keyword
MENU ▼
Read by QxMD icon Read
search

Protein denaturation

keyword
https://www.readbyqxmd.com/read/28098447/the-stories-tryptophans-tell-exploring-protein-dynamics-of-heptosyltransferase-i-from-escherichia-coli
#1
Joy M Cote, Carlos Andres Ramirez-Mondragon, Zarek S Siegel, Daniel Joseph Czyzyk, Jiali Gao, Yuk Yin Sham, Ishita Mukerji, Erika A Taylor
Heptosyltransferase I (HepI) catalyzes the addition of a single L-glycero-β-D-manno-heptose sugar (heptose) onto the membrane incorporated Kdo2-Lipid A as part of the biosynthesis of the core region of lipopolysaccharide (LPS). Gram-negative bacteria with gene knockouts of HepI have reduced virulence with enhanced susceptibility to hydrophobic antibiotics, making design of inhibitors against HepI of interest. Previous studies have shown that HepI protein dynamics are partially rate limiting, and therefore disruption of protein dynamics might provide a new strategy for inhibiting HepI...
January 18, 2017: Biochemistry
https://www.readbyqxmd.com/read/28098257/a-comprehensive-platform-for-the-analysis-of-ubiquitin-like-protein-modifications-using-in-vivo-biotinylation
#2
Lucia Pirone, Wendy Xolalpa, Jón Otti Sigurðsson, Juanma Ramirez, Coralia Pérez, Monika González, Ainara Ruiz de Sabando, Félix Elortza, Manuel S Rodriguez, Ugo Mayor, Jesper V Olsen, Rosa Barrio, James D Sutherland
Post-translational modification by ubiquitin and ubiquitin-like proteins (UbLs) is fundamental for maintaining protein homeostasis. Efficient isolation of UbL conjugates is hampered by multiple factors, including cost and specificity of reagents, removal of UbLs by proteases, distinguishing UbL conjugates from interactors, and low quantities of modified substrates. Here we describe bioUbLs, a comprehensive set of tools for studying modifications in Drosophila and mammals, based on multicistronic expression and in vivo biotinylation using the E...
January 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28096492/identification-of-glutaminyl-cyclase-genes-involved-in-pyroglutamate-modification-of-fungal-lignocellulolytic-enzymes
#3
Vincent W Wu, Craig M Dana, Anthony T Iavarone, Douglas S Clark, N Louise Glass
: The breakdown of plant biomass to simple sugars is essential for the production of second-generation biofuels and high-value bioproducts. Currently, enzymes produced from filamentous fungi are used for deconstructing plant cell wall polysaccharides into fermentable sugars for biorefinery applications. A post-translational N-terminal pyroglutamate modification observed in some of these enzymes occurs when N-terminal glutamine or glutamate is cyclized to form a five-membered ring. This modification has been shown to confer resistance to thermal denaturation for CBH-1 and EG-1 cellulases...
January 17, 2017: MBio
https://www.readbyqxmd.com/read/28096464/functional-transformation-of-c-reactive-protein-by-hydrogen-peroxide
#4
Sanjay K Singh, Avinash Thirumalai, Asmita Pathak, Donald N Ngwa, Alok Agrawal
C-reactive protein (CRP) is present at sites of inflammation including amyloid plaques, atherosclerotic lesions and arthritic joints. CRP, in its native pentameric structural conformation, binds to cells and molecules which have exposed phosphocholine (PCh) groups. CRP, in its non-native pentameric structural conformation, binds to a variety of deposited, denatured and aggregated proteins, in addition to binding to PCh-containing substances. In this study, we investigated the effects of hydrogen peroxide (H2O2), a prototypical reactive oxygen species and which is also present at sites of inflammation, on the ligand recognition function of CRP...
January 17, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28096375/do-guanidinium-and-tetrapropylammonium-ions-specifically-interact-with-aromatic-amino-acid-side-chains
#5
Bei Ding, Debopreeti Mukherjee, Jianxin Chen, Feng Gai
Many ions are known to affect the activity, stability, and structural integrity of proteins. Although this effect can be generally attributed to ion-induced changes in forces that govern protein folding, delineating the underlying mechanism of action still remains challenging because it requires assessment of all relevant interactions, such as ion-protein, ion-water, and ion-ion interactions. Herein, we use two unnatural aromatic amino acids and several spectroscopic techniques to examine whether guanidinium chloride, one of the most commonly used protein denaturants, and tetrapropylammonium chloride can specifically interact with aromatic side chains...
