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Unusual structural properties of water within the hydration shell of hyperactive antifreeze protein
PublikacjaMany hypotheses can be encountered explaining the mechanism of action of antifreeze proteins. One widespread theory postulates that the similarity of structural properties of solvation water of antifreeze proteins to ice is crucial to the antifreeze activity of these agents. In order to investigate this problem, the structural properties of solvation water of the hyperactive antifreeze protein from Choristoneura fumiferana were...
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How water mediates the long-range interactions between remote protein molecules
PublikacjaThe high crowding of macromolecules in the cytoplasm affects the processes that occur inside a living cell. It can, for example, promote the forming of various loosely connected structures of proteins. It also means that bulk water is, essentially, not present there. The relatively thin layer of solvent that separates macromolecules may be able to participate in the long-range interactions between them and make them respond to...
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MUTL PROTEIN AS A COMMON CONSTITUENT OF VSP, BER, NER AND MMR REPAIR SYSTEMS
PublikacjaMutS and MutL proteins are renowned mostly for their functions in well-characterized, post-DNA replication mismatch repair system (MMR). However, there is growing evidence that MMR system is not the only field of action of these proteins. Moreover, involvement in MMR does not even have to be their primary function. There are some reports indicating involvement of MutL in BER, NER and VSP (very short patch repair). MutL protein...
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Experimental Research of an Axial Piston Pump with Displaced Swash Plate Axis of Rotation
PublikacjaThe article describes the influence of displacement of the swash plate rotation axis on the efficiency of axial piston pumps. The dead space volume was defined as the volume of the working chamber in the extreme position of the piston at the end of the pumping phase and its variability was determined as a function of the position of the axis of rotation of the swash plate and the swing angle of swash plate. The influence of swash...
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Strong-coupling superconductivity of SrIr2 and SrRh2 : Phonon engineering of metallic Ir and Rh
PublikacjaExperimental and theoretical studies on superconductivity in SrIr2 and SrRh2 Laves phases are presented. The measured resistivity, heat capacity, and magnetic susceptibility confirm the superconductivity of these compounds with Tc = 6.07 and 5.41 K, respectively. Electronic structure calculations show that the Fermi surface is mostly contributed by 5d (4d) electrons of Ir (Rh), with Sr atoms playing the role of electron donors....
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Influence of Properties of Hydraulic Fluid on Pressure Peaks in Axial Piston Pumps’ Chambers
PublikacjaThe article concentrates on the research of the pressure peaks in a working chamber of an axial piston pump. The main focus of the article is the influence of fluid properties on the pressure peaks value. Experimental and analytical methods were used to determine the impact of the fluid density, viscosity, compressibility and aeration. The article describes the pressure peak generation process and explains the theoretical basis...
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Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment
PublikacjaThe UNited RESidue (UNRES) force field was tested in the 14th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP14), in which larger oligomeric and multimeric targets were present compared to previous editions. Three prediction modes were tested (i) ab initio (the UNRES group), (ii) contact-assisted (the UNRES- contact group), and (iii) template-assisted (the UNRES-template...
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Fatty acyl benzamido antibacterials based on inhibition of DnaK-catalyzed protein folding
PublikacjaWe have reported that the hsp70 chaperone DnaK from Escherichia coli might assist protein folding by catalyzing the cis/trans isomerization of secondary amide peptide bonds in unfolded or partially folded proteins. In this study a series of fatty acylated benzamido inhibitors of the cis/trans isomerase activity of DnaK was developed and tested for antibacterial effects in E. coli MC4100 cells. Nα-[Tetradecanoyl-(4-aminomethylbenzoyl)]-l-asparagine...
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Justification of quasi-stationary approximation in models of gene expression of a self-regulating protein
PublikacjaWe analyse a model of Hes1 gene transcription and protein synthesis with a negative feedback loop. The effect of multiple binding sites in the Hes1 promoter as well as the dimer formation process are taken into account. We consider three, possibly different, time scales connected with: (i) the process of binding to/dissolving from a binding site, (ii) formation and dissociation of dimers, (iii) production and degradation of Hes1...
