Wyniki wyszukiwania dla: RESIDUE%20ARITHMETIC
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Unraveling the Interplay between DNA and Proteins: A Computational Exploration of Sequence and Structure-Specific Recognition Mechanisms
PublikacjaMy PhD dissertation focused on DNA-protein interactions and the recognition of specific DNA sequences and structures. I discovered that acidic amino acid residues (Asp/Glu) play a crucial role by exhibiting a preference for cytosine. Their contribution to binding affinity depends on nearby cytosines, balancing electrostatic repulsion with specific interactions. Acidic residues act as negative selectors, discouraging non-cytosine...
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Impact of Energy Slope Averaging Methods on Numerical Solution of 1D Steady Gradually Varied Flow
PublikacjaIn this paper, energy slope averaging in the one-dimensional steady gradually varied flow model is considered. For this purpose, different methods of averaging the energy slope between cross-sections are used. The most popular are arithmetic, geometric, harmonic and hydraulic means. However, from the formal viewpoint, the application of different averaging formulas results in different numerical integration formulas. This study...
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A study on the protection of methionine and the reduction of methionine sulfoxide in methionine-containing analogues of the growth-modeling factor Gly-His-Lys
PublikacjaThe protection of methionine and the reduction of methionine sulfoxide in methionine-containing analogues of Gly-His-Lys are described. The peptides were synthesized by a solid-phase method using the standard Fmoc procedure. Simultaneous deprotection of the peptide side chain and liberation from the resin were achieved using an appropriate TFA cocktail. The TFA cocktail was selected to minimize oxidation of the methionine residue....
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Structural features responsible for control of the eukaryotic GlcN-6-P synthase activity
PublikacjaGlucosamine-6-phosphate (GlcN-6-P) synthase is responsible for catalysis of the first and practically irreversible step in hexosamine metabolism. As UDP-GlcNAc, the final product of the hexosamine path, constitutes one of the essential substrates for assembly of bacterial and fungal cell walls, the enzyme is an interesting target for antimicrobial therapy.The structure of E. coli enzyme, known since 2001, forms a dimer of two identical...
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Convergence to equilibrium under a random Hamiltonian
PublikacjaWe analyze equilibration times of subsystems of a larger system under a random total Hamiltonian, in which the basis of the Hamiltonian is drawn from the Haar measure. We obtain that the time of equilibration is of the order of the inverse of the arithmetic average of the Bohr frequencies. To compute the average over a random basis, we compute the inverse of a matrix of overlaps of operators which permute four systems. We first...
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Molecular basis of the osmolyte effect on protein stability: a lesson from the mechanical unfolding of lysozyme
PublikacjaOsmolytes are a class of small organic molecules that shift the protein folding equilibrium. For this reason, they are accumulated by organisms under environmental stress, and find applications in biotechnology where proteins need to be stabilized or dissolved. However, despite years of research, debate continues over the exact mechanisms underpinning the stabilizing and denaturing effect of osmolytes. Here, we simulated the mechanical...
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Functionalized azobenzocrown ethers as sensor materials—The synthesis and ion binding properties
PublikacjaNew 13- and 16-membered azobenzocrown ethers with aromatic amino, amide, ether–ester or ether–amide residue in para position to an azo moiety were obtained. Acid–base properties and ion binding ability of the colored compounds were studied by spectroscopic methods: UV–vis, fluorimetry and 1H NMR spectroscopy. Selected azobenzocrowns were tested as ionophores in ion-selective membrane electrodes (ISEs) – classic and miniature all...
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Ionic liquids in extraction techniques: Determination of pesticides in food and environmental samples
PublikacjaThe intensive use of pesticides in agricultural practices has promoted the appearance of environmentaland public health problems. Due to that, scientists face challenges with developing simple, fast, sensitive,selective, and low-cost methods dedicated to determining pesticide residues in food and environmentalsamples. Following thefifth principle of Green Analytical Chemistry, chemists are searching for greeneralternatives for...
