204,069 results match your criteria molecular functions

A DFT study of the double (3 + 2) cycloaddition of nitrile oxides and allenoates for the formation of spirobiisoxazolines.

J Mol Graph Model 2021 Sep 12;109:108033. Epub 2021 Sep 12.

Theoretical and Computational Chemistry Laboratory, Department of Chemistry, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana. Electronic address:

The molecular mechanism of the double (3 + 2) cycloaddition (32CA) reaction between nitrile oxides and allenoates has been studied using density functional theory at the M06-2X/6-311G (d,p) level of theory. In the first 32CA, the nitrile oxide adds chemo- and regio-selectively to the C-C double bond of the allenoate closest to the carboxylate group followed by a subsequent regioselective addition to the olefinic bond of the isoxazoline intermediate. The rate constant for the preferred pathway (formation of 4-methylene-2-isoxazoline intermediate) in the reaction of ethyl substituted allenoate and mesitonitrile oxide is 5. Read More

View Article and Full-Text PDF
September 2021

Extra Chromosomal DNA in different cancers: individual genome with important biological functions.

Crit Rev Oncol Hematol 2021 Sep 14:103477. Epub 2021 Sep 14.

Biochemistry Department, Guilan University of Medical Sciences, Rasht, Iran. Electronic address:

Cancer can be caused by various factors, including the malfunction of tumor suppressor genes and the hyper-activation of proto-oncogenes. Tumor-associated extrachromosomal circular DNA (eccDNA) has been shown to adversely affect human health and accelerate malignant actions. Whole-genome sequencing (WGS) on different cancer types suggested that the amplification of ecDNA has increased the oncogene copy number in various cancers. Read More

View Article and Full-Text PDF
September 2021

Methods in sulfide and persulfide research.

Nitric Oxide 2021 Sep 14. Epub 2021 Sep 14.

Department of Environmental Medicine and Molecular Toxicology, Tohoku University Graduate School of Medicine, Sendai 980-8575, Japan. Electronic address:

Sulfides and persulfides/polysulfides (R-S-R', n > 2; R-S-H, n > 1) are endogenously produced metabolites that are abundant in mammalian and human cells and tissues. The most typical persulfides that are widely distributed among different organisms include various reactive persulfides-low-molecular-weight thiol compounds such as cysteine hydropersulfide, glutathione hydropersulfide, and glutathione trisulfide as well as protein-bound thiols. These species are generally more redox-active than are other simple thiols and disulfides. Read More

View Article and Full-Text PDF
September 2021

Genome-wide analysis of the MYB-related transcription factor family and associated responses to abiotic stressors in Populus.

Int J Biol Macromol 2021 Sep 14. Epub 2021 Sep 14.

Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing 100083, China; National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China. Electronic address:

MYB proteins are one of the most abundant transcription factor families in the plant kingdom. Evidence has increasingly revealed that MYB-related proteins function in diverse plant biological processes. However, little is known about the genome-wide characterization and functions of MYB-related proteins in Populus, an important model and commercial tree species. Read More

View Article and Full-Text PDF
September 2021

Involvement of RFamide neuropeptides in polyp contraction of the adult scleractinian corals Euphyllia ancora and Stylophora pistillata.

Gen Comp Endocrinol 2021 Sep 14:113905. Epub 2021 Sep 14.

Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung, Taiwan; Department of Aquaculture, National Taiwan Ocean University, Keelung, Taiwan. Electronic address:

The distribution and functions of neurons in scleractinian corals remain largely unknown. This study focused on the Arg-Phe amide family of neuropeptides (RFamides), which have been shown to be involved in a variety of biological processes in animals, and performed molecular identification and characterization in the adult scleractinian coral Euphyllia ancora. The deduced amino acid sequence of the identified RFamide preprohormone was predicted to contain 20 potential neuropeptides, including 1 Pro-Gly-Arg-Phe (PGRF) amide and 15 Gln-Gly-Arg-Phe (QGRF) amide peptides. Read More

View Article and Full-Text PDF
September 2021

Pharmacologic approaches to amino acid depletion for cancer therapy.

Mol Carcinog 2021 Sep 17. Epub 2021 Sep 17.

Division of Pharmacology and Toxicology, College of Pharmacy, The University of Texas at Austin, Austin, Texas, USA.

