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https://www.readbyqxmd.com/read/28432357/in-silico-drug-discovery-approach-targeting-receptor-tyrosine-kinase-like-orphan-receptor-1-for-cancer-treatment
#1
Onkar Nath, Archana Singh, Indrakant K Singh
Receptor tyrosine kinases (RTK) are important cell signaling molecules that influence many cellular processes. Receptor tyrosine kinase such as orphan receptor 1 (Ror1), a surface antigen, is a member of the RTK family of Ror, which plays a crucial role in cancers that have high-grade histology. As Ror1 has been implicated to be a potential target for cancer therapy, we selected this protein for further investigation. The secondary and tertiary structure of this protein was determined, which revealed that this protein contained three β-sheets, seven α-helices, and coils...
April 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28432323/refractive-index-tomograms-and-dynamic-membrane-fluctuations-of-red-blood-cells-from-patients-with-diabetes-mellitus
#2
SangYun Lee, HyunJoo Park, Kyoohyun Kim, YongHak Sohn, Seongsoo Jang, YongKeun Park
In this paper, we present the optical characterisations of diabetic red blood cells (RBCs) in a non-invasive manner employing three-dimensional (3-D) quantitative phase imaging. By measuring 3-D refractive index tomograms and 2-D time-series phase images, the morphological (volume, surface area and sphericity), biochemical (haemoglobin concentration and content) and mechanical (membrane fluctuation) parameters were quantitatively retrieved at the individual cell level. With simultaneous measurements of individual cell properties, systematic correlative analyses on retrieved RBC parameters were also performed...
April 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28431242/structural-and-functional-analysis-of-a-%C3%AE-2-adrenergic-receptor-complex-with-grk5
#3
Konstantin E Komolov, Yang Du, Nguyen Minh Duc, Robin M Betz, João P G L M Rodrigues, Ryan D Leib, Dhabaleswar Patra, Georgios Skiniotis, Christopher M Adams, Ron O Dror, Ka Young Chung, Brian K Kobilka, Jeffrey L Benovic
The phosphorylation of agonist-occupied G-protein-coupled receptors (GPCRs) by GPCR kinases (GRKs) functions to turn off G-protein signaling and turn on arrestin-mediated signaling. While a structural understanding of GPCR/G-protein and GPCR/arrestin complexes has emerged in recent years, the molecular architecture of a GPCR/GRK complex remains poorly defined. We used a comprehensive integrated approach of cross-linking, hydrogen-deuterium exchange mass spectrometry (MS), electron microscopy, mutagenesis, molecular dynamics simulations, and computational docking to analyze GRK5 interaction with the β2-adrenergic receptor (β2AR)...
April 20, 2017: Cell
https://www.readbyqxmd.com/read/28431037/gestational-diabetes-alters-functions-in-offspring-s-umbilical-cord-cells-with-implications-for-cardiovascular-health
#4
Ajith Isaac Amrithraj, Anjaneyulu Kodali, Linh Nguyen, Adrian Kee Keong Teo, Cheng Wei Chang, Neerja Karnani, Kai Lyn Ng, Peter D Gluckman, Yap Seng Chong, Walter Stünkel
As non-communicable diseases such as type 2 diabetes mellitus have their roots in prenatal development and conditions such as maternal gestational diabetes (GDM), we aimed to test this hypothesis in primary cells derived from the offspring of GDM mothers compared to control subjects. We have assessed primary umbilical cord derived cells such as human umbilical vein endothelial cells (HUVECs) and Wharton's jelly derived mesenchymal stem cells (WJMSCs) from both, the offspring of GDM and non-GDM mothers. We have compared the primary isolates in cell based assays measuring proliferation, mitochondrial oxygen consumption, and the ability to support blood vessel growth...
April 19, 2017: Endocrinology
https://www.readbyqxmd.com/read/28430953/gastric-proteins-muc5ac-and-tff1-as-potential-diagnostic-markers-of-colonic-sessile-serrated-adenomas-polyps
#5
Magomed Khaidakov, Keith K Lai, D Roudachevski, Julietta Sargsyan, Hannah E Goyne, Rish K Pai, Laura W Lamps, Curt H Hagedorn
Objectives: A subset of colon cancers originates from sessile serrated adenomas/polyps (SSA/Ps). Our goal was to identify markers for SSA/Ps that could aid in distinguishing them from hyperplastic polyps (HPs). Methods: We performed immunostaining for gastric proteins MUC5AC and TFF1 in formalin-fixed, paraffin-embedded (FFPE) samples of HPs (n = 47), SSA/Ps (n = 37), and normal colon (n = 30). Results: Control mucosa expressed only trace amounts of MUC5AC and TFF1...
