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Protein complex

Konstantina Katsarou, Eleni Mitta, Eirini Bardani, Anastasis Oulas, Elena Dadami, Kriton Kalantidis
RNA silencing is a universal mechanism involved in development, epigenetic modifications and responses against biotic (viruses-viroids) and abiotic stresses. The major components of this mechanism are Dicer-like (DCL), Argonaute (AGO) and RNA-dependent RNA polymerase (RDR) proteins. Understanding the role of each component is of great scientific and agronomic importance. Plants including Nicotiana benthamiana, an important plant model, have usually four DCL proteins, each of which has a specific role namely, being responsible for the production of an exclusive small RNA population...
October 21, 2018: Molecular Plant Pathology
Dixit Sharma, Ankita Sharma, Shailender Kumar Verma, Birbal Singh
Orientia tsutsugamushi (Ott) is a causative agent of chigger-borne zoonosis, scrub typhus which is life threatening and highly pervasive illness in humans. In this report, we have mined and classified the proteins involved in pathways unique to Ott by using high-throughput computational techniques. The 12 metabolic pathways were found to be unique to the pathogen. Forty-six proteins were reported to be essential for the pathogen's survival and non-homologous to the humans. The proteins were categorized into different classes, ie, enzymes, transporters, DNA-binding, secretory, and outer membrane proteins...
October 21, 2018: Journal of Molecular Recognition: JMR
Nagwa A Meguid, Hatem Samir, Geir Bjørklund, Mona Anwar, Adel Hashish, Farouk Koura, Salvatore Chirumbolo, Saher Hashem, Mona A El-Bana, Hebatalla S Hashem
Mesial temporal lobe epilepsy (MTLE) associated with hippocampal sclerosis (HS) is the most common form of partial epilepsy. The aim of the present study is to highlight possible and suitable biomarkers that can help in the diagnosis and prognosis of this intractable form of epilepsy. The study was carried out on 30 epileptic patients of both sexes with complex partial seizures, having an age ranging from 4 to 30 years and were selected from the outpatient epilepsy clinic at the Kasr El-Aini Hospital in Cairo, Egypt...
October 20, 2018: Journal of Molecular Neuroscience: MN
Lydie Debaize, Marie-Bérengère Troadec
The human Far Upstream Element (FUSE) Binding Protein 1 (FUBP1) is a multifunctional DNA- and RNA-binding protein involved in diverse cellular processes. FUBP1 is a master regulator of transcription, translation, and RNA splicing. FUBP1 has been identified as a potent pro-proliferative and anti-apoptotic factor by modulation of complex networks. FUBP1 is also described either as an oncoprotein or a tumor suppressor. Especially, FUBP1 overexpression is observed in a growing number of cancer and leads to a deregulation of targets that includes the fine-tuned MYC oncogene...
October 20, 2018: Cellular and Molecular Life Sciences: CMLS
Joon Seok Park, Ji Hyung Kim
The immune network controls homeostasis and inflammation of the skin. Immune cells use their antigen receptors to respond to a wide range of insults originating from microbes and allergens. T cells, which are key effector cells in the immune system, engage their T cell receptors (TCRs) to recognize self and foreign antigens in the context of classical major histocompatibility complex (MHC) molecules, MHC-like CD1 proteins, or MHC class I-related molecules. Recently, increasing evidence has demonstrated that T cells activated by non-canonical antigens are important in skin diseases...
October 18, 2018: Molecular Immunology
Jingyi Zhang, Pengwei Ren, Da Xu, Xiaofeng Liu, Zhenzhen Liu, Chunfeng Zhang, Yuan Li, Lijun Wang, Xiaojuan Du, Baocai Xing
Nucleolar protein hUTP14a is required for 18S rRNA processing and promotes p53 degradation. Here, we report that hUTP14a stabilizes c-Myc in colorectal cancer (CRC) progression. Firstly, nucleolar hUTP14a is upregulated in human CRC tissues. Mass spectrometry analysis identified c-Myc and its deubiquitinase ubiquitin-specific protease 36 (USP36) in the hUTP14a-specific complex. Importantly, hUTP14a interacts with c-Myc and protects c-Myc from ubiquitination and degradation in a USP36-dependent way. We further demonstrate that hUTP14a forms a complex with USP36/Fbw7γ to inhibit Fbw7γ-mediated c-Myc degradation...
October 18, 2018: Cancer Letters
Ruijie K Zhang, Xiongyi Huang, Frances H Arnold
CH functionalization is an attractive strategy to construct and diversify molecules. Heme proteins, predominantly cytochromes P450, are responsible for an array of CH oxidations in biology. Recent work has coupled concepts from synthetic chemistry, computation, and natural product biosynthesis to engineer heme protein systems to deliver products with tailored oxidation patterns. Heme protein catalysis has been shown to go well beyond these native reactions and now accesses new-to-nature CH transformations, including CN and CC bond forming processes...