Cancer cells undergo metabolic reprogramming to support increased demands in bioenergetics and biosynthesis and to maintain reactive oxygen species at optimum levels. As metabolic alterations are broadly observed across many cancer types, metabolic reprogramming is considered a hallmark of cancer. A metabolic alteration commonly seen in cancer cells is an increased demand for certain amino acids. Read More

View Article and Full-Text PDF
September 2021

Crosstalk between estrogen, dendritic cells, and SARS-CoV-2 infection.

Rev Med Virol 2021 Sep 17:e2290. Epub 2021 Sep 17.

Faculty of Pharmacy-FFUC, University of Coimbra, Coimbra, Portugal.

The novel coronavirus disease 2019 (Covid-19) first appeared in Wuhan and has so far killed more than four million people worldwide. Men are more affected than women by Covid-19, but the cellular and molecular mechanisms behind these differences are largely unknown. One plausible explanation is that differences in sex hormones could partially account for this distinct prevalence in both sexes. Read More

View Article and Full-Text PDF
September 2021

Nuclear αvβ3 integrin expression, post translational modifications and regulation in hematological malignancies.

Hematol Oncol 2021 Sep 17. Epub 2021 Sep 17.

Translational Oncology Laboratory, Hematology Institute and Blood Bank, Meir Medical Center, Kfar-Saba, Israel.

αvβ3 integrin, a plasma membrane protein, is amply expressed on an array of tumors. We identified nuclear αvβ3 pool in ovarian cancer cells and were interested to explore this phenomenon in two rare and aggressive types of leukemia, T-cell acute lymphoblastic leukemia (T-ALL) and Mast cell leukemia (MCL) using Jurkat and HMC-1 cell lines, respectively. Moreover, we collected primary cells from patients with chronic lymphocytic leukemia (CLL, n = 11), the most common chronic adult leukemia and used human lymphoblastoid cell lines (LCL) generated from normal B cells. Read More

View Article and Full-Text PDF
September 2021

Common tumor-suppressive signaling of thyroid hormone receptor beta in breast and thyroid cancer cells.

Mol Carcinog 2021 Sep 17. Epub 2021 Sep 17.

Department of Pharmacology, Larner College of Medicine, University of Vermont, Burlington, Vermont, USA.

The thyroid hormone receptor beta (TRβ) is a tumor suppressor in multiple types of solid tumors, most prominently in breast and thyroid cancer. An increased understanding of the molecular mechanisms by which TRβ abrogates tumorigenesis will aid in understanding the core tumor-suppressive functions of TRβ. Here, we restored TRβ expression in the MDA-MB-468 basal-like breast cancer cell line and perform RNA-sequencing to determine the TRβ-mediated changes in gene expression and associated signaling pathways. Read More

View Article and Full-Text PDF
September 2021

Modeling Liquid Water by Climbing up Jacob's Ladder in Density Functional Theory Facilitated by Using Deep Neural Network Potentials.

J Phys Chem B 2021 Sep 17. Epub 2021 Sep 17.

Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, United States.

Within the framework of Kohn-Sham density functional theory (DFT), the ability to provide good predictions of water properties by employing a strongly constrained and appropriately normed (SCAN) functional has been extensively demonstrated in recent years. Here, we further advance the modeling of water by building a more accurate model on the fourth rung of Jacob's ladder with the hybrid functional, SCAN0. In particular, we carry out both classical and Feynman path-integral molecular dynamics calculations of water with the SCAN0 functional and the isobaric-isothermal ensemble. Read More

View Article and Full-Text PDF
September 2021

DNA polymerase zeta contributes to heterochromatin replication to prevent genome instability.

EMBO J 2021 Sep 17:e104543. Epub 2021 Sep 17.

CNRS-UMR9019, Equipe labellisée Ligue Contre le Cancer, Gustave Roussy, Paris-Saclay Université, Villejuif, France.

The DNA polymerase zeta (Polζ) plays a critical role in bypassing DNA damage. REV3L, the catalytic subunit of Polζ, is also essential in mouse embryonic development and cell proliferation for reasons that remain incompletely understood. In this study, we reveal that REV3L protein interacts with heterochromatin components including repressive histone marks and localizes in pericentromeric regions through direct interaction with HP1 dimer. Read More

View Article and Full-Text PDF
September 2021

Can bacterial type III effectors mediate pathogen-plant-microbiota ternary interactions?

Plant Cell Environ 2021 Sep 17. Epub 2021 Sep 17.

Hunan Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, China.

