| paraferrimonas sedimenticola gen. nov., sp. nov., a marine bacterium of the family ferrimonadaceae. | three strains (mok-106(t), mok-142 and mok-143) were isolated from marine sediment samples collected from the coast of okinawa island, japan. on the basis of 16s rrna gene sequence comparisons, the isolates were affiliated with the family ferrimonadaceae; shewanella denitrificans and ferrimonas balearica were the closest relatives, having sequence similarities of 93.7 and 93.0 %, respectively. the novel isolates shared high levels of 16s rrna gene sequence similarity with each other (98.7-99.3 % ... | 2007 | 17625182 |
| shewanella spp. use acetate as an electron donor for denitrification but not ferric iron or fumarate reduction. | lactate but not acetate oxidation was reported to support electron acceptor reduction by shewanella spp. under anoxic conditions. we demonstrate that the denitrifiers shewanella loihica strain pv-4 and shewanella denitrificans os217 utilize acetate as an electron donor for denitrification but not for fumarate or ferric iron reduction. | 2013 | 23396327 |
| shewanella denitrificans sp. nov., a vigorously denitrifying bacterium isolated from the oxic-anoxic interface of the gotland deep in the central baltic sea. | three strains of denitrifying estuarine bacteria, os217(t), 05220 and os226, were characterized for their physiological and biochemical features, fatty acid profiles and their phylogenetic position based on 16s rdna sequences. the strains were isolated from the oxic-anoxic interface of an anoxic basin of the central baltic sea. phylogenetic analyses of the 16s rdna sequences revealed a clear affiliation with members of the genus shewanella of the gamma-proteobacteria. the closest sequence simila ... | 2002 | 12508890 |
| structural adaptation of a thermostable biotin-binding protein in a psychrophilic environment. | shwanavidin is an avidin-like protein from the marine proteobactrium shewanella denitrificans, which exhibits an innate dimeric structure while maintaining high affinity toward biotin. a unique residue (phe-43) from the l3,4 loop and a distinctive disulfide bridge were shown to account for the high affinity toward biotin. phe-43 emulates the function and position of the critical intermonomeric trp that characterizes the tetrameric avidins but is lacking in shwanavidin. the 18 copies of the apo-m ... | 2012 | 22493427 |
| spectroscopic characterization and mechanistic investigation of p-methyl transfer by a radical sam enzyme from the marine bacterium shewanella denitrificans os217. | natural products containing carbon-phosphorus bonds elicit important bioactivity in many organisms. l-phosphinothricin contains the only known naturally-occurring carbon-phosphorus-carbon bond linkage. in actinomycetes, the cobalamin-dependent radical s-adenosyl-l-methionine (sam) methyltransferase phpk catalyzes the formation of the second c-p bond to generate the complete c-p-c linkage in phosphinothricin. here we use electron paramagnetic resonance and nuclear magnetic resonance spectroscopie ... | 2014 | 25224746 |
| role of calcium in secondary structure stabilization during maturation of nitrous oxide reductase. | the copper enzyme nitrous oxide reductase catalyzes the two-electron reduction of nitrous oxide n₂o to dinitrogen n₂. its maturation largely occurs in the periplasm and includes the insertion of at least one ca²⁺ ion per monomer. here we have investigated the role of this structural cation in recombinantly produced apo-n₂or from shewanella denitrificans and have determined the three-dimensional structure of the protein by x-ray crystallography. in the absence of ca²⁺, substantial parts of the en ... | 2016 | 26885878 |
| adenosine monophosphate binding stabilizes the ktn domain of the shewanella denitrificans kef potassium efflux system. | ligand binding is one of the most fundamental properties of proteins. ligand functions fall into three basic types: substrates, regulatory molecules, and cofactors essential to protein stability, reactivity, or enzyme-substrate complex formation. the regulation of potassium ion movement in bacteria is predominantly under the control of regulatory ligands that gate the relevant channels and transporters, which possess subunits or domains that contain rossmann folds (rfs). here we demonstrate that ... | 2017 | 28656748 |
| enzymatic properties, evidence for in vivo expression, and intracellular localization of shewasin d, the pepsin homolog from shewanella denitrificans. | the widespread presence of pepsin-like enzymes in eukaryotes together with their relevance in the control of multiple biological processes is reflected in the large number of studies published so far for this family of enzymes. by contrast, pepsin homologs from bacteria have only recently started to be characterized. the work with recombinant shewasin a from shewanella amazonensis provided the first documentation of this activity in prokaryotes. here we extend our studies to shewasin d, the peps ... | 2016 | 27029611 |
