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Local and long range potentials for heparin‐protein systems for coarse‐grained simulations
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Chromatin-associated microprocessor assembly is regulated by the U1 snRNP auxiliary protein PRP40
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Depression as is Seen by Molecular Spectroscopy. Phospholipid- Protein Balance in Affective Disorders and Dementia
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A comparative study of water distribution and dehydrin protein localization in maturing pea seeds
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Mapping Mechanostable Pulling Geometries of a Therapeutic Anticalin/CTLA-4 Protein Complex
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Performance of protein-structure predictions with the physics-based UNRES force field in CASP11
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Recent improvements in prediction of protein structure by global optimization of a potential energy function
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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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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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Assembly of Lipopolysaccharide in Escherichia coli Requires the Essential LapB Heat Shock Protein
PublikacjaHere, we describe two new heat shock proteins involved in the assembly of LPS in Escherichia coli, LapA and LapB (lipopolysaccharide assembly protein A and B). lapB mutants were identified based on an increased envelope stress response. Envelope stress responsive pathways control key steps in LPS biogenesis and respond to defects in the LPS assembly. Accordingly, the LPS content in ΔlapB or Δ(lapA lapB) mutants was elevated, with...
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Are stabilizing osmolytes preferentially excluded from the protein surface? FTIR and MD studies
PublikacjaInteractions between osmolytes and hen egg white lysozyme in aqueous solutions were studied by means of FTIR spectroscopy and molecular dynamics. A combination of difference spectra method and chemometric analysis of spectroscopic data was used to determine the number of osmolyte molecules interacting with the protein, and the preferential interaction coefficient in presented systems. Both osmolytes – L-proline and trimethylamine-N-oxide...
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Chitosan-protein scaffolds loaded with lysostaphin as potential antistaphylococcal wound dressing materials.
PublikacjaAIMS: The development of technology for preparing chitosan-protein scaffolds loaded with lysostaphin, which potentially could be used as dressing for wound treatment and soft tissue infections caused by Staphylococcus aureus. METHODS AND RESULTS: The unique technology of chitosan solubilization using gaseous CO(2) instead of organic or inorganic acids was used for the incorporation of lysostaphin, the enzyme that exhibits bactericidal...
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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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General Mechanism of Osmolytes’ Influence on Protein Stability Irrespective of the Type of Osmolyte Cosolvent
PublikacjaThe stability of proteins in an aqueous solution can be modified by the presence of osmolytes. The hydration sphere of stabilizing osmolytes is strikingly similar to the enhanced hydration sphere of a protein. This similarity leads to an increase in the protein stability. Moreover, the hydration sphere of destabilizing osmolytes is significantly different. These solutes generate in their surroundings so-called “structurally different...
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Valuation method for operation of crankshaft-piston assembly in combustion engines in energy approach
PublikacjaPrzedstawiono propozycję wartościowania (ilościowego określenia) działania dowolnego układu korbowo-tłokowego silnika o zapłonie samoczynnym, w którym zachodzą oddziaływania energetyczne w określonym czasie. Działanie to rozumiane jest jako przekazywanie odbiornikowi energii w ustalonym czasie, w którym zachodzi przetwarzanie i przenoszenie energii w formie pracy i ciepła. Wartościowanie działania układów korbowo-tłokowych silników...
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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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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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Titania nanotubes infiltrated with conducting polymer PEDOT modified by Prussian Blue – a novel type of organic-inorganic heterojunction characterised with enhanced photoactivity.
PublikacjaA highly ordered p–n heterojunction was formed based on titania nanotubes containing a conducting polymer with Prussian blue matrix. The study demonstrates, for the first time, cases when a composite based on titania array scaffolding and Prussian blue embedded in PEDOT exhibits reversible FeII/FeIII redox activity. Highly enhanced photoactivity and capacitance of the obtained material are depicted in comparison to pristine titania....
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Analiza działania rozszerzonego obserwatora prędkości w szerokim zakresie zmian prędkości maszyny indukcyjnej
PublikacjaW artykule przedstawiono zagadnienia związane z odtwarzaniem zmiennych stanu maszyny indukcyjnej. Wykorzystano obserwator oparty na modelu matematycznym maszyny z dodatkowymi zmiennymi. Przedstawiono macierz stanu zlinearyzowanych równań błędu odtwarzania. Opisano sposób definiowania wyznacznika jakości na podstawie rozkładu biegunów obserwatora. Zaproponowano metodę korekcji wzmocnień wraz ze zmianą warunków pracy maszyny. Wykazano...
