indispensable in research and in industrial applications. we present here the complete genome sequence of t. thermophilus hb27, the first for the genus thermus. the genome consists of a 1,894,877 base pair chromo ... | 2004 | 15064768 |
| alterations at the peptidyl transferase centre of the ribosome induced by the synergistic action of the streptogramins dalfopristin and quinupristin. | the bacterial ribosome is a primary target of several classes of antibiotics. investigation of the structure of the ribosomal subunits in complex with different antibiotics can reveal the mode of inhibition of ribosomal protein synthesis. analysis of the interactions between antibiotics and the ribosome permits investigation of the specific effect of modifications leading to antimicrobial resistances. streptogramins are unique among the ribosome-targeting antibiotics because they consist of two ... | 2004 | 15059283 |
| the structure of the organic hydroperoxide resistance protein from deinococcus radiodurans. do conformational changes facilitate recycling of the redox disulfide? | the three-dimensional structure of the organic hydroperoxide resistance protein (ohrp) from deinococcus radiodurans as determined using single crystal xray diffraction techniques is reported. comparison of the structure with that obtained for ohrp from pseudomonas aeruginosa reveals that the polypeptide chain of ohrps can adopt two significantly different conformations ("in" and "out") in the region of the active site disulfide moiety. it is postulated that the closed configuration is consistent ... | 2004 | 15054099 |
| definition of bases in 23s rrna essential for ribosomal subunit association. | the ribosome is a two-subunit molecular machine, sporting a working cycle that involves coordinated movements of the subunits. recent structural studies of the 70s ribosome describe a rather large number of intersubunit contacts, some of which are dynamic during translocation. we set out to determine which intersubunit contacts are functionally indispensable for the association of ribosome subunits by using a modification interference approach. modification of the n-1 position of a715, a1912, or ... | 2004 | 15037769 |
| the biliverdin chromophore binds covalently to a conserved cysteine residue in the n-terminus of agrobacterium phytochrome agp1. | phytochromes are widely distributed biliprotein photoreceptors. typically, the chromophore becomes covalently linked to the protein during an autocatalytic lyase reaction. plant and cyanobacterial phytochromes incorporate bilins with a ring a ethylidene side chain, whereas other bacterial phytochromes utilize biliverdin as chromophore, which has a vinyl ring a side chain. for agrobacterium phytochrome agp1, site-directed mutagenesis provided evidence that biliverdin is bound to cysteine 20. this ... | 2004 | 15035636 |
| deinococcus indicus sp. nov., an arsenic-resistant bacterium from an aquifer in west bengal, india. | an arsenic- and radiation-resistant bacterium, strain wt/1a(t), was isolated from water from an arsenic-contaminated aquifer located in the chakdah district of west bengal, india. the bacterium stains gram-negative and is rod-shaped, non-motile, non-sporulating and red-pigmented. cell-wall peptidoglycan contains ornithine as the diamino acid, mk-8 is the major menaquinone, c(15 : 1) and c(16 : 1) are the major fatty acids and the dna g+c content of the organism is 65.8 mol%. based on these pheno ... | 2004 | 15023960 |
| developing a genetic system in deinococcus radiodurans for analyzing mutations. | we have applied a genetic system for analyzing mutations in escherichia coli to deinococcus radiodurans, an extremeophile with an astonishingly high resistance to uv- and ionizing-radiation-induced mutagenesis. taking advantage of the conservation of the beta-subunit of rna polymerase among most prokaryotes, we derived again in d. radiodurans the rpob/rif(r) system that we developed in e. coli to monitor base substitutions, defining 33 base change substitutions at 22 different base pairs. we seq ... | 2004 | 15020457 |
| histone-like protein hu from deinococcus radiodurans binds preferentially to four-way dna junctions. | the histone-like protein hu from escherichia coli is involved in dna compaction and in processes such as dna repair and recombination. its participation in these events is reflected in its ability to bend dna and in its preferred binding to dna junctions and dna with single-strand breaks. deinococcus radiodurans is unique in its ability to reconstitute its genome from double strand breaks incurred after exposure to ionizing radiation. using electrophoretic mobility shift assays (emsa), we show t ... | 2004 | 15019777 |
| the search for life on europa: limiting environmental factors, potential habitats, and earth analogues. | the putative ocean of europa has focused considerable attention on the potential habitats for life on europa. by generally clement earth standards, these europan habitats are likely to be extreme environments. the objectives of this paper were to examine: (1) the limits for biological activity on earth with respect to temperature, salinity, acidity, desiccation, radiation, pressure, and time; (2) potential habitats for life on europa; and (3) earth analogues and their limitations for europa. bas ... | 2003 | 14987483 |
| an automated high performance capillary liquid chromatography-fourier transform ion cyclotron resonance mass spectrometer for high-throughput proteomics. | we describe a fully automated high performance liquid chromatography 9.4 tesla fourier transform ion resonance cyclotron (fticr) mass spectrometer system designed for proteomics research. a synergistic suite of ion introduction and manipulation technologies were developed and integrated as a high-performance front-end to a commercial bruker daltonics fticr instrument. the developments incorporated included a dual-esi-emitter ion source; a dual-channel electrodynamic ion funnel; tandem quadrupole ... | 2004 | 14766289 |
| crystallization and preliminary x-ray crystallographic analysis of the recr protein from deinococcus radiodurans, a member of the recfor dna-repair pathway. | the recr protein plays a key role in the recfor pathway of recombination, which is necessary for the repair of ssdna gaps. recr from deinococcus radiodurans has been overexpressed in escherichia coli and crystallized at 297 k using polyethylene glycol 1000 as a precipitant. x-ray diffraction data to 2.90 a resolution have been collected at 100 k using cu kalpha x-rays from a mercury-soaked crystal. the crystal belongs to space group c222(1), with unit-cell parameters a = 106.96, b = 122.25, c = ... | 2004 | 14747732 |