January 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28096357/prion-replication-without-host-adaptation-during-interspecies-transmissions
#6
Jifeng Bian, Vadim Khaychuk, Rachel C Angers, Natalia Fernández-Borges, Enric Vidal, Crystal Meyerett-Reid, Sehun Kim, Carla L Calvi, Jason C Bartz, Edward A Hoover, Umberto Agrimi, Jürgen A Richt, Joaquín Castilla, Glenn C Telling
Adaptation of prions to new species is thought to reflect the capacity of the host-encoded cellular form of the prion protein (PrP(C)) to selectively propagate optimized prion conformations from larger ensembles generated in the species of origin. Here we describe an alternate replicative process, termed nonadaptive prion amplification (NAPA), in which dominant conformers bypass this requirement during particular interspecies transmissions. To model susceptibility of horses to prions, we produced transgenic (Tg) mice expressing cognate PrP(C) Although disease transmission to only a subset of infected TgEq indicated a significant barrier to EqPrP(C) conversion, the resulting horse prions unexpectedly failed to cause disease upon further passage to TgEq...
January 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28092443/kinetics-and-structure-of-a-cold-adapted-hetero-octameric-atp-phosphoribosyltransferase
#7
Rozanne Stroek, Ying Ge, Paul D Talbot, Mateusz K Glok, Klaudia E Bernas, Catherine M Thomson, Eoin R Gould, Magnus S Alphey, Huanting Liu, Gordon J Florence, James H Naismith, Rafael Guimaraes da Silva
ATP-phosphoribosyltransferase (ATPPRT) catalyses the first step in histidine biosynthesis, the condensation of ATP and 5-phospho-α-D-ribosyl-1-pyrophosphate to generate N(1)-(5-phospho-β-D-ribosyl)-ATP and inorganic pyrophosphate. The enzyme is allosterically inhibited by histidine. Two forms of ATPPRT, encoded by the hisG gene, exist in nature, depending on the species. The long form, HisGL, is a single polypeptide chain with catalytic and regulatory domains. The short form, HisGS, lacks a regulatory domain, and cannot bind histidine...
January 16, 2017: Biochemistry
https://www.readbyqxmd.com/read/28090125/a-multi-physics-model-for-ultrasonically-activated-soft-tissue
#8
Rahul Suvranu De
A multi-physics model has been developed to investigate the effects of cellular level mechanisms on the thermomechanical response of ultrasonically activated soft tissue. Cellular level cavitation effects have been incorporated in the tissue level continuum model to accurately determine the thermodynamic states such as temperature and pressure. A viscoelastic material model is assumed for the macromechanical response of the tissue. The cavitation model based equation-of-state provides the additional pressure arising from evaporation of intracellular and cellular water by absorbing heat due to structural and viscoelastic heating in the tissue, and temperature to the continuum level thermomechanical model...
February 1, 2017: Computer Methods in Applied Mechanics and Engineering
https://www.readbyqxmd.com/read/28088421/the-influence-of-ultra-pasteurization-by-indirect-heating-versus-direct-steam-injection-on-skim-and-2-fat-milks
#9
A P Lee, D M Barbano, M A Drake
Fluid milk is traditionally pasteurized by high temperature, short time (HTST) pasteurization, which requires heating to at least 72°C for 15 s. Ultra-pasteurization (UP) extends milk shelf life and is defined as heating to at least 138°C for 2 s. The UP process can be done by indirect heating (IND) or by direct steam injection (DSI). The influence of these 2 UP methods on milk flavor has not been widely investigated. The objective of this study was to compare the effect of HTST, IND-UP, and DSI-UP on sensory perception of fluid milk...
January 11, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28080064/collective-excitations-in-protein-as-a-measure-of-balance-between-its-softness-and-rigidity
#10
Utsab Raj Shrestha, Debsindhu Bhowmik, Kurt William Van Delinder, Eugene Mamontov, Hugh M O'Neill, Qiu Zhang, Ahmet Alatas, Xiang-Qiang Chu
In this article, we elucidate the protein activity from the perspective of protein softness and flexibility by studying the collective phonon-like excitations in a globular protein, human serum albumin (HSA) and taking advantage of the state-of-the-art inelastic X-ray scattering (IXS) technique. Such excitations demonstrate that the protein becomes softer upon thermal denaturation due to disruption of weak non-covalent bonds. On the other hand, no significant change in the local excitations is detected in ligand- (drugs) bound HSA compared to the ligand-free HSA...
