Advances in Protein Chemistry and Structural Biology 
This is an RSS file. You can use it to subscribe to this data in your favourite RSS reader or to display this data on your own website or blog.
This is an RSS file. You can use it to subscribe to this data in your favourite RSS reader or to display this data on your own website or blog.HMGB1 Protein: A Therapeutic Target Inside and Outside the Cell
Publication date: Available online 2 December 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): I. Ugrinova, E. Pasheva High-mobility group box 1 protein (HMGB1) is a nonhistone chromosomal protein discovered more than 30 years ago. It is an abundant nuclear protein that has a dual function—in the nucleus, it binds DNA and participates in practically all DNA-dependent processes serving as an architectural factor. Outside the cell, HMGB1 plays a different role—it acts as an alarmine that activates a large number of HMGB1-“competent” cells and mediates a broad range of physiological ...
Source: Advances in Protein Chemistry and Structural Biology - December 3, 2016 Category: Biochemistry Source Type: research
Targeting Chromatin Remodeling in Inflammation and Fibrosis
We describe recent studies that have linked prolonged activation of the RelA–BRD4 pathway with the epithelial–mesenchymal transition (EMT) by inducing a core of EMT corepressors, stimulating secretion of growth factors promoting airway fibrosis. The mesenchymal state produces rewiring of the kinome and reprogramming of innate responses toward inflammation. In addition, the core regulator Zinc finger E-box homeodomain 1 (ZEB1) silences the expression of the interferon response factor 1 (IRF1), required for type III IFN expression. This epigenetic silencing is mediated by the Enhancer of Zeste 2 (EZH2) histone methyltran...
Source: Advances in Protein Chemistry and Structural Biology - December 1, 2016 Category: Biochemistry Source Type: research
Epigenetic Changes in Chronic Inflammatory Diseases
Publication date: Available online 18 October 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): O. Fogel, C. Richard-Miceli, J. Tost The number of people diagnosed with chronic inflammatory diseases has increased noteworthy in the last 40 years. Spondyloarthritis (SpA), inflammatory bowel diseases (IBD), and psoriasis are the most frequent chronic inflammatory diseases, resulting from a combination of genetic predisposition and environmental factors. Epigenetic modifications include DNA methylation, histone modifications, and small and long noncoding RNAs. They are influenced by environm...
Source: Advances in Protein Chemistry and Structural Biology - October 19, 2016 Category: Biochemistry Source Type: research
Chromatin Remodeling in Monocyte and Macrophage Activation
Publication date: Available online 18 October 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): J.L. Schultze Increasing evidence collected during the last years supports the idea that monocyte and macrophage activation is not only associated with transcriptional changes but also changes in the chromatin landscape. Moreover, the introduction of a multidimensional model of macrophage activation allows a more precise description of monocytes and macrophages under homeostatic and pathophysiological conditions. Monocytes and macrophages are masters of integrating microenvironmental signals, ther...
Source: Advances in Protein Chemistry and Structural Biology - October 19, 2016 Category: Biochemistry Source Type: research
The Role of Epigenetic Regulation in Transcriptional Memory in the Immune System
Publication date: Available online 8 October 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): A.M. Woodworth, A.F. Holloway The immune system is exquisitely poised to identify, respond to, and eradicate pathogens from the body, as well as to produce a more rapid and augmented response to a subsequent encounter with the pathogen. These cellular responses rely on the highly coordinated and rapid activation of gene expression programs as well as the ability of the cell to retain a memory of the initial gene response. It is clear that chromatin structure and epigenetic mechanisms play a cruci...
Source: Advances in Protein Chemistry and Structural Biology - October 11, 2016 Category: Biochemistry Source Type: research
Chromatin Remodeling and Plant Immunity
Publication date: Available online 28 September 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): W. Chen, Q. Zhu, Y. Liu, Q. Zhang Chromatin remodeling, an important facet of the regulation of gene expression in eukaryotes, is performed by two major types of multisubunit complexes, covalent histone- or DNA-modifying complexes, and ATP-dependent chromosome remodeling complexes. Snf2 family DNA-dependent ATPases constitute the catalytic subunits of ATP-dependent chromosome remodeling complexes, which accounts for energy supply during chromatin remodeling. Increasing evidence indicates a...
Source: Advances in Protein Chemistry and Structural Biology - September 28, 2016 Category: Biochemistry Source Type: research
A New Molecular Mechanism Underlying the Antitumor Effect of DNA Methylation Inhibitors via an Antiviral Immune Response
Publication date: Available online 23 September 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): Y. Saito, T. Nakaoka, H. Saito Chromatin remodeling mediated by DNA methylation and histone modifications play critical roles in the transcriptional regulation of protein-coding genes, noncoding RNAs such as microRNAs, and endogenous retroviruses (ERVs). Many studies have shown that aberrant DNA methylation and histone modifications are associated with the initiation and progression of various malignancies. Epigenetic silencing of tumor suppressor genes in cancer is generally mediated by DNA...
Source: Advances in Protein Chemistry and Structural Biology - September 23, 2016 Category: Biochemistry Source Type: research
Histone Acetylation and the Regulation of Major Histocompatibility Class II Gene Expression
Publication date: Available online 23 September 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): K. Suzuki, Y. Luo Major histocompatibility complex (MHC) class II molecules are essential for processing and presenting exogenous pathogen antigens to activate CD4+ T cells. Given their central role in adaptive immune responses, MHC class II genes are tightly regulated in a tissue- and activation-specific manner. The regulation of MHC class II gene expression involves various transcription factors that interact with conserved proximal cis-acting regulatory promoter elements, as well as MHC cla...
