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Search results for: PROTEIN FOLDING
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A Colorimetric Microplate Assay for DNA-Binding Activity of His-Tagged MutS Protein
PublicationA 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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General Mechanism of Osmolytes’ Influence on Protein Stability Irrespective of the Type of Osmolyte Cosolvent
PublicationThe 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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Unusual structural properties of water within the hydration shell of hyperactive antifreeze protein
PublicationMany 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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Assembly of Lipopolysaccharide in Escherichia coli Requires the Essential LapB Heat Shock Protein
PublicationHere, 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
PublicationInteractions 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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Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment
PublicationThe 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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Karaś P., Kochanowicz K., Pitek M., Domański P., Obuchowski I., Tomiczek B., Liberek K.: Evolution towards simplicity in bacterial small heat shock protein system// eLife -, (2023), s.1-21
PublicationEvolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either...
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Decreasing CO2 Emissions By Reducing Tire Rolling Resistance
PublicationThe first motor vehicle was built by Nicolas Cugnot almost 250 years ago and since then there has been a continuous process of motor vehicles’ improvements, as well as development of new road pavements. The fuel crisis of the 70s of the 20th century made it clear to vehicle builders that measures should be taken to reduce vehicle fuel consumption and it contributed to an increased interest in electric vehicles. Although significant...
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The Rolling Contact Fatigue of PVD Coated Spur Gears
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A novel degree-hour method for rational design loading
PublicationCooling degree-hours (CDH) received the broadest application in evaluation of the ambient air cooling efficiency in power engineering (engine intake air cooling systems) and air conditioning. The current CDH numbers are defined as a drop in air temperature multiplied by associated time duration of performance and their summarized annual number is used to estimate the annual effect achieved due to sucked air cooling in power plants...
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APPLICABILITY OF INLET AIR FOGGING TO MARINE GAS TURBINE
PublicationThe dependency of marine gas turbine on the ambient temperature leads to a decrease of the gas turbine power output in arid areas. Very often gas turbine power output demand is high and the power margins originally designed into the driver , has been exhausted. In such circumstances the inlet air fogging is an effective compensation of gas turbine power. In this paper an analysis of inlet air fogging applicability to marine gas...
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Compact Planar Balun for the UWB Dipole Feeding Network
PublicationW pracy opisano wyniki z badań numerycznych ultra szerokopasmowego symetryzatora planarnego o zredukowanych wymiarach. Układ został zaprojektowany w oparciu o konfigurację opisaną w literaturze. Względem konfiguracji bazowej, układ przeprojektowano na inne podłoże. W celu weryfikacji przydatności układu, przeprowadzono symulację anteny dipolowej zasilanej opisywanym symetryzatorem. Na podstawie otrzymanych rezultatów przekazano...
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A polynomial algorithm for finding T-span of generalized cacti
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Probability of flooding a compartment (the pi factor) - a critique and a proposal
PublicationArtykuł podaje krytyczny przegląd stanu wiedzy dot. obliczania prawdopodobirństwa zatopienia przedziału (mnożnika pi), ze szczególnym uwzględnieniem projektu badawczego ''Harder'' oraz podaje poprawne rozwiązanie dotyczące tego mnożnika. Kończy się propozycją przepisu do zamieszczenia w konwencji SOLAS.
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Effects of workpiece feeding errors on multi-rip saws
PublicationW pracy przedstawiono przyczyny i efekty błędów prowadzenia materiału na wielopiłach tarczowych. Ich znajomość umożliwia szybką diagnostykę przyczyn, a także skuteczną minimalizację błędów prowadzenia materiału.
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Test loading of the longest span arch bridge in Poland
PublicationBridge structures undergo thorough examination during test loading before they come into use. The aim of the examination is to check the correctness of the working structure and construction design assumptions. Test loading on the bridge is preceded by examination specification. This paper describes computational model and test loading results carried out during examibation of the bridge over the Vistula within the bypass of Puławy...
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Manufacturing of resistant joints by rolling for light tubular structures
PublicationKoncepcja łączenia aluminiowych elementów rurowych z zastosowaniem nagniatania plastycznego jest alternatywą do istniejących metod łączenia przez spawanie i skręcanie. W artykule prezentowane są oryginalne wyniki badań wpływu parametrów nagniatania wewnętrznego i zewnętrznego oraz różnych postaci powierzchni łączonych na wytrzymałość złącza (aluminium-aluminium) pod wpływem rozciągających sił osiowych.Badania przeprowadzono na...