| shewanella aestuarii sp. nov., a marine bacterium isolated from a tidal flat. | a gram-stain-negative, non-spore-forming, facultatively anaerobic bacterium, designated strain sc18(t), was isolated from a tidal flat of suncheon bay in south korea. cells were rod-shaped and motile by means of a polar flagellum. cells were catalase-, oxidase- and β-haemolysis-positive. growth was observed at 4-37 °c (optimum, 25-30 °c), at ph 5.0-9.0 (optimum, ph 7.0) and in the presence of 0-5.0 % (w/v) nacl (optimum, 0-2 %). the major cellular fatty acids were summed feature 3 (comprising c1 ... | 2013 | 23950150 |
| psychrobium conchae gen. nov., sp. nov., a psychrophilic marine bacterium isolated from the iheya north hydrothermal field. | a novel psychrophilic, marine, bacterial strain designated bj-1(t) was isolated from the iheya north hydrothermal field in the okinawa trough off japan. cells were gram-negative, rod-shaped, non-spore-forming, aerobic chemo-organotrophs and motile by means of a single polar flagellum. growth occurred at temperatures below 16 °c, with the optimum between 9 and 12 °c. phylogenetic analysis based on the 16s rrna gene sequence indicated that the closest relatives of strain bj-1(t) were shewanella de ... | 2014 | 25096326 |
| bacterial sugar 3,4-ketoisomerases: structural insight into product stereochemistry. | 3-acetamido-3,6-dideoxy-d-galactose (fuc3nac) and 3-acetamido-3,6-dideoxy-d-glucose (qui3nac) are unusual sugars found on the lipopolysaccharides of gram-negative bacteria and on the s-layers of gram-positive bacteria. the 3,4-ketoisomerases, referred to as fdta and qdta, catalyze the third steps in the respective biosynthetic pathways for these sugars. whereas both enzymes utilize the same substrate, the stereochemistries of their products are different. specifically, the hydroxyl groups at the ... | 2015 | 26125548 |
| comparisons of shewanella strains based on genome annotations, modeling, and experiments. | shewanella is a genus of facultatively anaerobic, gram-negative bacteria that have highly adaptable metabolism which allows them to thrive in diverse environments. this quality makes them an attractive bacterial target for research in bioremediation and microbial fuel cell applications. constraint-based modeling is a useful tool for helping researchers gain insights into the metabolic capabilities of these bacteria. however, shewanella oneidensis mr-1 is the only strain with a genome-scale metab ... | 2014 | 24621294 |
| structural and biochemical characterization of a bifunctional ketoisomerase/n-acetyltransferase from shewanella denitrificans. | unusual n-acetylated sugars have been observed on the o-antigens of some gram-negative bacteria and on the s-layers of both gram-positive and gram-negative bacteria. one such sugar is 3-acetamido-3,6-dideoxy-α-d-galactose or fuc3nac. the pathway for its production requires five enzymes with the first step involving the attachment of dtmp to glucose-1-phosphate. here, we report a structural and biochemical characterization of a bifunctional enzyme from shewanella denitificans thought to be involv ... | 2013 | 24128043 |
| the periplasmic nitrate reductase in shewanella: the resolution, distribution and functional implications of two nap isoforms, napedabc and napdaghb. | in the bacterial periplasm, the reduction of nitrate to nitrite is catalysed by a periplasmic nitrate reductase (nap) system, which is a species-dependent assembly of protein subunits encoded by the nap operon. the reduction of nitrate catalysed by nap takes place in the 90 kda napa subunit, which contains a mo-bis-molybdopterin guanine dinucleotide cofactor and one [4fe-4s] iron-sulfur cluster. a review of the nap operons in the genomes of 19 strains of shewanella shows that most genomes contai ... | 2010 | 19959582 |
| biogenic formation of as-s nanotubes by diverse shewanella strains. | shewanella sp. strain hn-41 was previously shown to produce novel, photoactive, as-s nanotubes via the reduction of as(v) and s(2)o(3)(2-) under anaerobic conditions. to determine if this ability was unique to this bacterium, 10 different shewanella strains, including shewanella sp. strain hn-41, shewanella sp. strain pv-4, shewanella alga bry, shewanella amazonensis sb2b, shewanella denitrificans os217, shewanella oneidensis mr-1, shewanella putrefaciens cn-32, s. putrefaciens ir-1, s. putrefac ... | 2009 | 19717628 |