Gram-negative bacterial pathogens inject effector proteins into plant cells via their type III secretion system to manipulate cellular processes and promote infection. The molecular function of most type III effectors is the suppression of plant immunity. Some effectors also interfere with other host cellular pathways including hormone signaling, nutrient metabolism, gene expression and protein degradation. Read More

View Article and Full-Text PDF
September 2021

The rise of deep learning and transformations in bioactivity prediction power of molecular modeling tools.

Chem Biol Drug Des 2021 Sep 16. Epub 2021 Sep 16.

Toxicology and Diseases Group, Pharmaceutical Sciences Research Center (PSRC), The Institute of Pharmaceutical Sciences (TIPS), Tehran University of Medical Sciences, Tehran, Iran.

The search and design for the better use of bioactive compounds are used in many experiments to best mimic compounds' functions in the human body. However, finding a cost-effective and timesaving approach is a top priority in different disciplines. Nowadays, artificial intelligence (AI) and particularly deep learning (DL) methods are widely applied to improve the precision and accuracy of models used in the drug discovery process. Read More

View Article and Full-Text PDF
September 2021

Diverse midbrain dopaminergic neuron subtypes and implications for complex clinical symptoms of Parkinson's disease.

Ageing Neurodegener Dis 2021 15;1(4). Epub 2021 Jul 15.

Transgenic Section, Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD 20892, USA.

Parkinson's disease (PD), the most common degenerative movement disorder, is clinically manifested with various motor and non-motor symptoms. Degeneration of midbrain (SNc) dopaminergic neurons (DANs) is generally attributed to the motor syndrome. The underlying neuronal mechanisms of non-motor syndrome are largely unexplored. Read More

View Article and Full-Text PDF

Wheat Germ Agglutinin (WGA)-SDS-PAGE: A Novel Method for the Detection of O-GlcNAc-modified Proteins by Lectin Affinity Gel Electrophoresis.

Bio Protoc 2018 Dec 5;8(23):e3098. Epub 2018 Dec 5.

Division of Cell Signaling and Molecular Medicine, Institute of Medical Science, The University of Tokyo, Tokyo, Japan.

Diverse cytoplasmic and nuclear proteins dynamically change their molecular functions by O-linked β-N-acetylglucosamine (O-GlcNAc) modification on serine and/or threonine residues. Evaluation of the O-GlcNAcylation level of a specific protein, however, needs multiple and time-consuming steps if using conventional methods (, immune-purification, mass spectrometric analysis). To overcome this drawback, we developed the following easy and rapid method for detection of O-GlcNAcylated proteins of interest. Read More

View Article and Full-Text PDF
December 2018

An Innovative Approach to Study Pathogenicity in 6 to 7 Days Old Tomato Seedlings by Root Dip Inoculation.

Bio Protoc 2018 Nov 5;8(21):e3065. Epub 2018 Nov 5.

Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, India.

(F1C1) is a Gram-negative plant pathogenic bacterium that causes lethal wilt disease in a wide range of plant species. This pathogen is very well known for its unpredictable behavior during infection and wilting its host. Because of its mysterious infection behavior, virulence and pathogenicity standardization are still a big challenge in the case of . Read More

View Article and Full-Text PDF
November 2018

Assessing Membrane Fluidity and Visualizing Fluid Membrane Domains in Bacteria Using Fluorescent Membrane Dyes.

Bio Protoc 2018 Oct 20;8(20):e3063. Epub 2018 Oct 20.

Bacterial Cell Biology, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands.

Membrane fluidity is a key parameter of bacterial membranes that undergoes quick adaptation in response to environmental challenges and has recently emerged as an important factor in the antibacterial mechanism of membrane-targeting antibiotics. The specific level of membrane fluidity is not uniform across the bacterial cell membrane. Rather, specialized microdomains associated with different cellular functions can exhibit fluidity values that significantly deviate from the average. Read More

View Article and Full-Text PDF
October 2018

Network pharmacology study on the mechanism of Qiangzhifang in the treatment of panic disorder.

Ann Transl Med 2021 Aug;9(16):1350

Department of Psychosomatic Medicine, Affiliated Hospital of Shandong University of Traditional Chinese Medicine, Jinan, China.

Background: Panic disorder (PD) is a kind of mental illness characterized by the symptom of recurring panic attacks. Qiangzhifang (QZF) is a novel decoction developed by Professor Zhaojun Yan based on a unique system of syndrome differentiation and clinical experience. It has achieved remarkable results after long-term clinical practice, but its mechanism of action is still unclear. Read More

View Article and Full-Text PDF

Psoralidin prevents caffeine-induced damage and abnormal differentiation of bone marrow mesenchymal stem cells via the classical estrogen receptor pathway.