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A Colorimetric Microplate Assay for DNA-Binding Activity of His-Tagged MutS Protein
PublikacjaA simple microplate method was designed for rapid testing DNA-binding activity of proteins. The principle of the assay involves binding of tested DNA by his-tagged protein immobilized on a nickel-coated ELISA plate, following colorimetric detection of biotinylated DNA with avidin conjugated to horseradish peroxidase. The method was used to compare DNA mismatch binding activities of MutS proteins from three bacterial species. The...
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Chapter 2: Modelling and analysis of rotor with magnetic bearing system
PublikacjaThe paper is concerned with rotor magnetic bearing system modelling. Such system is a relatively complex electromechanical system and can be considered as typical mechatronic one. The port-based modelling of physical systems has been used to obtain discrete-continuous model of considered system. Proposed approach enables to obtain reduced low-order lumped parameter representation of the system including gyroscopic interactions....
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Law requirements of explosion proof protection at working with chemical substances
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Model of speed-varing rotor for mechatronic systems analysis and design
PublikacjaW artykule przedstawiono sposób modelowania złożonych układów mechatronicznych w oparciu o metodę grafów wiązań. Celem zilustrowania metody posłużono się przykładem liczbowym, w którym rozważano wirnik obracający się ze zmienną prędkością kątową. Prezentowana metodyka doskonale nadaje się do modelowania układów o zróżnicowanej naturze fizycznej. Otrzymany model ma charakter obiektu o pewnej liczbie wejść i wyjść, który można w...
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Inverse method for 3D shaped centrifugal compressor (rotor and diffuser)
PublikacjaW artykule przedstawiono sposób wyznaczania kształtu wirnika i dyfuzora sprężarki promieniowej. Podano układ równań oraz warunki zamknięcia układu. Przykładowe rozwiązanie wskazuje na silny wpływ warunków na wlocie na kształt dyfuzora.
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Computer Assisted Proof of the Existence of a Periodic Orbit in the Rössler Equations
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Model of the double-rotor induction motor in terms of electromagnetic differential
PublikacjaThe paper presents a concept, a construction, a circuit model and experimental results of the double-rotor induction motor. This type of a motor is to be implemented in the concept of the electromagnetic differential. At the same time it should fulfill the function of differential mechanism and the vehicle drive. One of the motor shafts is coupled to the direction changing mechanical transmission. The windings of the external rotor...
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Smooth least absolute deviation estimators for outlier-proof identification
PublikacjaThe paper proposes to identify the parameters of linear dynamic models based on the original implementation of least absolute deviation estimators. It is known that the object estimation procedures synthesized in the sense of the least sum of absolute prediction errors are particularly resistant to occasional outliers and gaps in the analyzed system data series, while the classical least squares procedure unfortunately becomes...
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Broken rotor bar impact on sensorless control of induction machine
PublikacjaThe aim of the research is analysis of the sensorless control system of induction machine with broken rotor for diagnostic purposes. Increasing popularity of sensorless controlled variable speed drives requires research in area of reliability, range of stable operation, fault symptoms and application of diagnosis methods. T transformation (Cunha et al.,2003) used for conversion of instantaneous rotor currents electrical circuit...
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Reliability of Ultrasonic Distance Measurement in Application to Multi-Rotor MAVs
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Improving Savonius rotor performance by shaping its blade edges
PublikacjaThe article presents the results of the numerical analysis of the flow inside the Savonius rotor. Particular at-tention has been paid to the vicinity of the blade gap in order to recognise the mechanisms controlling the flow in this area. The conclusions resulting from the analysis made the basis for an attempt to improve Savonius turbine performance via shaping rotor blade edges. The paper presents selected characteristic flow...
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An Alternative Proof of a Lower Bound on the 2-Domination Number of a Tree
PublikacjaA 2-dominating set of a graph G is a set D of vertices of G such that every vertex not in D has a at least two neighbors in D. The 2-domination number of a graph G, denoted by gamma_2(G), is the minimum cardinality of a 2-dominating set of G. Fink and Jacobson [n-domination in graphs, Graph theory with applications to algorithms and computer science, Wiley, New York, 1985, 283-300] established the following lower bound on the 2-domination...