January 12, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28079199/structural-influence-of-proteins-upon-adsorption-to-mos2-nanomaterials-comparison-of-mos2-force-field-parameters
#11
Zonglin Gu, Phil De Luna, Zaixing Yang, Ruhong Zhou
Molybdenum disulfide (MoS2) has recently emerged as a promising nanomaterial in a wide range of applications due to its unique and impressive properties. For example, MoS2 has gained attention in the biomedical field because of its ability to act as an antibacterial and anticancer agent. However, the potential influence of this exciting nanomaterial on biomolecules is yet to be extensively studied. Molecular dynamics (MD) simulations are invaluable tools in the examination of protein interactions with nanomaterials such as MoS2...
January 12, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28078650/in-vivo-efficacy-of-latex-from-calotropis-procera-in-ameliorating-fever-biochemical-characteristics-and-plausible-mechanism
#12
Vijay L Kumar, B Guruprasad, Syed Meraj A Fatmi, Priyanka Chaudhary, Nylane Maria Nunes Alencar, José Vitor Moreira Lima-Filho, Márcio Viana Ramos
Calotropis procera latex fractions possessing anti-inflammatory property were characterized for their biochemical properties, compared for their efficacy in ameliorating fever in rats and their mechanism of action was elucidated. Aqueous fraction and methanol extract (AqDL and MeDL) were derived from the dried latex (DL) and proteins were separated from the fresh latex (LP). Polyacrylamide gel electrophoresis carried out under denaturing conditions showed the presence of proteins with some similarity in LP and AqDL and both of these fractions exhibited proteinase activity by gelatin zymography...
January 11, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28078579/immunoprecipitation-of-death-inducing-signaling-complex-by-caspase-8
#13
Andrei Alexandru Constentinescu, Aymeric Morlé, Olivier Micheau
Analysis of CD95/Fas complexes by immunoprecipitation has long relied on the monoclonal antibody APO1 or tagged recombinant Fas ligand. Immunoprecipitation is an elegant and efficient procedure to investigate endogenous protein interactions or complexes. Provided that the targeted complex is soluble in mild detergent these complexes can be recovered using protein A/G-coupled Sepharose beads and further analyzed after denaturation and electrophoretic separation by western blotting or mass spectrometry. Herein, we describe in detail the method used in our laboratory to immunoprecipitate and analyze by immunoblot complexes containing caspase-8, using a commercial antibody directed against caspase-8...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28076999/iridoids-and-anti-inflammatory-properties-of-n-butanol-extract-of-linaria-tingitana-boiss-reut
#14
Mourad Hanfer, Thamere Cheriet, Souad Ameddah, Ines Mancini, Ramdane Seghiri, Ahmed Menad, Samir Benayache, Fadila Benayache
The analysis of the n-butanol extract of Linaria tingitana (BELT) by HPLC-DAD-ESI/MS allowed the identification of four iridoids structurally confirmed by NMR and ESI-MS/MS extensive experiments data. The subjection of BELT to the anti-inflammatory activity showed that it exhibited a concentration dependent stabilisation of HRBC membrane, inhibition of protein denaturation and nitric oxide scavenging effect in the in vitro process. These results were confirmed in the in vivo experiments which showed that BELT was found to be most pronounced at 200 mg/kg after carrageenan injection which significantly reduced the swelling in both early and late phases of carrageenan-evoked oedema, as well as a significant reduce at the accumulation of infiltrating cells, inhibition of the myeloperoxidase activity and suppressed the lipid peroxidation...
January 11, 2017: Natural Product Research
https://www.readbyqxmd.com/read/28076957/collapse-precedes-folding-in-denaturant-dependent-assembly-of-ubiquitin
#15
Govardhan Reddy, Dave Thirumalai
The folding of small protein Ubiquitin (Ub), which plays an indispensable role in targeting proteins for degradation and DNA damage response is complex. A number of experiments on Ub folding have reached differing conclusions regarding the relation between collapse and folding, and whether intermediates are populated. In order to resolve these vexing issues, we elucidate the denaturant-dependent thermodynamics and kinetics of Ub folding at low and neutral pH as a function of Guanidinium chloride and Urea using coarse-grained molecular simulations...