October 18, 2018: Current Opinion in Chemical Biology
Ewa Leśniewska, Małgorzata Cieśla, Magdalena Boguta
Respiratory growth and various stress conditions repress RNA polymerase III (Pol III) transcription in Saccharomyces cerevisiae. Here we report a degradation of the largest Pol III catalytic subunit, C160 as a consequence of Pol III transcription repression. We observed C160 degradation in response to transfer of yeast from fermentation to respiration conditions, as well as treatment with rapamycin or inhibition of nucleotide biosynthesis. We also detected a ubiquitylated forms of C160 and demonstrated that C160 protein degradation is dependent on proteasome activity...
October 18, 2018: Biochimica et biophysica acta. Gene regulatory mechanisms
Norma Serrano-García, Francisca Fernández-Valverde, Erika Rubi Luis-Garcia, Leticia Granados-Rojas, Tarsila Elizabeth Juárez-Zepeda, Sandra Adela Orozco-Suárez, José Pedraza-Chaverri, Marisol Orozco-Ibarra, Anabel Jiménez-Anguiano
Rotenone, a classic mitochondrial complex I inhibitor, leads to dopaminergic neuronal death resulting in a Parkinson's-like-disease. Docosahexaenoic acid (DHA) has shown neuroprotective effects in other experimental models of Parkinson's disease, but its effect on the rotenone-induced parkinsonism is still unknown. We tested whether DHA in vivo exerts a neuroprotective effect on rotenone-induced parkinsonism and explored the mechanisms involved, including mitochondrial function and ultrastructure as well as the expression of tubulin and synaptophysin...
October 18, 2018: Neurochemistry International
Mateen A Khan, Dixie J Goss
Viral protein linked to the genome (VPg) of turnip mosaic virus (TuMV) interacts with eIF4F and plays an important role in cap-independent initiation of protein synthesis. In order to understand the importance of PABP on the interaction of eIF4F with VPg, we report that PABP enhanced the binding affinity ~3- and 4-fold for eIF4F-VPg and eIF4F·eIF4B-VPg, respectively. PABP enhances rates of protein synthesis in uncapped viral mRNA and correlates with binding affinity of eIF4F with VPg. Temperature dependent (278 K to 298 K) showed ~3-fold increase in eIF4F binding to VPg in presence of PABP and eIF4B...
October 18, 2018: International Journal of Biological Macromolecules
Htoo Zarni Oo, Roland Seiler, Peter C Black, Mads Daugaard
Over the past decade, genomic and transcriptomic analyses have uncovered promising tumor antigens including immunotherapeutic targets in bladder cancer (BCa). Conventional tumor antigens are proteins expressed on the plasma membrane of tumor cells such as EGFR, FGFR3, and ERBB2 in BCa, which can be targeted by antibodies or similar epitope-specific binding reagents. The cellular proteome consists of ∼100,000 proteins but the expression of these proteins is rarely unique to tumor cells. Many tumor-associated proteins are post-translationally modified with phosphorylation, glycosylation, ubiquitination, or SUMOylation moieties...
October 17, 2018: Urologic Oncology
J Morin, K Simon, F Chadelaud, D Delarbre, A Druelle, J-E Blatteau
BACKGROUND: Capillary leak syndrome is a rare type of decompression sickness (DCS) that may be responsible for hypovolemic shock with edema. CLINICAL CASE: A 21-year-old amateur diver suffered from an inner ear DCS following air diving to 96msw. He presented subsequent deterioration with hypovolemia and facial edema secondary to capillary leak syndrome. DISCUSSION: In DCS, bubbles formation alters the wall of blood vessels and activates complex biochemical mechanisms inducing extravascular protein leakage...
October 17, 2018: La Revue de Médecine Interne
Kathryn P Wall, Loren E Hough
In-cell NMR spectroscopy is a powerful tool to determine the properties of proteins and nucleic acids within living cells. In-cell NMR can give site-specific measurements of interactions, modifications, and dynamics as well as their modulation by the cellular environment. In-cell NMR requires selective incorporation of heavy isotopes into a protein of interest, either through the introduction of exogenously produced protein to a cell's interior or the selective overexpression of a protein. We developed conditions to allow the use of Saccharomyces cerevisiae, which was chosen because of its genetic tractability, as a eukaryotic expression system for in-cell NMR...