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Evolutionary approach to solving multi-ship encounter situations
PublicationW artykule wprowadzono nowe podejście do rozwiązywania sytuacji spotkań wielu statków poprzez połączenie założeń teorii gier z programowaniem ewolucyjnym. Spotkanie wielu statków jest zamodelowane jako gra rozgrywana przez ''myślących graczy'' - statki o różnych, potencjalnie zmiennych strategiach. Rozwiązanie - zbiór kooperujących (niekolidujących) trajektorii jest znajdowane za pomocą algorytmu ewolucyjnego.
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Parallelisation of genetic algorithms for solving university timetabling problems
PublicationAlgorytmy genetyczne stanowią ważną metodę rozwiązywania problemów optymalizacyjnych. W artykule skupiono się na projekcie równoległego algorytmu genetycznego pozwalającego uzyskiwać uniwersyteckie rozkłady zajęć, spełniające zarówno twarde jak i miękkie ograniczenia. Czytelnika wprowadzono w niektóre znane sposoby zrównoleglenia, przedstawiono również podejście autorów, ykorzystujące MPI. Przyjęto strukturę zarządzania opartą...
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Advances in Sheet Metal Forming Processes of Lightweight Alloys
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Application of Numerical Simulations on 10GN2MFA Steel Multilayer Welding
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Numerical Simulations of X22CrMoV12-1 Steel Multilayer Welding
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Heat Source Models in Numerical Simulations of Laser Welding
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Crowdsourcing and Volunteer Computing as Distributed Approach for Problem Solving
PublicationIn this paper, a combination between volunteer computing and crowdsourcing is presented. Two paradigms of the web computing are described, analyzed and compared in detail: grid computing and volunteer computing. Characteristics of BOINC and its contribution to global Internet processing are shown with the stress put onto applications the system can facilitate and problems it can solve. An alternative instance of a grid computing...
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Influence of compaction effectiveness on interlayer bonding of asphalt layers
PublicationThe paper presents the results of research on the interlayer bonding of asphalt layers compacted in the laboratory and in the field. To measure the interlayer bonding at a temperature of 20°C the Leutner test apparatus was used and load was applied at a rate of 50 mm/minute. Three types of interlayer interfaces were tested: no tack coat and tack coats made of two types of the pure bitumen emulsions. Four compaction techniques were...
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Weldability of high strength steels in wet welding conditions
PublicationIn this paper are characterized problems of high strength steel weldability in underwater wet welding conditions. Water as a welding environment intensifies action of unfavourable factors which influence susceptibility to cold cracking of welded steel joints. The susceptibility to cold cracking of S355J2G3 steel and S500M steel in wet conditions was experimentally estimated (by using Tekken test). It was concluded that the steels...
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Analysis of Rolling Resistance of Tires With Run Flat Insert
PublicationRun flat properties are required for tires intended for special applications like military or rescue vehicles. Run-Flat inserts make possible to drive a car or truck, with certain restrictions, also when inflation pressure is very low or non-existing (after tire damage). Rolling resistance of tires rolling the inserts increases considerably in relation to the rolling resistance of properly inflated tires. This paper presents results...
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On root finding algorithms for complex functions with branch cuts
PublicationA simple and versatile method is presented, which enhances the complex root finding process by eliminating branch cuts and branch points in the analyzed domain. For any complex function defined by a finite number of Riemann sheets, a pointwise product of all the surfaces can be obtained. Such single-valued function is free of discontinuity caused by branch cuts and branch points. The roots of the new function are the same as the...
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Tyre rolling resistance and its influence on fuel consumption
PublicationRolling resistance of tyres is one of the major resistive forces acting on any wheeled vehicle. Unfortunately, it is also one of the forces very difficult to measure. It is estimated that in certain traffic conditions (like for example constant speed driving with slow or moderate speed) so called Rolling Resistance Impact Factor may be as high as 0.3. This means that reduction of rolling resistance by 50% would lead to 15% of energy...