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Sprzętowa implementacja transformacji Hougha w czasie rzeczywistym
PublikacjaW artykule przedstawiono implementację sprzętową w FPGA algorytmu do wykrywania kształtów aproksymowanych zbiorem linii prostych podczas przetwarzania obrazu cyfrowego w czasie rzeczywistym. W opracowanej strukturze sprzętowej podniesiono efektywność przetwarzania poprzez zastosowanie przetwarzania przepływowego, lookup table, wykorzystanie wyłącznie arytmetyki liczb całkowitych oraz rozproszenie pamięci głosowania. Eksperymentalnie...
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Microwave assisted liquefaction with crude glycerol as a potential method of brewer's spent grain utylization
PublikacjaBrewer's spent grain was applied as a low-cost industrial type of lignocellulose biomass in a liquefaction and solvent: biomass ratio on the efficiency of the process, chemical structure and basic properties of obtained prepared polyols and soil residues shed light on the biomass degradation mechanism through application of microwaves and further reaction of degradation products with solvent particles.
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The speciation of selected heavy metals in sewage sludge stabilized in reed basins
PublikacjaThe aim of the work was to determine influence of time on organic matter content, nutrients concentrations as well as speciation of selected heavy metals (Cd, Pb, Ni, Cr, Cu and Zn) in sewage sludge stabilized in reed basins during 7-15 years. The analyzed sewage sludge was collected from reed basins from four municipal WWTPs located in Denmark serving from 9 000 to 40 000 pe in Vallo, Rudkøbing, Nakskov and Helsinge. Sewage...
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Design of new cholinesterase inhibitors based on phosphorus analogs of tacrine as potential anti-Alzheimer’s disease agents
PublikacjaBased on the analysis of the determined free binding energy (using the AutoDock Vina 1.1.2 docking program), the most potent cholinesterase inhibitors were selected. Moreover, studies of 3D visualization of the results of molecular modeling led to the identification of potential sites for the interaction of new potential inhibitors with amino acid residues building active sites of investigated cholinesterases.
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A quaternion-based modified feistel cipher for multimedia transmission
PublikacjaIn this paper a quaternion-based modified Feistel Cipher is proposed. The algorithm is based on the scheme proposed by Sastry and Kumar (2012). Our algorithm uses special properties of quaternions to perform rotations of data sequences in 3D space for each of the cipher rounds. The plaintext (image in gray-tone) is divided into two square matrices of equal size which consist of Lipschitz quaternions. A modular arithmetic was implemented...
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A New Expression for the 3-D Dyadic FDTD-Compatible Green's Function Based on Multidimensional Z-Transform
PublikacjaIn this letter, a new analytic expression for the time-domain discrete Green's function (DGF) is derived for the 3-D finite-difference time-domain (FDTD) grid. The derivation employs the multidimensional Z-transform and the impulse response of the discretized scalar wave equation (i.e., scalar DGF). The derived DGF expression involves elementary functions only and requires the implementation of a single function in the multiple-precision...
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Conserved motifs of MutL proteins
PublikacjatThe MutL protein is best known for its function in DNA mismatch repair (MMR). However, there isevidence to suggest that MutL is not only the linker connecting the functions of MutS and MutH in MMR,but that it also participates in other repair systems, such as Very Short Patch (VSP), Base Excision (BER)and Nucleotide Excision Repair (NER). This study set out to identify the most highly conserved aminoacid sequence motifs in MutL...
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Influence of friction stir welding technological parameters on the properties of the joints of selected aluminum alloys
PublikacjaThe purpose of this dissertation was to determine the effect of friction stir welding technological parameters on the properties of selected aluminum alloy joints, with consideration of the residual stresses and dislocation density in the joints. The goal of the present work was also to produce defect-free joints with high mechanical and electrochemical properties. In the dissertation, similar welds of AA6082 alloy and dissimilar...