| asymmetrically acting lycopene beta-cyclases (crtlm) from non-photosynthetic bacteria. | carotenoids have important functions in photosynthesis, nutrition, and protection against oxidative damage. some natural carotenoids are asymmetrical molecules that are difficult to produce chemically. biological production of carotenoids using specific enzymes is a potential alternative to extraction from natural sources. here we report the isolation of lycopene beta-cyclases that selectively cyclize only one end of lycopene or neurosporene. the crtlm genes encoding the asymmetrically acting ly ... | 2004 | 14740205 |
| the single-stranded dna-binding protein of deinococcus radiodurans. | deinococcus radiodurans r1 is one of the most radiation-resistant organisms known and is able to repair an unusually large amount of dna damage without induced mutation. single-stranded dna-binding (ssb) protein is an essential protein in all organisms and is involved in dna replication, recombination and repair. the published genomic sequence from deinococcus radiodurans includes a putative single-stranded dna-binding protein gene (ssb; dr0100) requiring a translational frameshift for synthesis ... | 2004 | 14718065 |
| [thermostability of alkaline phosphatase of meithermus ruber bacteria: cloning of the gene, expression in escherichia coli cells and biochemical characterization of the recombinant protein]. | the meiothermus ruber alkaline phosphatase gene was cloned, expressed in escherichia coli cells, and sequenced. the enzyme precursor, including the putative signal peptide, was shown to consist of 503 residues (deduced molecular mass 54,229 da). the recombinant enzyme showed the maximal activity at 60-65 degrees c and ph 11.0 and had k(m) = 0.055 mm as estimated with p-nitrophenyl phosphate (pnpp). the enzyme proved to be moderately thermostable, retaining 50% activity after 6 h incubation at 60 ... | 2003 | 14714494 |
| multiple uracil-dna glycosylase activities in deinococcus radiodurans. | the extremely radiation resistant bacterium, deinococcus radiodurans, contains a spectrum of genes that encode for multiple activities that repair dna damage. we have cloned and expressed the product of three predicted uracil-dna glycosylases to determine their biochemical function. dr0689 is a homologue of the escherichia coli uracil-dna glycosylase, the product of the ung gene; this activity is able to remove uracil from a u : g and u : a base pair in double-stranded dna and uracil from single ... | 2004 | 14706350 |
| ultrasensitive proteomics using high-efficiency on-line micro-spe-nanolc-nanoesi ms and ms/ms. | ultrasensitive nanoscale proteomics approaches for characterizing proteins from complex proteomic samples of <50 ng of total mass are described. protein identifications from 0.5 pg of whole proteome extracts were enabled by ultrahigh sensitivity (<75 zmol for individual proteins) achieved using high-efficiency (peak capacities of approximately 10(3)) 15-microm-i.d. capillary liquid chromatography separations (i.e., using nanolc, approximately 20 nl/min mobile-phase flow rate at the optimal linea ... | 2004 | 14697044 |
| gelbank: a database of annotated two-dimensional gel electrophoresis patterns of biological systems with completed genomes. | gelbank is a publicly available database of two-dimensional gel electrophoresis (2de) gel patterns of proteomes from organisms with known genome information (available at http://gelbank.anl.gov and ftp://bioinformatics.anl.gov/gelbank/). currently it includes 131 completed, mostly microbial proteomes available from the national center for biotechnology information. a web interface allows the upload of 2d gel patterns and their annotation for registered users. the images are organized by species, ... | 2004 | 14681486 |
| the ro autoantigen binds misfolded u2 small nuclear rnas and assists mammalian cell survival after uv irradiation. | the ro 60 kda autoantigen, an rna binding protein, is a major target of the immune response in patients with systemic lupus erythematosus. as mice lacking ro develop a lupus-like syndrome, ro may be important for preventing autoimmunity. however, the cellular function of ro, which binds small cytoplasmic rnas of unknown function called y rnas, has been enigmatic. ro has been proposed to function in 5s rrna quality control based on experiments in xenopus laevis oocytes, and a ro ortholog enhances ... | 2003 | 14680639 |
| cysteinyl-trna(cys) formation in methanocaldococcus jannaschii: the mechanism is still unknown. | most organisms form cys-trna(cys), an essential component for protein synthesis, through the action of cysteinyl-trna synthetase (cysrs). however, the genomes of methanocaldococcus jannaschii, methanothermobacter thermautotrophicus, and methanopyrus kandleri do not contain a recognizable cyss gene encoding cysrs. it was reported that m. jannaschii prolyl-trna synthetase (c. stathopoulos, t. li, r. longman, u. c. vothknecht, h. d. becker, m. ibba, and d. söll, science 287:479-482, 2000; r. s. lip ... | 2004 | 14679218 |
| characterization and distribution of is8301 in the radioresistant bacterium deinococcus radiodurans. | the insertion sequence element is8301 isolated from the radiation resistant bacterium deinococcus radiodurans strain kd8301 was characterized. is8301 is comprised of 1,736-bp, lacks terminal inverted repeats and does not duplicate target dna upon its insertion. the amino acid sequence homology of two open reading frames encoded in is8301 indicates that this insertion sequence element belongs to the is200/is605 group. there were seven loci completely identical with the is8301 sequence in the publ ... | 2003 | 14676423 |
| analysis of thermal adaptation in the hsl enzyme family. | the recently solved three-dimensional (3d) structures of two thermostable members of the carboxylesterase/lipase hsl family, namely the alicyclobacillus (formerly bacillus) acidocaldarius and archaeoglobus fulgidus carboxylesterases (est2 and afest, respectively) were compared with that of the mesophilic homologous counterpart brefeldine a esterase from bacillus subtilis. since the 3d homology models of other members of the hsl family were also available, we performed a structural alignment with ... | 2004 | 14659763 |