January 11, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28071804/differential-scanning-calorimetry-analysis-of-the-effects-of-heat-and-pressure-on-protein-denaturation-in-soy-flour-mixed-with-various-types-of-plasticizers
#16
Meera Kweon, Louise Slade, Harry Levine
The effects of heat and pressure on protein denaturation in soy flour were explored by an experimental design that used pressure (atmospheric to 600 MPa), temperature (room to 90 °C), time (1 to 60 min), and type of aqueous plasticizer (NaCl, sucrose, betaine, and lactobionic acid (LBA)) as factors. When 50% (w/w) soy flour-water paste was high hydrostatic pressure (HHP)-treated for 20 min at 25 °C, the treatment at 200 MPa showed a small effect on denaturation of only the 7S soy globulin, but the treatment at 600 MPa showed a significant effect on denaturation of both the 7S and 11S soy globulins...
January 10, 2017: Journal of Food Science
https://www.readbyqxmd.com/read/28070779/hydrolytic-activity-of-esterase-antibody-complexes-retained-within-gel-capsules-after-complex-isolation
#17
Youji Shimazaki, Rino Miyatsuka
Delipidation in biological samples is important for some diagnostic tests and protein analyses. Lipids in the samples can be hydrolyzed by native esterases (ESs) within gel capsules after ES, and ES-antibody complexes are specifically trapped, extracted, and separated. Acrylamide and agarose gel capsules containing complexes of ES antibody were produced after the complexes were extracted using protein A-immobilized membranes, separated by non-denaturing electrophoresis, and stained by colloidal silver using glucose as a reductant...
January 9, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28070323/the-quality-changes-and-microflora-analysis-of-commercial-instant-soya-milk
#18
Xiaohong Ma, Xinzhong Hu, Liu Liu, Xiaoping Li, Zhen Ma, Jiahui Chen, Xue Wei
Soya milk can be easily contaminated because of its rich nutritional profile and simple package form, which thus may lead to short shelf life and has been considered as a public health concern. The objective of this study is to investigate the changes of sensory quality, viscosity, pH values, bacteria, and protein denaturation in soya milk samples which were stored for 0, 4, 8, 12, and 24 h at 25 ± 2°C. The results showed that the sensory properties were on the decline along with the storage time. The viscosity value increased from 1...
January 2017: Food Science & Nutrition
https://www.readbyqxmd.com/read/28070066/molecular-structural-analysis-of-spider-s-capture-thread-and-viscid-droplets-studied-by-microscopic-ft-ir-spectroscopy
#19
Hironobu Yabe, Norihisa Katayama, Mitsuhiro Miyazawa
The molecular structural analysis of capture thread, including its viscid droplets of oriental golden orb-web spider Nephila clavata, has been performed by microscopic FT-IR spectroscopy. The obtained spectra of capture threads with and without viscid droplets indicate that the features in the region of 1400 - 1000 cm(-1) will be useful as marker bands for the degree of the dissolving of viscid droplet; further, the bands at 1395 and 1335 cm(-1) are attributable to the components of anchoring granules located at the inner side of viscid droplets...
2017: Analytical Sciences: the International Journal of the Japan Society for Analytical Chemistry
https://www.readbyqxmd.com/read/28069443/the-cyclic-amp-phosphodiesterase-4d5-pde4d5-receptor-for-activated-c-kinase-1-rack1-signalling-complex-as-a-sensor-of-the-extracellular-nano-environment
#20
REVIEW
Stephen J Yarwood, Euan Parnell, Rebecca J Bird
The cyclic AMP and protein kinase C (PKC) signalling pathways regulate a wide range of cellular processes that require tight control, including cell proliferation and differentiation, metabolism and inflammation. The identification of a protein complex formed by receptor for activated C kinase 1 (RACK1), a scaffold protein for protein kinase C (PKC), and the cyclic AMP-specific phosphodiesterase, PDE4D5, demonstrates a potential mechanism for crosstalk between these two signalling routes. Indeed, RACK1-bound PDE4D5 is activated by PKCα, providing a route through which the PKC pathway can control cellular cyclic AMP levels...
January 6, 2017: Cellular Signalling
keyword
keyword
53210
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"