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Finding deformation of the straight rail track by GNSS measurements
PublicationW 2009 roku na Politechnice Gdańskiej i Akademii Marynarki Wojennej w Gdyni zostały przeprowadzone, po raz pierwszy, ciągłe pomiary satelitarne toru kolejowego z wykorzystaniem względnej metody fazowej na bazie polskiej Aktywnej Sieci Geodezyjnej ASG-EUPOS i serwisu czasu rzeczywistego RTK (GPRS) - NAVGEO. Przeprowadzona analiza wykazała silny związek między lokalizacją odbiornika GNSS i dokładnością wyznaczania pozycji, wpływ...
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Design of thermal cutting table - welding technology and construction
PublicationW referacie przedstawiono pionierską pracę dyplomową stopnia inżynierskiego, wykonaną przez dwoje studentów Wydziału Mechanicznego Politechniki Gdańskiej zgodnie z systemem CDIO (Conceive, Design, Implement, Operate). W ramach pracy studenci zaprojektowali stół do cięcia termicznego metali (rysunki i obliczenia wytrzymałościowe metodą elementów skończonych), opracowali technologię spawania stołu oraz samodzielnie go wykonali. Stół...
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Modernization of the Trailer for Tyre/Road Rolling Resistance Measurements
PublicationIn the article the ways of defining tyre rolling resistance are presented. The advantages of the laboratory tests of tyre/road rolling resistance and the advantages and disadvantages of on the road tyre/road rolling resistance tests are described. The description of the special trailer used for tyre/road rolling resistance measurements designed and constructed in the Faculty of Mechanical Engineering at Gdansk University of Technology,...
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Influence of Road Wetness on Tire-Pavement Rolling Resistance
PublicationRolling resistance of tires is one of the most important factors influencing energy consumption of road vehicles, especially on rural roads. For practical reasons, most of rolling resistance measurements are usually performed for dry road conditions. Based on the fact that roads are wet during a considerable time over the year and as part of the projects MIRIAM, ROLRES and ROSANNE, the TUG (Technical University of Gdańsk) in Poland...
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The influence of road surface unevenness on tyre rolling resistance
PublicationThe geometric characteristics of road surface substantially affect the interaction between tyre and road. Depending on pavement texture wavelength, the texture chiefly affects tyre/road friction, rolling resistance, interior and exterior noise, tyre wear, and ride comfort. The article presents results of investigations on the influence of road surface unevenness on the rolling resistance of passenger car and truck tyres. The tests...
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INFLUENCE OF LOAD AND INFLATION PRESSURE ON THE TYRE ROLLING RESISTANCE
PublicationTyre load and inflation pressure are important factors controlling rolling resistance of road vehicles. The article presents results obtained in the Technical University of Gdańsk during laboratory and road measurements of different car tyres rolling on different pavements. The knowledge of rolling resistance characteristics is important for modelling car dynamics as well as fuel consumption. It is also necessary to establish proper...
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Complex Root Finding Algorithm Based on Delaunay Triangulation
PublicationA simple and flexible algorithm for finding zeros of a complex function is presented. An arbitrary-shaped search region can be considered and a very wide class of functions can be analyzed, including those containing singular points or even branch cuts. The proposed technique is based on sampling the function at nodes of a regular or a self-adaptive mesh and on the analysis of the function sign changes. As a result, a set of candidate points...
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Strength analysis of container ship subjected to torsional loading
PublicationThe objective of this work is to investigate the torsional response of a container ship, with particular consideration of the warping effect. Two different models are investigated. In the first case, the full length model of a ship is analyzed and a distributed load is applied with the use of a novel approach. The model is supported in the torsional centre of the cross-section, which is derived analytically. In the second case,...
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Impact of thermal loading into the structural performance of ships: A review
PublicationThe presented study reviews the recent advances done regarding the impact of thermal loading on the structural performance of ships. Firstly, the studies related to the mechanical and thermal properties of typical materials used in shipbuilding are outlined. Secondly, a brief introduction to the heat transfer analysis, Finite Element modelling and thermal stresses is provided. Finally, the review of papers dealing with the structural...
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TEMPERATURE INFLUENCE ON TIRE ROLLING RESISTANCE MEASUREMENTS QUALITY
PublicationGlobal warming makes it necessary to reduce energy consumption, which in the case of motor vehicles, is connected, among other things, with reduction of resistive forces acting on a vehicle during its motion. One of the most important components of those forces is rolling resistance, which is very difficult to measure, especially in road conditions. The article deals with issues related to the influence of the thermal state of...