Ann Transl Med 2021 Aug;9(15):1245

Department of Neurosurgery, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, China.

Background: Caffeine is broadly present in tea, coffee, and cocoa, and is commonly consumed. The bone microenvironment might be damaged by excessive caffeine, which has been shown to exert negative effects on human health. In this study, we sought to determine whether excessive caffeine could damage the biological functions of bone marrow mesenchymal stem cells (BMSCs) and induce bone loss in mice, and further investigate effective therapeutic methods. Read More

View Article and Full-Text PDF

Diagnostic biomarkers and potential drug targets for coronary artery disease as revealed by systematic analysis of lncRNA characteristics.

Ann Transl Med 2021 Aug;9(15):1243

Department of Cardiology, The Eighth Affiliated Hospital of Sun Yat-sen University, Shenzhen, China.

Background: The expression profile of lncRNAs in coronary artery disease (CAD) patients has not yet been fully explored. Therefore, the current study aimed to investigate lncRNA-based prognostic biomarkers for CAD.

Methods: The expression profiles of lncRNA and messenger RNA (mRNA) were downloaded from the Gene Expression Omnibus (GEO) database. Read More

View Article and Full-Text PDF

Differential Abundance of Brain Mitochondrial Proteins in Yak and Cattle: A Proteomics-Based Study.

Front Vet Sci 2021 31;8:663031. Epub 2021 Aug 31.

Animal Science Department, Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, China.

The plateau adaptability and stress resistance of yaks are widely known based on their capacity to survive under severe habitat conditions. However, a few studies on brain mitochondria have characterized these adaptations at the protein level. We identified and quantified the brain mitochondrial proteins using isobaric tags for relative and absolute quantification (iTRAQ) and Proteomics. Read More

View Article and Full-Text PDF

The Role of Polyphenols in Regulation of Heat Shock Proteins and Gut Microbiota in Weaning Stress.

Oxid Med Cell Longev 2021 6;2021:6676444. Epub 2021 Sep 6.

Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, 410125 Hunan, China.

Gut microbiota is the natural residents of the intestinal ecosystem which display multiple functions that provide beneficial effects on host physiology. Disturbances in gut microbiota in weaning stress are regulated by the immune system and oxidative stress-related protein pathways. Weaning stress also alters gut microbiota response, limits digestibility, and influences animal productive performance through the production of inflammatory molecules. Read More

View Article and Full-Text PDF
September 2021

Revealing the Angiopathy of Lacrimal Gland Lesion in Type 2 Diabetes.

Front Physiol 2021 31;12:731234. Epub 2021 Aug 31.

Qingdao Eye Hospital of Shandong First Medical University, Qingdao, China.

For a better understanding of diabetic angiopathy (DA), the potential biomarkers in lacrimal DA and its potential mechanism, we evaluated the morphological and hemodynamic alterations of lacrimal glands (LGs) in patients with type 2 diabetes and healthy counterparts by color Doppler flow imaging (CDFI). We further established a type 2 diabetic mice model and performed hematoxylin-eosin (HE) staining, immunofluorescence staining of CD31, RNA-sequencing analysis, and connectivity map (CMap) analysis. We found atrophy and ischemia in patients with type 2 diabetes and mice models. Read More

View Article and Full-Text PDF

Glucose Metabolism Reprogramming of Regulatory T Cells in Concanavalin A-Induced Hepatitis.

Front Pharmacol 2021 31;12:726128. Epub 2021 Aug 31.

Department of Gastroenterology and Hepatology, Sichuan University-University of Oxford Huaxi Joint Centre for Gastrointestinal Cancer, Frontiers Science Center for Disease-Related Molecular Network, West China Hospital, Sichuan University, Chengdu, China.

Autoimmune hepatitis (AIH) is an inflammatory liver disease caused by a dysregulated immune response. Although the pathogenesis of AIH remains unclear, impaired regulatory T cells (Tregs) have been considered a driver of AIH development. Unlike autoreactive T cells, Tregs mainly utilize oxidative phosphorylation (OXPHOS) as their energy supply. Read More

View Article and Full-Text PDF

CircPTCH1 Promotes Migration in Lung Cancer by Regulating MYCN Expression Through miR-34c-5p.

Onco Targets Ther 2021 10;14:4779-4789. Epub 2021 Sep 10.