| nanoscale proteomics. | efforts to develop a liquid chromatography (lc)/mass spectrometry (ms) technology for ultra-sensitive proteomics studies (i.e., nanoscale proteomics) are described. the approach combines high-efficiency nanoscale lc (separation peak capacity of approximately 10(3); 15-microm-i.d. packed capillaries with flow rates of 20 nl min(-1), the optimal separation linear velocity) with advanced ms, including high-sensitivity and high-resolution fourier transform ion cyclotron resonance ms, to perform both ... | 2004 | 14647945 |
| expression of deinococcus radiodurans ppri enhances the radioresistance of escherichia coli. | ppri, a newly identified gene switch responsible for extreme radioresistance of deinococcus radiodurans, plays a central regulatory role in multiple dna damage repair and protection pathways in response to radiation stress [biochem. biophy. res. commun. 306 (2003) 354]. to evaluate whether ppri also functions in the radioresistance in other organisms, d. radiodurans ppri protein (deira-ppri) was expressed in escherichia coli. the complemented e. coli strain showed an increase of approximately 1. ... | 2003 | 14642569 |
| pyrroloquinoline-quinone synthesized in escherichia coli by pyrroloquinoline-quinone synthase of deinococcus radiodurans plays a role beyond mineral phosphate solubilization. | deinococcus radiodurans, an extremely radioresistant bacterium, synthesizes coenzyme pyrroloquinoline-quinone (pqq) but exhibits a negative phenotype for mineral phosphate solubilization. gene for the putative pqq synthesizing protein was pcr amplified and cloned from deinococcus, sequenced, and expressed in escherichia coli, under an inducible e. coli promoter. the transgenic e. coli expressed pqq synthase protein of 42kda and complemented the mineral phosphate solubilization phenotype of e. co ... | 2003 | 14637137 |
| sequence and genetic organization of the 19.3-kb erythromycin- and dalfopristin-resistance plasmid plme300 from lactobacillus fermentum rot1. | lactobacillus fermentum rot1 was isolated from a raw milk dairy product. it is resistant to novobiocin, tetracycline, erythromycin and dalfopristin. a chromosomal tetracycline-resistance determinant was identified as tetm. a 19,398-bp plasmid (plme300), present in several erythromycin-resistant strains of lb. fermentum, was isolated from strain rot1 and completely sequenced. based on putative open reading frames, plme300 contains at least four different functional regions. in region i, orf1 show ... | 2003 | 14597008 |
| the structure of d. radiodurans. | 2003 | 14576403 | |
| the trove module: a common element in telomerase, ro and vault ribonucleoproteins. | ribonucleoproteins carry out a variety of important tasks in the cell. in this study we show that a number of these contain a novel module, that we speculate mediates rna-binding. | 2003 | 14563212 |
| mechanism of thermotolerance induction by split-dose hyperthermia in deinococcus radiodurans dna repair deficient mutants. | we examined the phenomenon of thermotolerance induction in the radioresistant prokaryote, deinococcus radiodurans, which was initially exposed to 30 min at 52 degrees c followed by various intervals up to 6 h at 30 degrees c in tgy medium and then re-exposed to 52 degrees c for various periods, i.e., split-dose hyperthermia. this thermotolerance induction was analyzed in dna repair deficient mutants (strain 302, 251, uvs25, rec30 and kh840) and the wild-type strain mr1. the strain uvs25 is a dou ... | 2003 | 14533003 |
| a dna pairing-enhanced conformation of bacterial reca proteins. | the reca proteins of escherichia coli (ec) and deinococcus radiodurans (dr) both promote a dna strand exchange reaction involving two duplex dnas. the four-strand exchange reaction promoted by the drreca protein is similar to that promoted by ecreca, except that key parts of the reaction are inhibited by ec single-stranded dna-binding protein (ssb). in the absence of ssb, the initiation of strand exchange is greatly enhanced by dsdna-ssdna junctions at the ends of dna gaps. this same trend is se ... | 2003 | 14530291 |
| [specificity of bacterial response to variation of isotopic composition of water]. | culture growth of bacteria with different membrane lipid composition was studied in liquid media with different isotope content of water. the concentration of deuterium in water was varied from 0.01 to 90%. it was shown that large concentrations of deuterium cause the inhibition of all cultures except deinococcus radiodurans, the most stable living cell. two cultures, methylobacterium organophilum and hyphomonas jannaschiana, showed a pronounced activation at a deuterium concentration of 0.01%. ... | 2003 | 14515487 |
| unlocking radiation resistance mechanisms: still a long way to go. | 2003 | 13678857 | |
| proteome analyses using accurate mass and elution time peptide tags with capillary lc time-of-flight mass spectrometry. | we describe the application of capillary liquid chromatography (lc) time-of-flight (tof) mass spectrometric instrumentation for the rapid characterization of microbial proteomes. previously (lipton et al., proc. natl. acad. sci. u.s.a. 2002, 99, 11049) the peptides from a series of growth conditions of deinococcus radiodurans have been characterized using capillary lc ms/ms and accurate mass measurements which are captured as an accurate mass and time (amt) tag database. using this amt tag datab ... | 2003 | 12954166 |
| deinoccocus radiodurans: getting a better fix on dna repair. | 2003 | 12953078 | |
| evolution of mosaic operons by horizontal gene transfer and gene displacement in situ. | shuffling and disruption of operons and horizontal gene transfer are major contributions to the new, dynamic view of prokaryotic evolution. under the 'selfish operon' hypothesis, operons are viewed as mobile genetic entities that are constantly disseminated via horizontal gene transfer, although their retention could be favored by the advantage of coregulation of functionally linked genes. here we apply comparative genomics and phylogenetic analysis to examine horizontal transfer of entire opero ... | 2003 | 12952534 |