September 26, 2018: Biophysical Journal
Martina Faraldi, Marta Gomarasca, Giuseppe Banfi, Giovanni Lombardi
Circulating molecules that are released into the circulation in response to specific stimuli are considered potential biomarkers for physiological or pathological processes. Their effective usefulness as biomarkers resides in their stability and high availability in all the biological fluids, combined with the limited invasiveness of intervention. Among the circulating molecules, miRNAs represent a novel class of biomarkers as they possess all the required characteristics such as sensitivity, predictivity, specificity, robustness, translatability, and noninvasiveness...
2018: Advances in Clinical Chemistry
T Conrad, O Kniemeyer, S G Henkel, T Krüger, D J Mattern, V Valiante, R Guthke, I D Jacobsen, A A Brakhage, S Vlaic, J Linde
BACKGROUND: Omics data provide deep insights into overall biological processes of organisms. However, integration of data from different molecular levels such as transcriptomics and proteomics, still remains challenging. Analyzing lists of differentially abundant molecules from diverse molecular levels often results in a small overlap mainly due to different regulatory mechanisms, temporal scales, and/or inherent properties of measurement methods. Module-detecting algorithms identifying sets of closely related proteins from protein-protein interaction networks (PPINs) are promising approaches for a better data integration...
October 20, 2018: BMC Systems Biology
Andreas Bittracher, Ralf Banisch, Christof Schütte
The identification of meaningful reaction coordinates plays a key role in the study of complex molecular systems whose essential dynamics are characterized by rare or slow transition events. In a recent publication, precise defining characteristics of such reaction coordinates were identified and linked to the existence of a so-called transition manifold. This theory gives rise to a novel numerical method for the pointwise computation of reaction coordinates that relies on short parallel MD simulations only, but yields accurate approximation of the long time behavior of the system under consideration...
October 21, 2018: Journal of Chemical Physics
Lingfeng Chen, Hongjin Chen, Pengqin Chen, Wenxin Zhang, Chao Wu, Chuchu Sun, Wu Luo, Lulu Zheng, Zhiguo Liu, Guang Liang
Myeloid differentiation primary response protein 88 (MyD88), an essential adapter protein used by toll-like receptors (TLR), is a promising target molecule for the treatment of respiratory inflammatory diseases. Previous studies explored the activities of novel 2-amino-4-phenylthiazole analogue (6) in inflammation-induced cancer, and identified the analogue as an inhibitor of MyD88 toll/interleukin-1 receptor (TIR) homology domain dimerization. Here, we describe the synthesis of 47 new analogues by modifying different sites on this lead compound and assessed their anti-inflammatory activities in lipopolysaccharide-induced mouse primary peritoneal macrophages (MPMs)...
October 12, 2018: European Journal of Medicinal Chemistry
Wen-Peng Zhao, Hong-Wei Wang, Jing Liu, Zi-Hao Zhang, Shi-Quan Zhu, Bian-Hua Zhou
Excessive fluoride intake has a strong female reproductive toxicity, which can result in follicular developmental dysplasia and decrease oocytes developmental potential. The underlying mechanisms of fluoride-induced mitochondrial dysfunction in ovarian granulosa cells remain largely unknown. In this study, the ultrastructure changes of mitochondria and DNA damage in ovarian granulosa cells were observed under transmission electron microscope and TUNEL staining. Then, the ATP content and ROS level in granulosa cells were measured...
October 8, 2018: Chemosphere
Luiza de Carvalho Bertozo, Eric Allison Philot, Angélica Nakagawa Lima, Pedro Túlio de Resende Lara, Ana Lígia Scott, Valdecir Farias Ximenes
Due to the high sensitivity to alterations in microenvironment polarity of macromolecules, pyrene and its derivatives have long been applied in biosciences. Human serum albumin (HSA), besides its numerous physiological functions, is the main responsible by transport of endogenous and exogenous compounds in the circulatory system. Here, a comprehensive study was carry out to understand the interaction between HSA and the pyrene derivative 1-pyrenesulfonic acid (PMS), which showed a singular behaviour when bound to this protein...
October 12, 2018: Spectrochimica Acta. Part A, Molecular and Biomolecular Spectroscopy
Yan Wang, Robert J Geraghty
Human cytomegalovirus (HCMV) packages its viral genome using a multi-protein complex often called the terminase complex. The terminase complex promotes the packaging of a single copy of the double-stranded viral DNA genome by cleaving concatemeric genomic DNA during particle assembly. The endonuclease activity necessary to cleave the viral genomic DNA derives from a terminase complex protein, pUL89. The genome cleavage step is necessary for infectious particle assembly and is therefore an interesting target for antiviral intervention...
October 17, 2018: European Journal of Pharmaceutical Sciences
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