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Simple colorimetric copper(II) sensor – spectral characterization and possible applications
PublikacjaNew o-hydroxyazocompound L bearing pyrrole residue was obtained in the simple synthetic protocol. The structure of L was confirmed and analyzed by X-ray diffraction. It was found that new chemosensor can be successfully used as copper(II) selective spectrophotometric regent in solution and can be also applied for the preparation of sensing materials generating selective color signal upon interaction with copper(II). Selective colorimetric...
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An Attempt to Create Speech Synthesis Model That Retains Lombard Effect Characteristics
PublikacjaThe speech with the Lombard effect has been extensively studied in the context of speech recognition or speech enhancement. However, few studies have investigated the Lombard effect in the context of speech synthesis. The aim of this paper is to create a mathematical model that allows for retaining the Lombard effect. These models could be used as a basis of a formant speech synthesizer. The proposed models are based on dividing...
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A review of phosphorus recovery methods at various steps of wastewater treatment and sewage sludge management. The concept of “no solid waste generation” and analytical methods
PublikacjaPhosphorus deposits around the world are rapidly depleting, therefore phosphorus recovery methods are gaining more and more interest both in science and industry. This article presents the main methods of phosphorus recovery from sewage sludge. The described approaches are divided in two groups: phosphorus recovery from sewage sludge and leachate, and recovery of phosphorus from sewage sludge ashes. The latter seems to have more...
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FPGA computation of magnitude of complex numbers using modified CORDIC algorithm
PublikacjaIn this work we present computation of the magnitude of complex numbers using a modified version of the CORDIC algorithm that uses only five iterations. The relationship between the computation error and the number of CORDIC iterations are presented for floating-point and integer arithmetics. The proposed modification of CORDIC for integer arithmetic relies upon the introduction of correction once basic computations are performed...
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Weak Stability of Centred Quadratic Stochastic Operators
PublikacjaWe consider the weak convergence of iterates of so-called centred quadratic stochastic operators. These iterations allow us to study the discrete time evolution of probability distributions of vector-valued traits in populations of inbreeding or hermaphroditic species, whenever the offspring’s trait is equal to an additively perturbed arithmetic mean of the parents’ traits. It is shown that for the existence of a weak limit, it...
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Carlos Dimeo dr hab
OsobyProf. Carlos Dimeo is a scholar whose principal research and teaching interests lie in contemporary Latin American Theatre and European Theatre. Mainly is interested in performance, which he studies from the research methodologies of Cultural Studies and Performances Studies. Dimeo develops a transdisciplinary research space that includes theatre, literature, writing and directing theatre, which combines beside other very diverse...
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Expert opinion on the effectiveness of protection against electric shock in case of fault in an installation for electric vehicles charging
PublikacjaThe opinion concerns the use of residual current devices for protection against electric shock by automatic disconnection of supply in a Norwegian installation intended for charging of electric vehicles.
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Sensitivity analysis of critical loads of I-columns
PublikacjaThe first order variation of critical buckling load of thin-walled columns with bisymmetric open cross-section due to some variations of the design variables such as: cross-section dimensions, or material characteristics is derived. The influence of the residual welding stresses is taken into account. In the numerical examples dealing with I-column the functions describing the effect of the variation of the dimensions of the flange...
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Structural, functional, and stability change predictions in human telomerase upon specific point mutations,
PublikacjaOverexpression of telomerase is one of the hallmarks of human cancer. Telomerase is important for maintaining the integrity of the ends of chromosomes, which are called telomeres. A growing number of human disease syndromes are associated with organ failure caused by mutations in telomerase (hTERT or hTR). Mutations in telomerase lead to telomere shortening by decreasing the stability of the telomerase complex, reducing its accumulation,...