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RANS-based design optimization of dual-rotor wind turbines
PublikacjaPurpose An improvement in the energy efficiency of wind turbines can be achieved using dual rotors. Because of complex flow physics, the design of dual-rotor wind turbines (DRWTs) requires repetitive evaluations of computationally expensive partial differential equation (PDE) simulation models. Approaches for solving design optimization of DRWTs constrained by PDE simulations are investigated. The purpose of this study is to determine...
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Variable-fidelity shape optimization of dual-rotor wind turbines
PublikacjaPurpose Dual-rotor wind turbines (DRWTs) are a novel type of wind turbines that can capture more power than their single-rotor counterparts. Because their surrounding flow fields are complex, evaluating a DRWT design requires accurate predictive simulations, which incur high computational costs. Currently, there does not exist a design optimization framework for DRWTs. Since the design optimization of DRWTs requires numerous model...
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A method for analysing ram pressure characteristics of impeller pump rotor
PublikacjaW pracy przedstawiono metodę wyznaczania kąta wypływu strumienia z wirnika w oparciu o określoną eksperymentalnie charakterystykę ciśnienia w funkcji natężenia przepływu. Metoda może być wykorzystana do określenia kąta napływu na palisadę łopatkową za kołem wirnikowym w sytuacji braku mozliwości jego pomiaru.
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Novel analytical approach for real-time monitoring of volatile Maillard reaction products emitted from the sugar-amino acid model system using proton transfer reaction mass spectrometry
PublikacjaIn the presented research, volatile Maillard reaction products formation in the two sugar-amino acid model systems, namely glucoselysine and ribose-lysine model systems were investigated using proton transfer reaction mass spectrometry. Obtained data were supported by the reference method, i.e., UV/Vis spectrometry. A number of volatile organic compounds were selected based on the correlation of the effect of Maillard reaction...
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Ionization and fragmentation of the six-membered heterocycles containing oxygen – Comparative studies of electron and photon impact on the 3,4-dihydro-2H-pyran molecules
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One- and two-photon induced fluorescence of Pacific Blue-labeled human serum albumine deposited on different core size silver colloids
PublikacjaPublikacja opisuje jedno i dwufotonowo indukowaną Fluorescencje znakowanej barwnikiem ''Pacific Blue'' ludzkiej albuminy osadzonej na srebrnych koloidach różnych rozmiarów
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Adipocyte Fatty Acid‐Binding Protein as a Novel Marker of Psoriasis and Clinical Response to Acitretin
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Novel Drying Methods for Sustainable Upcycling of Brewers’ Spent Grains as a Plant Protein Source
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The effect of topical treatment and psoriasis severity on serum retinol-binding protein-4 levels
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Comparison of protein precipitation methods for various rat brain structures prior to proteomic analysis
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Similarities and Differences in the Protein Composition of Cutaneous Melanoma Cells and Their Exosomes Identified by Mass Spectrometry
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Elastic-contractile model proteins: Physical chemistry, protein function and drug design and delivery
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Expression profiles and genomic organisation of group A protein phosphatase 2C genes inBrassica oleracea
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An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12
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The plasma concentration of advanced oxidation protein products and arterial stiffness in apparently healthy adults
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Blood plasma protein and lipid profile changes in calves during the first week of life
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A Data Driven Model for Predicting RNA-Protein Interactions based on Gradient Boosting Machine
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Patients with obstructive sleep apnea present with chronic upregulation of serum HIF-1α protein
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Investigations of the influence of Am-241 photons on the measured alpha particle response of luminescent materials
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Characterization of Structural and Energetic Differences between Conformations of the SARS-CoV-2 Spike Protein
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Simulation of fluid structure interaction in a novel design of high pressure axial piston pump
PublikacjaA novel type of an axial, piston-driven high pressure hydraulic pump with variable capacity marks a significant improvement in the area of the hydraulic machinery design. Total discharge from hydrostatic forces eliminates a need for a servomechanism, thus simplifying operation, reducing weight and introducing the possibility of the pump displacement control by computer. PWK-type pumps, invented in the Gdansk University of Technology,...