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Random field model of foundations at the example of continuous footing
PublicationThe purpose of the paper is to indicate an efficient method of foundation settlement analysis taking into account the variability of soil properties. The impact of the random variable distribution (Gauss or Lognormal) describing soil stiffness on foundation deposits was assessed. The Monte Carlo simulation method was applied in the computations. The settlements of the strip foundation with the subsoil described by a single random...
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Bead-on-Plate Underwater Wet Welding on S700MC Steel
PublicationThe participation of high strength steels in marine and offshore structures is increasing, which makes it necessary to develop recommendations for underwater repair welding works. The article presents the results of bead-on-plate welded specimens made of S700MC high strength steel in underwater wet welding conditions by covered elec- trodes. Three specimens with heat input values in the range 0.91-1.05 kJ/mm were made. The specimens...
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Measurement of filling and discharging loads in a full scale hopper.
PublicationArtykuł przedstawia wyniki doświadczalne naporu piasku na ścinanie uzyskane podczas napełniania i opróżniania leja silosu o pojemności 2.5 m3. Pokazane zostały wartości naporu w funkcji czasu oraz kształt powierzchni górnej materiału dla poszczególnych etapów napełniania i opróżniania.
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The surface contact characteristics after sliding and rolling burnishing.
PublicationW pracy przedstawiono zastosowanie nowej metody SCGC i odpowiedniego programu komputerowego JKC do oceny pomierzonej mikrostereometrii powierzchni części maszyn, głównie na potrzeby kontroli jakości. Na przykładzie powierzchni nagniatanych wykazano cechy nowej metody: wizualizację ułatwiającą wyobrażenie pomierzonej sfery chropowatości, położenie w niej najważniejszych parametrów oceny (rozkład geometrycznej powierzchni kontaktu,...
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An approach to fatigue assessment of metals under biharmonic loading.
PublicationRozpatrywane są kryteria nieograniczonej i ograniczonej trwałości zmęczeniowej metalicznych elementów poddanych biharmonicznemu naprężeniu, którego jedna składowa ma niską częstość. Założono, że składowa ta może być traktowana jako wolno zmieniające się w czasie naprężenie średnie. Kryteria zmęczeniowe sformułowano za pomocą równań Goodmana i Soderberga. Dyskutowane są wyniki przykładowych obliczeń.
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Numerical simulation of extreme flooding in a built-up area
PublicationPrzedstawiono dwie numeryczne symulacje propagacji gwałtownej fali powodziowej przez schematyczny model obszaru zabudowanego. Do obliczeń wykorzystano równania przepływu wody płytkiej. Wyniki obliczeń porównano z dostępnymi pomiarami wykonanymi w laboratorium hydraulicznym ENEL-CESI w Mediolanie. Uzyskano zadowalającą zgodność symulacji z eksperymentami.
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A polynomial algorithm for finding T-span of generalized cacti.
PublicationW pracy opisano wielomianowy algorytm wyznaczający optymalne T-pokolorowania dla uogólnionych kaktusów.
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Dissection of σE‐dependent cell lysis in Escherichia coli: roles of RpoE regulators RseA, RseB and periplasmic folding catalyst PpiD
PublicationTo understand the mechanism of sigma(E)-dependent cell lysis, we examined the consequences of deletion derivatives of rpoE regulators rseA, rseB and rseC on sigma(E) transcription, on levels of free versus membrane-bound sigma(E) and on OMP-biogenesis limiting factor(s) that could impact cell lysis. RT-PCR showed that individual nonpolar DeltarseA and DeltarseB increased the rpoE expression to varying extents, with pronounced induction...
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The construction of bifunctional fusion proteins consisting of MutS and GFP
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Denaturation of proteins by surfactants studied by the Taylor dispersion analysis
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Molecular Recognition in Complexes of TRF Proteins with Telomeric DNA
PublicationTelomeres are specialized nucleoprotein assemblies that protect the ends of linear chromosomes. In humans and many other species, telomeres consist of tandem TTAGGG repeats bound by a protein complex known as shelterin that remodels telomeric DNA into a protective loop structure and regulates telomere homeostasis. Shelterin recognizes telomeric repeats through its two major components known as Telomere Repeat-Binding Factors, TRF1...