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Electric shock hazard in circuits with variable-speed drives
PublikacjaThe conventional approach to electrical safety under fault condition in typical power systems considers earth fault currents of sinusoidal waveform and frequency of 50/60 Hz. However, in circuits with variable-speed drives, there is earth fault current flow with harmonics, and these harmonics influence the threshold of ventricular fibrillation. The paper presents earth fault current waveforms in circuits with variable-speed drives...
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Laser Beam as a Precision Tool to Increase Fatigue Resistance in an Eyelet of Undercarriage Drag Strut
PublikacjaThe article contains the results of tests on a laser-processed eyelet of undercarriage drag strut to increase its fatigue strength. Laser processing concentrated on both sides around the hole of eye for connecting the undercarriage drag strut caused that the material in this area withstood more than twice the number of load cycles established for this material. In order to determine the reasons for the increase in fatigue strength,...
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Quaternion encryption methods for multimedia transmission, a survey of existing approaches
PublikacjaIn this paper we review quaternion encryption methods for multimedia transmission. We explain their weak and strong properties as well as suggest possible modifications. Our main focus is an algorithm QFC presented in paper by Dzwonkowski et al. (2015). All encryption methods, presented in this paper, use special properties of quaternions to perform rotations of data sequences in 3D space. Each method uses a common key generation...
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Determination of the effective concentration of oxyteracycline solutions on the inhibition of bioluminescence of Vibrio fischeri (Microtox)
Dane BadawczeIn this study an attempt was made to determine the effective concentration for oxytetracycline solutions on the inhibition of bioluminescence of Vibrio fischeri (Microtox).
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Azo and azoxythiacrown ethers: synthesis and properties
PublikacjaA series of 16- and 18-membered azo- and azoxythiacrown ethers have been synthesized by reductive macrocyclization of the respective bis(nitrophenoxy)oxaalkanes. The aromatic residues located in the polyether region of the molecule were introduced to macrocyclic skeletons and their affinities toward different groups of metal cations in ion-selective electrodes were described. X-ray structures for one dinitropodand and one azoxybenzothiacrown...
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Probe signal processing for channel estimation in underwater acoustic communication system
PublikacjaUnderwater acoustic communication channels are characterized by a large variety of propagation conditions. Designing a reliable communication system requires knowledge of the transmission parameters of the channel, namely multipath delay spread, Doppler spread, coherence time, and coherence bandwidth. However, the possibilities of its estimation in a realtime underwater communication system are limited, mainly due to the computational...
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Simulation of the remanence influence on the transient states in a single-phase multiwinding transformer
PublikacjaThis paper presents the mathematical model of a single-phase multi-winding core type transformer taking into account magnetic hysteresis phenomenon based on the feedback Preisach model (FPM). The set of loop differential equations was developed for a K-th winding transformer model where the flux linkages of each winding includes flux Φ common to all windings as a function of magneto motive force Θ of all windings. The first purpose...
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Determination of pharmaceuticals in fish: method optimization and occurrence in different species from Mediterranean rivers
PublikacjaThe multi-residue analytical method developed, based on accelerated solvent extraction, gel permeation chromatography purification and UPLC-MS/MS analysis allowed the simultaneous determination of 21 pharmaceuticals. Recoveries obtained for most of the target compounds were higher than 50%. The application of UPLC-MS/MS operating in the MRM mode, with two transitions monitored for each compound, provided good sensitivity and selectivity....
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1,3,4-Thiadiazole-based diamides: Synthesis and complexation properties
PublikacjaAromatic diamides, derivative of 2,6-pyridinedicarboxylic acid and isophthalic acid, bearing 1,3,4-thiadiazole residue were prepared with satisfactory yields in conventional procedures and microwave stimulated reactions. X-ray structure of N,N-bis (1,3,4-thiadiazol-2-yl)-2,6-pyridinedicarboxamide (2) DMSO solvate (2DMSO) was described. Selective zinc(II), lanthanum(III), terbium(III) and L-tyrosine recognition was found for N,N-bis(1,3,4-thiadiazol-2-yl)-2,6-pyridinedicarboxamide...