Pulmonology and Critical Care Medicine Department, The Third Xiangya Hospital of Central South University, Changsha, 410013, People's Republic of China.

Background: The incidence rate and mortality rate of lung cancer are the highest in the world. Therefore, further studies are needed to reveal the molecular mechanism of lung cancer progression and development. Previous study demonstrated that the deregulation of circRNAs can regulate cell biological functions in tumorigenesis and development. Read More

View Article and Full-Text PDF
September 2021

TFF-1 Functions to Suppress Multiple Phenotypes Associated with Lung Cancer Progression.

Onco Targets Ther 2021 10;14:4761-4777. Epub 2021 Sep 10.

Department of Thoracic Surgery, Saitama Medical Center, Jichi Medical University, Saitama, Japan.

Introduction: Trefoil Factor (TFF) is a member of a protein family comprised of three isoforms, of which TFF-1 exhibits antithetical functions; promotion or suppression of cell proliferation, survival and invasion, depending on the cancer type. However, the pathobiological function of TFF-1 in lung carcinoma has been still unclear.

Methods: We examined the expression and secretion of TFF-1 using cultured human lung carcinoma cells by immunoblotting, immunofluorescence, enzyme-linked immunosorbent assay and quantitative real-time PCR analyses. Read More

View Article and Full-Text PDF
September 2021

Control of membrane protein homeostasis by a chaperone-like glial cell adhesion molecule at multiple subcellular locations.

Sci Rep 2021 Sep 16;11(1):18435. Epub 2021 Sep 16.

Department of Molecular and Biomedical Sciences, University of Adelaide, 5005 North Terrace, Adelaide, SA, Australia.

The significance of crosstalks among constituents of plasma membrane protein clusters/complexes in cellular proteostasis and protein quality control (PQC) remains incompletely understood. Examining the glial (enriched) cell adhesion molecule (CAM), we demonstrate its chaperone-like role in the biosynthetic processing of the megalencephalic leukoencephalopathy with subcortical cyst 1 (MLC1)-heteromeric regulatory membrane protein complex, as well as the function of the GlialCAM/MLC1 signalling complex. We show that in the absence of GlialCAM, newly synthesized MLC1 molecules remain unfolded and are susceptible to polyubiquitination-dependent proteasomal degradation at the endoplasmic reticulum. Read More

View Article and Full-Text PDF
September 2021

Oxidative stress-induced impairment of trophoblast function causes preeclampsia through the unfolded protein response pathway.

Sci Rep 2021 Sep 16;11(1):18415. Epub 2021 Sep 16.

Department of Biochemistry, All India Institute of Medical Sciences, New Delhi, India.

Pre-eclampsia (PE) is a pregnancy-specific disorder, characterized by hypertension and proteinuria. In PE, trophoblasts mediated inadequate remodeling of uterine spiral arteries seem to interrupt uteroplacental blood flow, one of the hallmarks in the early onset of PE (EO-PE). This, in turn, results in placental ischemia-reperfusion injury during hypoxia and reoxygenation episodes, leading to the generation of reactive oxygen species (ROS) and oxidative stress (OS). Read More

View Article and Full-Text PDF
September 2021

Hecw controls oogenesis and neuronal homeostasis by promoting the liquid state of ribonucleoprotein particles.

Nat Commun 2021 Sep 16;12(1):5488. Epub 2021 Sep 16.

IFOM, Fondazione Istituto FIRC di Oncologia Molecolare, Milan, Italy.

Specialised ribonucleoprotein (RNP) granules are a hallmark of polarized cells, like neurons and germ cells. Among their main functions is the spatial and temporal modulation of the activity of specific mRNA transcripts that allow specification of primary embryonic axes. While RNPs composition and role are well established, their regulation is poorly defined. Read More

View Article and Full-Text PDF
September 2021

Bicc1 and Dicer regulate left-right patterning through post-transcriptional control of the Nodal inhibitor Dand5.

Nat Commun 2021 Sep 16;12(1):5482. Epub 2021 Sep 16.

University of Hohenheim, Institute of Biology, Department of Zoology, Stuttgart, Germany.

Rotating cilia at the vertebrate left-right organizer (LRO) generate an asymmetric leftward flow, which is sensed by cells at the left LRO margin. Ciliary activity of the calcium channel Pkd2 is crucial for flow sensing. How this flow signal is further processed and relayed to the laterality-determining Nodal cascade in the left lateral plate mesoderm (LPM) is largely unknown. Read More

View Article and Full-Text PDF
September 2021