November 1, 2016: American Journal of Clinical Pathology
https://www.readbyqxmd.com/read/28430432/absolute-binding-free-energies-between-t4-lysozyme-and-141-small-molecules-calculations-based-on-multiple-rigid-receptor-configurations
#6
Bing Xie, Trung Hai Nguyen, David D L Minh
We demonstrate the feasibility of estimating protein-ligand binding free energies using multiple rigid receptor configurations. Based on T4 lysozyme snapshots extracted from six alchemical binding free energy calculations with a flexible receptor, binding free energies were estimated for a total of 141 ligands. For 24 ligands, the calculations reproduced flexible-receptor estimates with a correlation coefficient of 0.90 and a root mean square error of 1.59 kcal/mol. The accuracy of calculations based on Poisson-Boltzmann/Surface Area implicit solvent was comparable to previously reported free energy calculations...
April 21, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28429932/thermodynamics-of-the-thermal-denaturation-of-acid-molten-globule-state-of-cytochrome-c-indicate-a-reversible-high-temperature-oligomerization-process
#7
Shigeyoshi Nakamura, Tomonori Saotome, Akiko Nakazawa, Masao Fukuda, Yutaka Kuroda, Shun-Ichi Kidokoro
In this study, we performed differential scanning calorimetry (DSC) and pressure perturbation calorimetry (PPC) analysis of the thermal transition of cytochrome c from an acidic molten globule (MG) state with the protein concentrations of 0.5-18.2 mg/mL. DSC profiles were highly reversible and showed clear protein-concentration dependence, indicating that reversible oligomerization occurred accompanying the thermal transition from the MG state. The DSC and PPC data required at least a six-state model including three new oligomeric states: dimer (I2), trimer (I3), and tetramer (I4) in addition to the three monomeric states previously characterized...
April 21, 2017: Biochemistry
https://www.readbyqxmd.com/read/28428809/leucine-rich-repeat-containing-variable-lymphocyte-receptors-as-modules-to-target-plant-expressed-proteins
#8
André C Velásquez, Kinya Nomura, Max D Cooper, Brantley R Herrin, Sheng Yang He
BACKGROUND: The ability to target and manipulate protein-based cellular processes would accelerate plant research; yet, the technology to specifically and selectively target plant-expressed proteins is still in its infancy. Leucine-rich repeats (LRRs) are ubiquitously present protein domains involved in mediating protein-protein interactions. LRRs confer the binding specificity to the highly diverse variable lymphocyte receptor (VLR) antibodies (including VLRA, VLRB and VLRC types) that jawless vertebrates make as the functional equivalents of jawed vertebrate immunoglobulin-based antibodies...
2017: Plant Methods
https://www.readbyqxmd.com/read/28428480/exposure-to-high-glucose-concentration-decreases-cell-surface-abca1-and-hdl-biogenesis-in-hepatocytes
#9
Maki Tsujita, Mohammad Anwar Hossain, Rui Lu, Tomoe Tsuboi, Kuniko Okumura-Noji, Shinji Yokoyama
AIM: To study atherosclerosis risk in diabetes, we investigated ATP-binding cassette transporter A1 (ABCA1) expression and high-density lipoprotein (HDL) biogenesis in the liver and hepatocytes under hyperglycemic conditions. METHODS AND RESULTS: In streptozotocin-induced diabetic mice, plasma HDL decreased while ABCA1 protein increased without changing its mRNA in the liver, only in the animals that responded to the treatment to show hypoinsulinemia and fasting hyperglycemia but not in the poor responders not showing those...
April 19, 2017: Journal of Atherosclerosis and Thrombosis
https://www.readbyqxmd.com/read/28425835/enzymatic-synthesis-and-protein-adsorption-properties-of-crystalline-nanoribbons-composed-of-cellulose-oligomer-derivatives-with-primary-amino-groups
#10
Takatoshi Nohara, Toshiki Sawada, Hiroshi Tanaka, Takeshi Serizawa
The in vitro enzymatic synthesis of cellulose and its derivatives has attracted growing interest for fabricating novel cellulose-based supramolecular assemblies with unique physicochemical and functional properties. However, their potential biomedical applications have not been sufficiently demonstrated despite their useful features of designable structures and tailor-made surface functionalities. Herein, we demonstrated the production of crystalline nanoribbons composed of cellulose oligomer derivatives with primary amino groups via cellodextrin phosphorylase-catalyzed single-step reactions using α-D-glucose l-phosphate monomers and 2-aminoethyl-β-D-glucoside primers...