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Novel thermostable single-stranded DNA-binding protein (SSB) from Deinococcus geothermalis
PublikacjaW celu zbadania właściwości biochemicznych białka wiążącego się do jednoniciowego DNA (SSB) pochodzącego z Deinococcus geothermalis (DgeSSB), sklonowano gen ssb otrzymany w reakcji PCR, a następnie uzyskano wydajną biosyntezę białka DgeSSB. Gen składa się z 900 par zasad, kodujących białko złożone z 300 reszt aminokwasowych, o wyliczonej masie molekularnej równej 32.45 kDa. Sekwencja aminokwasowa wykazuje 43, 44% i 75% identyczności...
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Unusual dynamic properties of water near the ice-binding plane of hyperactive antifreeze protein
PublikacjaThe dynamical properties of solvation water of hyperactive antifreeze protein from Choristoneura fumiferana (CfAFP) are analyzed and discussed in context of its antifreeze activity. The protein comprises of three well-defined planes and one of them binds to the surface of ice. The dynamical properties of solvation water around each of these planes were analyzed separately; the results are compared with the dynamical properties...
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Novel single-stranded DNA-binding protein from psyvhrophilic bacterium Psychrobacter arcticus
PublikacjaTo study the biochemical properties of SSB from Psychrobacter arcticus (ParSSB), we have cloned the ssb genes obtained by PCR and have developed Escherichia coli overexpression systems. The gene consists of an open reading frame of 642 nucleotides encoding SSB protein of 213 amino acids with a calculated molecular mass of 22.8 kDa. The amino-acid sequence of ParSSB exhibits 49% identity and 57% similarity to Escherichia coli SSB....
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MIC1-MAG1-SAG1 chimeric protein, a most effective antigen for detection of human toxoplasmosis
PublikacjaThis study describes a Toxoplasma gondii IgG ELISA test based on a new chimeric antigen containing three immunodominant regions from MIC1, MAG1 and SAG1 proteins of a parasite and shows that this test is useful for diagnostic purposes and may replace the lysed and whole-cell antigens.
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A highly thermostable, homodimeric single-stranded DNA-binding protein from Deinococcus radiopugnans
PublikacjaWe report the identification and characterization of the single-stranded DNA-binding protein (SSB) from the mesophile and highly radiation-resistant Deinococcus radiopugnans (DrpSSB). PCR-derived DNA fragment containing the complete structural gene for DrpSSB protein was cloned and expressed in Escherichia coli. The gene consisting of an open reading frame of 900 nucleotides encodes a protein of 300 amino acids with a calculated...
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Aqueous solutions of NMA, Na2HPO4 , and NaH2PO4 as models for interaction studies in phosphate–protein systems
PublikacjaPhosphate buffers are essential for many areas of studies. However, their influence on buffered systems is often ignored. The phosphate salts can interact with biologically important macromolecules (e.g. proteins) and stabilize or destabilize them. With our research, we want to answer question what kind of interactions, if any, occur between phosphate ions and a protein backbone model — N-methylacetamide (NMA). ATR-FTIR spectroscopy...
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Expression of goose parvovirus whole VP3 protein and its epitopes in Escherichia coli cells
PublikacjaThe aim of this study was the expression of goose parvovirus capsid protein (VP3) and its epitopes in Escherichia coli cells. Expression of the whole VP3 protein provided an insufficient amount of protein. In contrast, the expression of two VP3 epitopes (VP3ep4, VP3ep6) in E. coli, resulted in very high expression levels. This may suggest that smaller parts of the GPV antigenic determinants are more efficiently expressed than the...
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Integration of protein tethering in a rapid and label-free SERS screening platform for drugs of abuse
PublikacjaSurface enhanced Raman spectroscopy (SERS) has emerged as a promising technique for the rapid and ultrasensitive detection of molecular species such as drugs of abuse in biofluids. Yet, it remains a significant challenge to create a viable screening tool for multiple drug classes, owing to the lack of affinity of certain species for the SERS substrate and to the matrix interference in complex media. Here we report a protein tethering...