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Binuclear Co(II), Zn(II) and Cd(II) tri-tert-butoxysilanethiolates. Synthesis, crystal structure and spectroscopic studies.
PublikacjaA series of Co(II), Zn(II) and Cd(II) complexes have been synthesized in reaction of respective metal tri-tert-butoxysilanethiolates with pyrazine 1 and 2 and 1,2-bis(2-pyridyl)ethylene 3–5. All compounds have been characterized by single-crystal X-ray structure determination, elemental analysis, FT-IR and thermogravimetry. Obtained complexes are bimetallic with the formula of [M{SSi(OtBu)3}2(μ-L)]2 and metal ions bridged by N,N′-spacer....
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Vascular stents - materials and manufacturing technologies
PublikacjaThe objective of this article is to present materials and technology for the manufacture of vascular stents with appropriate design requirements. The use of the right material is very important in implantology. A biomaterial introduced into the circulatory system must be biocompatible and hemocompatible. At the same time, it should not initiate toxic, mutagenic, or immunological reactions. Currently, 316L stainless steel (316L...
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Novel DNA-binding protein from Nanoarchaeum equitans Kin4-M binds all kinds of nucleic acids
PublikacjaNanoarchaeum equitans is the only known representative of Archaea phylum Nanoarchaeota and stands out as one of the tiniest known living organism. What is more it has smallest genome, which is only 490.885 base pairs long. It is also one of the most compact genomes. According to predictions about 95% of the DNA encodes proteins or stable RNA. Nanoarchaeum equitans lacks genes for most vital metabolic pathways including lipid, cofactor,...
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Fast implementation of FDTD-compatible green's function on multicore processor
PublikacjaIn this letter, numerically efficient implementation of the finite-difference time domain (FDTD)-compatible Green's function on a multicore processor is presented. Recently, closed-form expression of this discrete Green's function (DGF) was derived, which simplifies its application in the FDTD simulations of radiation and scattering problems. Unfortunately, the new DGF expression involves binomial coefficients, whose computations...
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FDTD-Compatible Green's function based on scalar discrete Green's function and multidimensional Z-transform
PublikacjaIn this contribution, a new formulation of the discrete Green's function (DGF) is presented for the finitedifference time-domain (FDTD) grid. Recently, dyadic DGF has been derived from the impulse response of the discretized scalar wave equation (i.e., scalar DGF) with the use of the multidimensional Z-transform. Its software implementation is straightforward because only elementary functions are involved and a single function...
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Roller burnishing
PublikacjaThe paper shows the process of roller burnishing as a method of finishing machine components. Based on own research the author presents the effects of the roller burnishing process to increase the hardness and residual stress as well as the wear and fatigue strength of burnishing components.
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Tuning matrix-vector multiplication on GPU
PublikacjaA matrix times vector multiplication (matvec) is a cornerstone operation in iterative methods of solving large sparse systems of equations such as the conjugate gradients method (cg), the minimal residual method (minres), the generalized residual method (gmres) and exerts an influence on overall performance of those methods. An implementation of matvec is particularly demanding when one executes computations on a GPU (Graphics...
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Generic invariant measures for iterated systems of interval homeomorphisms
PublikacjaIt is well known that iterated function systems generated by orientation preserving homeomorphisms of the unit interval with positive Lyapunov exponents at its ends admit a unique invariant measure on (0, 1) provided their action is minimal. With the additional requirement of continuous differentiability of maps on a fixed neighbourhood of {0,1} { 0 , 1 } , we present a metric in the space of such systems which renders it complete....