April 20, 2017: Journal of Biomaterials Science. Polymer Edition
https://www.readbyqxmd.com/read/28425622/targeted-disruption-of-nf1-in-osteocyte-increases-fgf23-and-osteoid-with-osteomalacia-like-bone-phenotype
#11
Nobuhiro Kamiya, Ryosuke Yamaguchi, Olumide Aruwajoye, Audrey Kim, Gen Kuroyanagi, Matthew Phipps, Naga Suresh Adapala, Jian Q Feng, Harry K W Kim
Neurofibromatosis type 1 (NF1, OMIM 162200), caused by NF1 gene mutations, exhibits multi-system abnormalities including skeletal deformities in humans. Osteocytes play critical roles in controlling bone modeling and remodeling. However, the role of neurofibromin, the protein product of the NF1 gene, in osteocytes is largely unknown. This study investigated the role of neurofibromin in osteocytes by disrupting Nf1 under the Dmp1-promoter. The conditional knockout (Nf1 cKO) mice displayed serum profile of a metabolic bone disorder with an osteomalacia-like bone phenotype...
April 20, 2017: Journal of Bone and Mineral Research: the Official Journal of the American Society for Bone and Mineral Research
https://www.readbyqxmd.com/read/28425224/nanocarrier-mediated-retinal-drug-delivery-overcoming-ocular-barriers-to-treat-posterior-eye-diseases
#12
REVIEW
Rohit Bisht, Abhirup Mandal, Jagdish K Jaiswal, Ilva D Rupenthal
Effective drug delivery to the retina still remains a challenge due to ocular elimination mechanisms and complex barriers that selectively limit the entry of drugs into the eye. To overcome these barriers, frequent intravitreal injections are currently used to achieve high drug concentrations in vitreous and retina. However, these repetitive injections may result in several side effects. Recent advancements in the field of nanoparticle-based drug delivery could overcome some of these unmet needs and various preclinical studies conducted to date have demonstrated promising results of nanotherapies in the treatment of retinal diseases...
April 20, 2017: Wiley Interdisciplinary Reviews. Nanomedicine and Nanobiotechnology
https://www.readbyqxmd.com/read/28421445/characterization-of-new-modular-nanotransporters-with-albumin-binding-domain
#13
Yu V Khramtsov, A V Ulasov, A D Tsvetkova, A A Rosenkranz, G P Georgiev, A S Sobolev
The albumin-binding domain (ABD) with a site for its cleavage by tumor proteases was inserted in the structure of modular nanotransporters (MNTs), chimeric proteins for the delivery of anticancer drugs into the nuclei of cancer cells. The effectiveness of this cleavage was tested in both variants of created construct: "pure" ABD-MNT and the complex with albumin. The introduction of the ABD module into MNTs had no effect on the binding of MNT with receptors on the surface of the target cancer cells and on the preferential accumulation of MNTs in the nuclei of these cells...
January 2017: Doklady. Biochemistry and Biophysics
https://www.readbyqxmd.com/read/28421085/expression-of-arabidopsis-shn1-in-indian-mulberry-morus-indica-l-increases-leaf-surface-wax-content-and-reduces-post-harvest-water-loss
#14
R S Sajeevan, Karaba N Nataraja, K S Shivashankara, N Pallavi, D S Gurumurthy, M B Shivanna
Mulberry (Morus species) leaf is the sole food for monophagous silkworms, Bombyx mori L. Abiotic stresses such as drought, salinity, and high temperature, significantly decrease mulberry productivity and post-harvest water loss from leaves influence silkworm growth and cocoon yield. Leaf surface properties regulate direct water loss through the cuticular layer. Leaf surface waxes, contribute for cuticular resistance and protect mesophyll cells from desiccation. In this study we attempted to overexpress AtSHN1, a transcription factor associated with epicuticular wax biosynthesis to increase leaf surface wax load in mulberry...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28420731/distinct-modulatory-role-of-rna-in-the-aggregation-of-the-tumor-suppressor-protein-p53-core-domain
#15
Petar Stefanov Kovachev, Debapriya Banerjee, Luciana Pereira Rangel, Jonny Eriksson, Murilo M Pedrote, Mafalda Maria D C Martins-Dinis, Katarina Edwards, Yraima Cordeiro, Jerson L Silva, Suparna Sanyal
Inactivation of the tumor suppressor protein p53 by mutagenesis, chemical modification, protein-protein interaction or aggregation has been associated with different human cancers. Although DNA is the typical substrate of p53, numerous studies have reported p53 interactions with RNA. Here, we have examined the effects of RNA of varied sequence, length and origin on the mechanism of aggregation of the core domain of p53 (p53C) using light scattering, intrinsic fluorescence, transmission electron microscopy, thioflavin-T binding, seeding and immunoblot assays...