| using dna microarray data to understand the ionizing radiation resistance of deinococcus radiodurans. | in a recent paper, liu et al. documented the changes in gene expression as stationary phase deinococcus radiodurans cultures recover from acute exposure to gamma radiation. given that the biochemical details of the response of d. radiodurans to ionizing radiation are poorly understood, this work represents an important first step towards achieving an understanding of the ionizing radiation resistance in this species. | 2003 | 12948669 |
| [identification of the horizontal gene transfer based on phylogenetic data]. | we suggest a new procedure to search for the genes with horizontal transfer events in their evolutionary history. the search is based on analysis of topology difference between the phylogenetic trees of gene (protein) groups and the corresponding phylogenetic species trees. numeric values are introduced to measure the discrepancy between the trees. this approach was applied to analyze 40 prokaryotic genomes classified into 132 classes of orthologs. this resulted in a list of the candidate genes ... | 2003 | 12942641 |
| cloning of an alkaline phosphatase gene from the moderately thermophilic bacterium meiothermus ruber and characterization of the recombinant enzyme. | a gene that codes for an alkaline phosphatase was cloned from the thermophilic bacterium meiothermus ruber, and its nucleotide sequence was determined. the deduced amino acid sequence indicates that the enzyme precursor including the putative signal sequence is composed of 503 amino acid residues and has an estimated molecular mass of 54,229 da. comparison of the peptide sequence with that of the prototype alkaline phosphatase from escherichia coli revealed conservation of the regions in the vic ... | 2003 | 12928867 |
| complete resonance assignments for the nudix hydrolase dr2356 of deinococcus radiodurans. | 2003 | 12913415 | |
| engineering deinococcus geothermalis for bioremediation of high-temperature radioactive waste environments. | deinococcus geothermalis is an extremely radiation-resistant thermophilic bacterium closely related to the mesophile deinococcus radiodurans, which is being engineered for in situ bioremediation of radioactive wastes. we report that d. geothermalis is transformable with plasmids designed for d. radiodurans and have generated a hg(ii)-resistant d. geothermalis strain capable of reducing hg(ii) at elevated temperatures and in the presence of 50 gy/h. additionally, d. geothermalis is capable of red ... | 2003 | 12902245 |
| vulcanithermus mediatlanticus gen. nov., sp. nov., a novel member of the family thermaceae from a deep-sea hot vent. | a novel thermophilic, microaerophilic, facultatively chemolithoheterotrophic bacterium designated strain tr(t) was isolated from a sample of a deep-sea hydrothermal chimney collected at the rainbow vent field on the mid-atlantic ridge (36 degrees 14'n). gram-negative, non-spore-forming, non-motile rods occurred singly or in pairs. the organism grew in the temperature range 37-80 degrees c with an optimum at 70 degrees c and at ph 5.5-8.4 with an optimum around 6.7. the nacl range for growth was ... | 2003 | 12892142 |
| deinococcus radiodurans. | deinococcus radiodurans (deira) is a remarkable organism. its properties of extreme resistance to environmental damage and ionising radiation command the attention of the cancer research community for the insights which it may bring to the understanding of cytotoxic and radiotherapy treatment resistance. | 2003 | 12875865 |
| improved peptide sequencing using isotope information inherent in tandem mass spectra. | we demonstrate here the use of natural isotopic 'labels' in peptides to aid in the identification of peptides with a de novo algorithm. using data from ion trap tandem mass spectrometric (ms/ms) analysis of 102 tryptic peptides, we have analyzed multiple series of peaks within lcq ms/ms spectra that 'spell' peptide sequences. isotopic peaks from naturally abundant isotopes are particularly prominent even after peak centroiding on y- and b-series ions and lead to increased confidence in the ident ... | 2003 | 12872285 |
| microbial diversity of cryptoendolithic communities from the mcmurdo dry valleys, antarctica. | in the mcmurdo dry valleys of antarctica, microorganisms colonize the pore spaces of exposed rocks and are thereby protected from the desiccating environmental conditions on the surface. these cryptoendolithic communities have received attention in microscopy and culture-based studies but have not been examined by molecular approaches. we surveyed the microbial biodiversity of selected cryptoendolithic communities by analyzing clone libraries of rrna genes amplified from environmental dna. over ... | 2003 | 12839754 |
| structural insight into the antibiotic action of telithromycin against resistant mutants. | the crystal structure of the ketolide telithromycin bound to the deinococcus radiodurans large ribosomal subunit shows that telithromycin blocks the ribosomal exit tunnel and interacts with domains ii and v of the 23s rna. comparisons to other clinically relevant macrolides provided structural insights into its enhanced activity against macrolide-resistant strains. | 2003 | 12837804 |
| structure of a coenzyme a pyrophosphatase from deinococcus radiodurans: a member of the nudix family. | gene dr1184 from deinococcus radiodurans codes for a nudix enzyme (dr-coase) that hydrolyzes the pyrophosphate moiety of coenzyme a (coa). nudix enzymes with the same specificity have been found in yeast, humans, and mice. the three-dimensional structure of dr-coase, the first of a nudix hydrolase with this specificity, reveals that this enzyme contains, in addition to the fold observed in other nudix enzymes, insertions that are characteristic of a coa-hydrolyzing nudix subfamily. the structure ... | 2003 | 12837785 |
| ppri: a general switch responsible for extreme radioresistance of deinococcus radiodurans. | deinococcus radiodurans exhibits an extraordinary ability to withstand the lethal and mutagenic effects of dna damaging agents, particularly, ionizing radiation. available evidence indicates that efficient repair of dna damage and protection of the chromosomal structure are mainly responsible for the radioresistance. little is known about the biochemical basis for this phenomenon. we have identified a unique gene, ppri, as a general switch for downstream dna repair and protection pathways, from ... | 2003 | 12804570 |