Source: Advances in Protein Chemistry and Structural Biology - September 23, 2016 Category: Biochemistry Source Type: research
Mechanisms of Chromatin Remodeling and Repurposing During Extracellular Translocation
Publication date: Available online 23 September 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): D.S. Pisetsky Chromatin is a highly conserved molecular structure that provides genetic information to regulate cell function. Comprised of DNA, histones and interacting proteins, chromatin is inherently dynamic and subject to remodeling. While usually conceptualized as an intranuclear event, remodeling can also involve extracellular movement. Indeed, chromatin can translocate entirely from the inside to the outside of the cell during cell death processes that include apoptosis, necrosis, and NE...
Source: Advances in Protein Chemistry and Structural Biology - September 23, 2016 Category: Biochemistry Source Type: research
Regulation of Cellular Immune Responses in Sepsis by Histone Modifications
Publication date: Available online 21 September 2016 Source:Advances in Protein Chemistry and Structural Biology Author(s): W.F. Carson, S.L. Kunkel Severe sepsis, septic shock, and related inflammatory syndromes are driven by the aberrant expression of proinflammatory mediators by immune cells. During the acute phase of sepsis, overexpression of chemokines and cytokines drives physiological stress leading to organ failure and mortality. Following recovery from sepsis, the immune system exhibits profound immunosuppression, evidenced by an inability to produce the same proinflammatory mediators that are required for...
Source: Advances in Protein Chemistry and Structural Biology - September 21, 2016 Category: Biochemistry Source Type: research
Chapter Six Understanding the Multifaceted Role of Human Down Syndrome Kinase DYRK1A
Publication date: 2016 Source:Advances in Protein Chemistry and Structural Biology, Volume 105 Author(s): L.J. Kay, T.K. Smulders-Srinivasan, M. Soundararajan The dual-specificity tyrosine (Y) phosphorylation-regulated kinase DYRK1A, also known as Down syndrome (DS) kinase, is a dosage-dependent signaling kinase that was originally shown to be highly expressed in DS patients as a consequence of trisomy 21. Although this was evident some time ago, it is only in recent investigations that the molecular roles of DYRK1A in a wide range of cellular processes are becoming increasingly apparent. Since initial knowledge ...
Source: Advances in Protein Chemistry and Structural Biology - August 25, 2016 Category: Biochemistry Source Type: research
Chapter Five Cytochromes P450
Publication date: 2016 Source:Advances in Protein Chemistry and Structural Biology, Volume 105 Author(s): D.J. Cook, J.D. Finnigan, K. Cook, G.W. Black, S.J. Charnock Cytochromes P450, a family of heme-containing monooxygenases that catalyze a diverse range of oxidative reactions, are so-called due to their maximum absorbance at 450nm, ie, “Pigment–450nm,” when bound to carbon monoxide. They have appeal both academically and commercially due to their high degree of regio- and stereoselectivity, for example, in the area of active pharmaceutical ingredient synthesis. Despite this potential, they often exh...
Source: Advances in Protein Chemistry and Structural Biology - August 25, 2016 Category: Biochemistry Source Type: research
Chapter Four Dynamic Reorganization and Enzymatic Remodeling of Type IV Collagen at Cell –Biomaterial Interface
Publication date: 2016 Source:Advances in Protein Chemistry and Structural Biology, Volume 105 Author(s): N.M. Coelho, V. Llopis-Hernández, M. Salmerón-Sánchez, G. Altankov Vascular basement membrane remodeling involves assembly and degradation of its main constituents, type IV collagen (Col IV) and laminin, which is critical during development, angiogenesis, and tissue repair. Remodeling can also occur at cell–biomaterials interface altering significantly the biocompatibility of implants. Here we describe the fate of adsorbed Col IV in contact with endothelial cells adhering on positively charged NH2 or h...
Source: Advances in Protein Chemistry and Structural Biology - August 25, 2016 Category: Biochemistry Source Type: research
Chapter Three Structural Plasticity in Globins
Publication date: 2016 Source:Advances in Protein Chemistry and Structural Biology, Volume 105 Author(s): C. Estarellas, L. Capece, C. Seira, A. Bidon-Chanal, D.A. Estrin, F.J. Luque Globins are a family of proteins characterized by the presence of the heme prosthetic group and involved in variety of biological functions in the cell. Due to their biological relevance and widespread distribution in all kingdoms of life, intense research efforts have been devoted to disclosing the relationships between structural features, protein dynamics, and function. Particular attention has been paid to the impact of dif...
Source: Advances in Protein Chemistry and Structural Biology - August 25, 2016 Category: Biochemistry Source Type: research
Chapter Two Recent Advances in Computational Models for the Study of Protein –Peptide Interactions
Publication date: 2016 Source:Advances in Protein Chemistry and Structural Biology, Volume 105 Author(s): D. Kilburg, E. Gallicchio We review computational models and software tools in current use for the study of protein–peptide interactions. Peptides and peptide derivatives are growing in interest as therapeutic agents to target protein–protein interactions. Protein–protein interactions are pervasive in biological systems and are responsible for the regulation of critical functions within the cell. Mutations or dysregulation of expression can alter the network of interactions among proteins and cause diseas...
Source: Advances in Protein Chemistry and Structural Biology - August 25, 2016 Category: Biochemistry Source Type: research