April 18, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28419469/the-endoplasmic-reticulum-associated-protein-os-9-behaves-as-a-lectin-in-targeting-the-immature-calcium-sensing-receptor
#16
Bryan K Ward, Sarah L Rea, Aaron L Magno, Bernadette Pedersen, Suzanne J Brown, Shelby Mullin, Ajanthy Arulpragasam, Evan Ingley, Arthur D Conigrave, Thomas Ratajczak
The mechanisms responsible for the processing and quality control of the calcium-sensing receptor (CaSR) in the endoplasmic reticulum (ER) are largely unknown. In a yeast two-hybrid screen of the CaSR C-terminal tail (residues 865 -1078), we identified osteosarcoma-9 (OS-9) protein as a binding partner. OS-9 is an ER-resident lectin that targets misfolded glycoproteins to the ER-associated degradation (ERAD) pathway through recognition of specific N-glycans by its mannose-6-phosphate receptor homology (MRH) domain...
April 17, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/28415180/reversals-and-collisions-optimize-protein-exchange-in-bacterial-swarms
#17
Aboutaleb Amiri, Cameron Harvey, Amy Buchmann, Scott Christley, Joshua D Shrout, Igor S Aranson, Mark Alber
Swarming groups of bacteria coordinate their behavior by self-organizing as a population to move over surfaces in search of nutrients and optimal niches for colonization. Many open questions remain about the cues used by swarming bacteria to achieve this self-organization. While chemical cue signaling known as quorum sensing is well-described, swarming bacteria often act and coordinate on time scales that could not be achieved via these extracellular quorum sensing cues. Here, cell-cell contact-dependent protein exchange is explored as a mechanism of intercellular signaling for the bacterium Myxococcus xanthus...
March 2017: Physical Review. E
https://www.readbyqxmd.com/read/28414767/the-fungal-natural-product-azaphilone-9-binds-to-hur-and-inhibits-hur-rna-interaction-in-vitro
#18
Kawaljit Kaur, Xiaoqing Wu, James K Fields, David K Johnson, Lan Lan, Miranda Pratt, Amber D Somoza, Clay C C Wang, John Karanicolas, Berl R Oakley, Liang Xu, Roberto N De Guzman
The RNA-binding protein Hu antigen R (HuR) binds to AU-rich elements (ARE) in the 3'-untranslated region (UTR) of target mRNAs. The HuR-ARE interactions stabilize many oncogenic mRNAs that play important roles in tumorigenesis. Thus, small molecules that interfere with the HuR-ARE interaction could potentially inhibit cancer cell growth and progression. Using a fluorescence polarization (FP) competition assay, we identified the compound azaphilone-9 (AZA-9) derived from the fungal natural product asperbenzaldehyde, binds to HuR and inhibits HuR-ARE interaction (IC50 ~1...
2017: PloS One
https://www.readbyqxmd.com/read/28410804/neutron-reflectivity-measurement-of-protein-a-antibody-complex-at-the-solid-liquid-interface
#19
Alice R Mazzer, Luke A Clifton, Tatiana Perevozchikova, Paul D Butler, Christopher J Roberts, Daniel G Bracewell
Chromatography is a ubiquitous unit operation in the purification of biopharmaceuticals yet few studies have addressed the biophysical characterisation of proteins at the solution-resin interface. Chromatography and other adsorption and desorption processes have been shown to induce protein aggregation which is undesirable in biopharmaceutical products. In order to advance understanding of how adsorption processes might impact protein stability, neutron reflectivity was used to characterise the structure of adsorbed immunoglobulin G (IgG) on model surfaces...
April 1, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28409291/laser-sintered-porous-ti-6al-4v-implants-stimulate-vertical-bone-growth
#20
Alice Cheng, David J Cohen, Adrian Kahn, Ryan M Clohessy, Kaan Sahingur, Joseph B Newton, Sharon L Hyzy, Barbara D Boyan, Zvi Schwartz
The objective of this study was to examine the ability of 3D implants with trabecular-bone-inspired porosity and micro-/nano-rough surfaces to enhance vertical bone ingrowth. Porous Ti-6Al-4V constructs were fabricated via laser-sintering and processed to obtain micro-/nano-rough surfaces. Male and female human osteoblasts were seeded on constructs to analyze cell morphology and response. Implants were then placed on rat calvaria for 10 weeks to assess vertical bone ingrowth, mechanical stability and osseointegration...
April 13, 2017: Annals of Biomedical Engineering
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