| genomic dna of nostoc commune (cyanobacteria) becomes covalently modified during long-term (decades) desiccation but is protected from oxidative damage and degradation. | genomic dna of nostoc commune (cyanobacteria) became covalently modified during decades of desiccation. amplification of gene loci from desiccated cells required pretreatment of dna with n-phenacylthiazolium bromide, a reagent that cleaves dna- and protein-linked advanced glycosylation end-products. dna from 13 year desiccated cells did not show any higher levels of the commonly studied oxidatively modified dna damage biomarkers 8-hydroxyguanine, 8-hydroxyadenine and 5-hydroxyuracil, compared to ... | 2003 | 12799425 |
| impact of low-temperature plasmas on deinococcus radiodurans and biomolecules. | the effects of cold plasma on deinococcus radiodurans, plasmid dna, and model proteins were assessed using microbiological, spectrometric, and biochemical techniques. in low power o(2) plasma (approximately 25 w, approximately 45 mtorr, 90 min), d. radiodurans, a radiation-resistant bacterium, showed a 99.999% reduction in bioburden. in higher power o(2) plasma (100 w and 500 mtorr), the reduction rate increased about 10-fold and observation by atomic force microscopy showed significant damage t ... | 2003 | 12790638 |
| a lupus-like syndrome develops in mice lacking the ro 60-kda protein, a major lupus autoantigen. | antibodies against a conserved rna-binding protein, the ro 60-kda autoantigen, occur in 24-60% of all patients with systemic lupus erythematosus. anti-ro antibodies are correlated with photosensitivity and cutaneous lesions in these patients and with neonatal lupus, a syndrome in which mothers with anti-ro antibodies give birth to children with complete congenital heart block and photosensitive skin lesions. in higher eukaryotes, the ro protein binds small rnas of unknown function known as y rna ... | 2003 | 12788971 |
| production of superoxide dismutase by deinococcus radiophilus. | the production of superoxide dismutase (sod) varied in deinococcus radiophilus, the uv resistant bacterium, depending upon different phases of growth, uv irradiation, and superoxide treatment. a gradual increase in total sod activity occurred up to the stationary phases. the electrophoretic resolution of the sod in cell extracts of d. radiophilus at each growth phase revealed the occurrence of mnsod throughout the growth phases. the sod profiles of d. radiophilus at the exponential phase receive ... | 2003 | 12787483 |
| the dna excision repair system of the highly radioresistant bacterium deinococcus radiodurans is facilitated by the pentose phosphate pathway. | deinococcus radiodurans is highly resistant to radiation and mutagenic chemicals. mutants defective in the putative glucose-6-phosphate dehydrogenase gene (zwf-) and the aldolase gene (fda-) were generated by homologous recombination. these mutants were used to test the cells' resistance to agents that cause dimer formation and dna strand breaks. the zwf - mutants were more sensitive to agents that induce dna excision repair, such as uv irradiation and h2o2, but were as resistant to dna strand b ... | 2003 | 12787358 |
| on peptide bond formation, translocation, nascent protein progression and the regulatory properties of ribosomes. derived on 20 october 2002 at the 28th febs meeting in istanbul. | high-resolution crystal structures of large ribosomal subunits from deinococcus radiodurans complexed with trna-mimics indicate that precise substrate positioning, mandatory for efficient protein biosynthesis with no further conformational rearrangements, is governed by remote interactions of the trna helical features. based on the peptidyl transferase center (ptc) architecture, on the placement of trna mimics, and on the existence of a two-fold related region consisting of about 180 nucleotides ... | 2003 | 12787020 |
| nmr structure of the ribosomal protein l23 from thermus thermophilus. | the ribosomal protein l23 is a component of the large ribosomal subunit in which it is located close to the peptide exit tunnel. in this position l23 plays a central role both for protein secretion and folding. we have determined the solution structure of l23 from thermus thermophilus. uncomplexed l23 consists of a well-ordered part, with four anti-parallel beta-strands and three alpha-helices connected as beta-alpha-beta-alpha-beta-beta-alpha, and a large and flexible loop inserted between the ... | 2003 | 12766408 |
| characterization of class 1 integron resistance gene cassettes and the identification of a novel is-like element in acinetobacter baumannii. | based on hybridization studies, 21/32 multi-resistant clinical isolates of acinetobacter baumannii contain class 1 integrons. amplification products were obtained from 20 of the hybridization-positive strains. a single dfra7 cassette was identified in 18 of the isolates and an integron with two cassettes (aadb-aada4) was found in only one strain. amplicons were not obtained from one of the hybridization positive strains. dna sequence analysis of a 6.080-kb fragment, cloned from this strain, iden ... | 2003 | 12726770 |
| cloning of structural gene of deinococcus radiodurans uv-endonuclease beta. | to characterize its enzymic property we cloned and sequenced the gene of deinococcus radiodurans encoding uv-endonuclease beta, an alternative enzyme to uvrabc repairing damaged dna. amino acid substitutions were found in uv-sensitive mutants. the putative amino acid sequence had some similarity with those of eukaryotic uv-endonucleases and with a sequence found in a protein data base of bacillus subtilis. | 2003 | 12723611 |
| affinity labeling of highly hydrophobic integral membrane proteins for proteome-wide analysis. | the ability to identify and quantitate integral membrane proteins is an analytical challenge for mass spectrometry-based proteomics. the use of surfactants to solubilize and facilitate derivatization of these proteins can suppress peptide ionization and interfere with chromatographic separations during microcapillary reversed-phase liquid chromatography-electrospray-tandem mass spectrometry. to circumvent the use of surfactants and increase proteome coverage, an affinity labeling method has been ... | 2003 | 12716129 |
| colored moderately thermophilic bacteria in paper-machine biofilms. | biofilms cause several problems in papermaking. this report describes a microbiological survey of colored biofilms in six paper and board machines, including two case studies of outbreaks of colored slimes in which the causative bacteria were found. a total of 95 pink-, red-, orange- or yellow-pigmented strains were isolated. nearly all (99%) of the strains grew at 52 degrees c, 72% grew at 56 degrees c, but only 30% grew at 28 degrees c, indicating that most of the strains were moderately therm ... | 2003 | 12700951 |