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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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Computer Assisted Proof of the Existence of a Periodic Orbit in the Rössler Equations
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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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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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Reliability of Ultrasonic Distance Measurement in Application to Multi-Rotor MAVs
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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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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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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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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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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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AN OVERVIEW OF HEAT TRANSFER ENHANCEMENT BASED UPON NANOPARTICLES INFLUENCED BY INDUCED MAGNETIC FIELD WITH SLIP CONDITION VIA FINITE ELEMENT STRATEGY
PublikacjaThe mathematical model of heat generation and dissipation during thermal energy transmission employing nanoparticles in a Newtonian medium is investigated. Dimensionless boundary layer equations with correlations for titanium dioxide, copper oxide, and aluminium oxide are solved by the finite element method. Parameters are varied to analyze their impact on the flow fields. Various numerical experiments are performed consecutively...
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The Early Stages of Photosystem II Assembly Monitored by Measurements of Fluorescence Lifetime, Fluorescence Induction and Isoelectric Focusing of Chlorophyll-Proteins in Barley Etiochloroplasts
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Wykorzystanie modelu silnika indukcyjnego klatkowego do prądowej diagnostyki jego łożysk. Application of induction machine model for current diagnostics of bearings
PublikacjaW pracy podano widmo prądu stojana dla silnika normalnego oraz wprawianego w drgania o nastawianej częstotliwości. Drgania korpusu wirnika skutkują uginaniem się wirnika, co symuluje bicie wirnika od uszkodzenia łożysk. Podano też model matematyczny silnika, dopuszczający niecentryczność wirnika. Podano widmo prądu stojana przy pracy z wibracjami wirnika odwzorowującymi w pewnym przybliżeniu wibracje od uszkodzonych łożysk.
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Effect of Evening Primrose Oil Supplementation on Selected Parameters of Skin Condition in a Group of Patients Treated with Isotretinoin—A Randomized Double-Blind Trial
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Method of identification of the slide tribological system top layer condition by assessment of the t-02 four-ball tester friction node operation
Publikacjaa method is proposed of the assessment of t-02 four-ball tester friction node operation during extreme unit loads on the tribological system for identification of the top layer condition in that system lubricated with the tested lubricating oil. by identification of the friction node with a thermodynamic system, that operation is treated as an energy generating process of the created servo-layer structure. the friction node operation...
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The induction of autophagy in human colon wt p53 and p53-null HCT116 cells by 4-methyl-1-nitroacridine derivative C-1748
PublikacjaPrzeprowadzone badania miały na celu określenie zdolności pochodnej 4-metylo-1-nitroakrydyny C-1748 do uruchomienia autofagii komórek ludzkiego raka okrężnicy HCT116 posiadających dziki gen p53 oraz podlinii nie posiadającej tego genu. Wszystkie eksperymenty przeprowadzone zostały przy stężeniu hamującym proliferację komórek nowotworowych w 90%. Wykazano, że indukowana przez C-1748 autofagia w komórkach raka okrężnicy jest zależna...
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The possibility to use multi-walled carbon nanotubes as a sorbent for dispersive solid phase extraction of selected pharmaceuticals and their metabolites: Effect of extraction condition
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Novel anticancer strategy aimed at targeting shelterin complexes by the induction of structural changes in telomeric DNA: hitting two birds with one stone.
PublikacjaThe ends of chromosomes in mammals are composed of telomeric DNA containing TTAGGG repeats, which bind specific proteins called shelterins. This telomeric DNA together with shelterins form a cap that protects the ends of chromosomes from being recognized as sites of DNA damage and from chromosomal fusions. Many very successful antitumor drugs used in the treatment of cancer patients bind to DNA, some of them with a prominent sequence...
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Mixed Convection in Lid-Driven “T” Shallow Cavity Heated From Bottom and Filled by Two Immiscible Fluids of Air and Al2O3-Water Nanofluid
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Correction: Titania nanotubes infiltrated with the conducting polymer PEDOT modified by Prussian blue – a novel type of organic–inorganic heterojunction characterised with enhanced photoactivity
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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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Proteolysis of whey protein isolates in nanoemulsion systems: impact of nanoemulsification and additional synthetic emulsifiers
PublikacjaNanoemulsions are currently of interest in the functional food sector because their small droplet size (100–500 nm) provides a number of potential advantages over conventional emulsions. This study concerned the behavior of nanoemulsions stabilized with whey proteins and two synthetic emulsifiers (Tween 80 and Croduret), and exposed to conditions simulating the human upper gastrointestinal tract. In particular, the effect of synthetic...
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Organic solvents aggregating and shaping structural folding of protein, a case study of the protease enzyme
PublikacjaLow solubility of reactants or products in aqueous solutions can result in the enzymatic catalytic reactions that can occur in non-aqueous solutions. In current study we investigated aqueous solutions containing different organic solvents / deep eutectic solvents (DESs) that can influence the protease enzyme's activity, structural, and thermal stabilities. Retroviral aspartic protease enzyme is responsible for the cleavage of the...