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Long range molecular dynamics study of interactions of the eukaryotic glucosamine-6-phosphate synthase with fructose-6-phosphate and UDP-GlcNAc
PublikacjaGlucosamine-6-phosphate synthase (EC 2.6.1.16) is responsible for catalysis of the first and practically irreversible step in hexosamine metabolism. The final product of this pathway, uridine 5 diphospho Nacetyl- d-glucosamine (UDP-GlcNAc), is an essential substrate for assembly of bacterial and fungal cell walls. Moreover, the enzyme is involved in phenomenon of hexosamine induced insulin resistance in type II diabetes, which...
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Mapping the Transglycosylation Relevant Sites of Cold-Adapted β-D-Galactosidase from Arthrobacter sp. 32cB
PublikacjaB-Galactosidase from Arthrobacter sp. 32cB (ArthbetaDG) is a cold-adapted enzyme able to catalyze hydrolysis of beta-D-galactosides and transglycosylation reaction, where galactosyl moiety is being transferred onto an acceptor larger than a water molecule. Mutants of ArthbetaDG D207A and E517Q were designed to determine the significance of specific residues and to enable formation of complexes with lactulose and sucrose and to...
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A new Toxoplasma gondii chimeric antigen containing fragments of SAG2, GRA1, and ROP1 proteins—impact of immunodominant sequences size on its diagnostic usefulness
PublikacjaThis study presents the first evaluation of new Toxoplasma gondii recombinant chimeric antigens containing three immunodominant regions of SAG2, GRA1, and one of two ROP1 fragments differing in length for the serodiagnosis of human toxoplasmosis. The recombinant chimeric antigens SAG2-GRA1-ROP1L (with large fragment of ROP1, 85-396 amino acid residues) and SAG2-GRA1-ROP1S (with a small fragment of ROP1, 85-250 amino acid residues)...
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Structural and dynamic changes adopted by EmrE, multidrug transporter protein—Studies by molecular dynamics simulation
PublikacjaEmrE protein transports positively charged aromatic drugs (xenobiotics) in exchange for two protons and thus provides bacteria resistance to variety of drugs. In order to understand how this protein may recognize ligands, the monomer and asymmetric apo-form of the EmrE dimer embedded in a heterogeneous phospholipid (POPE + POPG) membrane were studied by molecular dynamics simulations. Dimer is regarded as a functional form of the...
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Investigation of long-range dependencies in the stochastic part of daily GPS solutions
PublikacjaThe long-range dependence (LRD) of the stochastic part of GPS-derived topocentric coordinates change (North, East, Up) results with relatively high autocorrelation values with a focus on self-similarity. One of the reasons for such self-similarity in the GPS time series are noises that are commonly recognised to prevail in the form of the flicker noise model. To prove the self-similarity of the stochastic part of GPS time series...
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Influence of laser processing of the low alloy medium carbon structural steel on the development of the fatigue crack
PublikacjaThe paper contains the results of the structural analysis, hardness tests and fatigue tests conducted for the medium carbon structural steel with low content of Cr and Ni after its processing with CO2 laser beam. Pre-cracks were made in the round compact tension (RCT) specimen used for fatigue test. Next, four paths, parallel to each other, were melted on both sides of the samples using a laser beam. The paths were perpendicular...
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The biological role of prolyl oligopeptidase and the procognitive potential of its peptidic inhibitors from food proteins
PublikacjaProlyl oligopeptidase (POP) is a conserved serine protease belonging to proline-specific peptidases. It has both enzymatic and non-enzymatic activity and is involved in numerous biological processes in the human body, playing a role in e.g., cellular growth and differentiation, inflammation, as well as the development of some neurodegenerative and neuropsychiatric disorders. This article describes the physiological and pathological...
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One-step recovery of REE oxalates in electro-leaching of spent NdFeB magnets
PublikacjaRecovery of rare-earth elements (REEs) from spent NdFeB magnets is receiving great attention because of high amount of neodymium and potential risk of environmental pollution. In this study, a novel environment-friendly hydrometallurgical route is proposed for efficient recovery of REEs during electrochemical leaching with sulfuric and oxalic acids. With proper adjustment of the electrolyte composition and operating conditions,...