| structural insight into the role of the ribosomal tunnel in cellular regulation. | nascent proteins emerge out of ribosomes through an exit tunnel, which was assumed to be a firmly built passive path. recent biochemical results, however, indicate that the tunnel plays an active role in sequence-specific gating of nascent chains and in responding to cellular signals. consistently, modulation of the tunnel shape, caused by the binding of the semi-synthetic macrolide troleandomycin to the large ribosomal subunit from deinococcus radiodurans, was revealed crystallographically. the ... | 2003 | 12665853 |
| purification, crystallization and preliminary x-ray analysis of two nudix hydrolases from deinococcus radiodurans. | two nudix hydrolases from deinococcus radiodurans have been purified and crystallized. diffraction data have been collected to 1.4 and 1.9 a resolution for dr1025 and dr0079, respectively. dr1025 belongs to space group p4(1)2(1)2/p4(3)2(1)2, with unit-cell parameters a = b = 53.2, c = 122.6 a (unit-cell volume 346 883 a(3), v(m) = 2.5 a(3) da(-1), solvent content 50.2%). dr0079 belongs to space group c222(1), with unit-cell parameters a = 34.1, b = 157.2, c = 126.5 a (unit-cell volume 677 308 a( ... | 2003 | 12657797 |
| 1h, (13)c, and (15)n nmr assignments of the hypothetical nudix protein dr0079 from the extremely radiation-resistant bacterium deinococcus radiodurans. | 2003 | 12652130 | |
| transcriptome dynamics of deinococcus radiodurans recovering from ionizing radiation. | deinococcus radiodurans r1 (deira) is a bacterium best known for its extreme resistance to the lethal effects of ionizing radiation, but the molecular mechanisms underlying this phenotype remain poorly understood. to define the repertoire of deira genes responding to acute irradiation (15 kgy), transcriptome dynamics were examined in cells representing early, middle, and late phases of recovery by using dna microarrays covering approximately 94% of its predicted genes. at least at one time point ... | 2003 | 12651953 |
| enrichment of integral membrane proteins for proteomic analysis using liquid chromatography-tandem mass spectrometry. | an increasing number of proteomic strategies rely on liquid chromatography-tandem mass spectrometry (lc-ms/ms) to detect and identify constituent peptides of enzymatically digested proteins obtained from various organisms and cell types. however, sample preparation methods for isolating membrane proteins typically involve the use of detergents and chaotropes that often interfere with chromatographic separation and/or electrospray ionization. to address this problem, a sample preparation method c ... | 2002 | 12645891 |
| a novel complexity measure for comparative analysis of protein sequences from complete genomes. | analysis of sequence complexities of proteins is an important step in the characterization and classification of new genomes. a new measure has been proposed to compute sequence complexity in protein sequences based on linguistic complexity. the algorithm requires a single parameter, is computationally simple and provides a framework for comparative genomic analysis. protein sequences were classified into groups of high or low complexity based on a quantitative measure termed f(c), which is prop ... | 2003 | 12643768 |
| use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses. | the use of artificial neural networks (anns) is described for predicting the reversed-phase liquid chromatography retention times of peptides enzymatically digested from proteome-wide proteins. to enable the accurate comparison of the numerous lc/ms data sets, a genetic algorithm was developed to normalize the peptide retention data into a range (from 0 to 1), improving the peptide elution time reproducibility to approximately 1%. the network developed in this study was based on amino acid resid ... | 2003 | 12641221 |
| structural basis for the antibiotic activity of ketolides and azalides. | the azalide azithromycin and the ketolide abt-773, which were derived by chemical modifications of erythromycin, exhibit elevated activity against a number of penicillin- and macrolide-resistant pathogenic bacteria. analysis of the crystal structures of the large ribosomal subunit from deinococcus radiodurans complexed with azithromycin or abt-773 indicates that, despite differences in the number and nature of their contacts with the ribosome, both compounds exert their antimicrobial activity by ... | 2003 | 12623020 |
| high mass measurement accuracy determination for proteomics using multivariate regression fitting: application to electrospray ionization time-of-flight mass spectrometry. | important factors that limit the mass measurement accuracy from a mass spectrometer are related to (1) the type of mass analyzer used and (2) the data processing/calibration methods used to obtain mass values from the raw data. here, two data processing methods are presented that correct for systematic deviations when the mass of ions is measured using a time-of-flight (tof) mass spectrometer. the first fitting method is one where m/z values are obtained from fitting peak distributions using dou ... | 2003 | 12585471 |
| citrate synthase from thermus aquaticus: a thermostable bacterial enzyme with a five-membered inter-subunit ionic network. | a bacterial thermostable citrate synthase has been analyzed to investigate the structural basis of its thermostability, and to compare such features with those previously identified in archaeal citrate synthases. the gene encoding the citrate synthase from thermus aquaticus was identified from a gene library by screening with a pcr fragment amplified from genomic dna using a primer based on the determined n-terminal amino acid sequence and a citrate synthase consensus primer. apart from high seq ... | 2003 | 12579375 |
| [the effect of n+ implantation on sod activity of deinococcus radiodurans and induction of mn-sod]. | the induction of mn-sod and effect of n+ of 20 kev implantation on sod activity of d. radiodurans were investigated. the results were as follows: (1) sod activity of d. radiodurans had a little change when implantation dose was less than 8 x 10(14) n+/cm2, and increased gradually from 8 x 10(14) to 60 x 10(14) n+/cm2, and then decreased rapidly; (2) the test of adding h2o2 and chcl3-ch3ch2oh which could inhibit different types of sod showed that most sod activity of d. radiodurans was constitute ... | 1999 | 12555577 |
| structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression. | crystal structures of trna mimics complexed with the large ribosomal subunit of deinococcus radiodurans indicate that remote interactions determine the precise orientation of trna in the peptidyl-transferase center (ptc). the ptc tolerates various orientations of puromycin derivatives and its flexibility allows the conformational rearrangements required for peptide-bond formation. sparsomycin binds to a2602 and alters the ptc conformation. h69, the intersubunit-bridge connecting the ptc and deco ... | 2003 | 12535524 |
| acyl-homoserine lactone acylase from ralstonia strain xj12b represents a novel and potent class of quorum-quenching enzymes. | n-acylhomoserine lactones (ahls) are used as signal molecules by many quorum-sensing proteobacteria. diverse plant and animal pathogens use ahls to regulate infection and virulence functions. these signals are subject to biological inactivation by ahl-lactonases and ahl-acylases. previously, little was known about the molecular details underlying the latter mechanism. an ahl signal-inactivating bacterium, identified as a ralstonia sp., was isolated from a mixed-species biofilm. the signal inacti ... | 2003 | 12535081 |
| ringlike structure of the deinococcus radiodurans genome: a key to radioresistance? | the bacterium deinococcus radiodurans survives ionizing irradiation and other dna-damaging assaults at doses that are lethal to all other organisms. how d. radiodurans accurately reconstructs its genome from hundreds of radiation-generated fragments in the absence of an intact template is unknown. here we show that the d. radiodurans genome assumes an unusual toroidal morphology that may contribute to its radioresistance. we propose that, because of restricted diffusion within the tightly packed ... | 2003 | 12522252 |
| structure of the l1 protuberance in the ribosome. | the l1 protuberance of the 50s ribosomal subunit is implicated in the release/disposal of deacylated trna from the e site. the apparent mobility of this ribosomal region has thus far prevented an accurate determination of its three-dimensional structure within either the 50s subunit or the 70s ribosome. here we report the crystal structure at 2.65 a resolution of ribosomal protein l1 from sulfolobus acidocaldarius in complex with a specific 55-nucleotide fragment of 23s rrna from thermus thermop ... | 2003 | 12514741 |
| distribution of microorganisms in the subsurface of the manus basin hydrothermal vent field in papua new guinea. | the distribution of microorganisms in the subsurfaces of hydrothermal vents was investigated by using subvent rock core samples. microbial cells and atp were detected from cores taken at depths of less than 99.4 and 44.8 m below the seafloor (mbsf), respectively. cores from various depths were incubated anaerobically with a heterotrophic medium. growth at 60 and 90 degrees c was ascribed to a geobacillus sp. in the 448.6- to 99.4-mbsf cores and a deinococcus sp. in the 64.8- to 128.9-mbsf cores, ... | 2003 | 12514053 |
| gene expression profiling using advanced mass spectrometric approaches. | in the era of systems biology, computational and high-throughput experimental biological approaches are increasingly being combined to provide global snapshots of entire genomes and proteomes under tissue- and disease-specific conditions. the aim is to identify proteins changing in concentration and/or post-translational state and/or location, and develop a better molecular level understanding of the operation of biological systems. here we describe an approach for comparative proteomics that bu ... | 2002 | 12489076 |
| primegens: robust and efficient design of gene-specific probes for microarray analysis. | motivation: dna microarray is a powerful high-throughput tool for studying gene function and regulatory networks. due to the problem of potential cross hybridization, using full-length genes for microarray construction is not appropriate in some situations. a bioinformatic tool, primegens, has recently been developed for the automatic design of pcr primers using dna fragments that are specific to individual open reading frames (orfs). results: primegens first carries out a blast search for each ... | 2002 | 12424113 |
| protein splicing of the deinococcus radiodurans strain r1 snf2 intein. | adjacent intein fragments fused to a snf2/rad54 helicase-related protein and snf2/rad54 helicase were reported for deinococcus radiodurans r1, leading to the speculation that a frameshift was required for splicing or that trans splicing occurred. however, a type strain (atcc 13939, rf18410) yielded a single protein that splices by the ala1 protein splicing pathway, with splicing dependent on adjacent residues. | 2002 | 12399510 |
| the irre protein of deinococcus radiodurans r1 is a novel regulator of reca expression. | irs24 is a dna damage-sensitive strain of deinococcus radiodurans strain 302 carrying a mutation in an uncharacterized locus designated irre. five overlapping cosmids capable of restoring ionizing radiation resistance to irs24 were isolated from a genomic library. the ends of each cloned insert were sequenced, and these sequences were used to localize irre to a 970-bp region on chromosome i of d. radiodurans r1. the irre gene corresponds to coding sequence dr0167 in the r1 genome. the irre gene ... | 2002 | 12399492 |
| involvement of two putative alternative sigma factors in stress response of the radioresistant bacterium deinococcus radiodurans. | two genes bearing similarity to alternative sigma factors were identified in the deinococcus radiodurans genome sequence and designated sig1 and sig2. these genes were cloned and inactivated, and both were found to be important for survival during heat and ethanol stress, although the sig1 mutants displayed a more severe phenotype than the sig2 mutants. reporter gene fusions to the groesl and dnakj operons transformed into these mutant backgrounds indicated that sig1 is required for the heat sho ... | 2002 | 12399488 |
| microbial survival of space vacuum and extreme ultraviolet irradiation: strain isolation and analysis during a rocket flight. | we have recovered new isolates from hot springs, in yellowstone national park and the kamchatka peninsula, after gamma-irradiation and exposure to high vacuum (10(-6) pa) of the water and sediment samples. the resistance to desiccation and ionizing radiation of one of the isolates, bacillus sp. strain ps3d, was compared to that of the mesophilic bacterium, deinococcus radiodurans, a species well known for its extraordinary resistance to desiccation and high doses of ionizing radiation. survival ... | 2002 | 12393217 |
| fold-recognition detects an error in the protein data bank. | 2002 | 12376384 | |
| asymmetric directional mutation pressures in bacteria. | when there are no strand-specific biases in mutation and selection rates (that is, in the substitution rates) between the two strands of dna, the average nucleotide composition is theoretically expected to be a = t and g = c within each strand. deviations from these equalities are therefore evidence for an asymmetry in selection and/or mutation between the two strands. by focusing on weakly selected regions that could be oriented with respect to replication in 43 out of 51 completely sequenced b ... | 2002 | 12372146 |
| closely related cc- and a-adding enzymes collaborate to construct and repair the 3'-terminal cca of trna in synechocystis sp. and deinococcus radiodurans. | the 3'-terminal cca sequence of trna is faithfully constructed and repaired by the cca-adding enzyme (atp(ctp):trna nucleotidyltransferase) using ctp and atp as substrates but no nucleic acid template. until recently, all cca-adding enzymes from all three kingdoms appeared to be composed of a single kind of polypeptide with dual specificity for adding both ctp and atp; however, we recently found that in aquifex aeolicus, which lies near the deepest root of the eubacterial 16 s rrna-based phyloge ... | 2002 | 12370185 |
| nudix hydrolases that degrade dinucleoside and diphosphoinositol polyphosphates also have 5-phosphoribosyl 1-pyrophosphate (prpp) pyrophosphatase activity that generates the glycolytic activator ribose 1,5-bisphosphate. | a total of 17 nudix hydrolases were tested for their ability to hydrolyze 5-phosphoribosyl 1-pyrophosphate (prpp). all 11 enzymes that were active toward dinucleoside polyphosphates with 4 or more phosphate groups as substrates were also able to hydrolyze prpp, whereas the 6 that could not and that have coenzyme a, ndp-sugars, or pyridine nucleotides as preferred substrates did not degrade prpp. the products of hydrolysis were ribose 1,5-bisphosphate and p(i). active prpp pyrophosphatases includ ... | 2002 | 12370170 |
| high-resolution structures of large ribosomal subunits from mesophilic eubacteria and halophilic archaea at various functional states. | structural analysis of the recently determined high resolution structures of the small and the large ribosomal subunits from three bacterial sources, assisted by the medium resolution structure of a complex of the entire ribosome with three trnas, led to a quantum jump in our understanding of the process of the translation of the genetic code into proteins. results of these studies highlighted dynamic aspects of protein biosynthesis; illuminated the modes of action of several antibiotics; indica ... | 2002 | 12370012 |
| meiothermus taiwanensis sp. nov., a novel filamentous, thermophilic species isolated in taiwan. | two novel filamentous bacterial isolates, strains wr-30t and wr-220, with an optimum growth temperature of approximately 55-60 degrees c were isolated from wu-rai hot springs in the northern part of taiwan. these isolates were aerobic, thermophilic, non-sporulating, red-pigmented and heterotrophic and formed extremely long, filamentous trichomes from cells of different lengths. phylogenetic analysis of 16s rdna, dna-dna hybridization, morphological and biochemical features and fatty acid composi ... | 2002 | 12361269 |
| bacterial hemoglobins and flavohemoglobins for alleviation of nitrosative stress in escherichia coli. | escherichia coli mg1655 cells expressing novel bacterial hemoglobin and flavohemoglobin genes from a medium-copy-number plasmid were grown in shake flask cultures under nitrosative and oxidative stress. e. coli cells expressing these proteins display enhanced resistance against the no(.) releaser sodium nitroprusside (snp) relative to that of the control strain bearing the parental plasmid. expression of bacterial hemoglobins originating from campylobacter jejuni (chb) and vitreoscilla sp. (vhb) ... | 2002 | 12324328 |
| quantification of reca protein in deinococcus radiodurans reveals involvement of reca, but not lexa, in its regulation. | reca protein is essential for the very high level of resistance of deinococcus radiodurans to dna damage induced by ionizing radiation or other dna-damaging agents. since the mechanism(s) involved in the control of reca expression and the extent of reca induction following dna damage in this species are still unclear, we have performed a genetic analysis of the reca locus and quantified the basal and induced levels of reca protein in wild type, reca, and lexa mutants. we found that the two genes ... | 2002 | 12242496 |
| l22 ribosomal protein and effect of its mutation on ribosome resistance to erythromycin. | the ribosomal protein l22 is a core protein of the large ribosomal subunit interacting with all domains of the 23s rrna. the triplet met82-lys83-arg84 deletion in l22 from escherichia coli renders cells resistant to erythromycin which is known as an inhibitor of the nascent peptide chain elongation. the crystal structure of the thermus thermophilus l22 mutant with equivalent triplet leu82-lys83-arg84 deletion has been determined at 1.8a resolution. the superpositions of the mutant and the wild-t ... | 2002 | 12225755 |
| disruption analysis of dr1420 and/or dr1758 in the extremely radioresistant bacterium deinococcus radiodurans. | the extremely radioresistant bacterium deinococcus radiodurans encodes two genes that are homologous to those involved in bacterial lysine biosynthesis. in lysine biosynthesis, these genes are involved in the aminoadipate pathway and the diaminopimelate (dap) pathway. dr1420 is homologous to lysz, which is essential for bacterial lysine biosynthesis via the aminoadipate pathway, and dr1758 is homologous to lysa, which is essential for lysine biosynthesis via the dap pathway. in this study, dr142 ... | 2002 | 12213936 |
| new technology may reveal mechanisms of radiation resistance in deinococcus radiodurans. | 2002 | 12177454 |