Biochimica et Biophysica Acta (BBA) Proteins and Proteomics 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.

Protein surface charge effect on 3D domain swapping in cells for c-type cytochromes
Publication date: Available online 19 August 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Hongxu Yang, Masaru Yamanaka, Satoshi Nagao, Kazuma Yasuhara, Naoki Shibata, Yoshiki Higuchi, Shun HirotaAbstractMany c-type cytochromes (cyts) can form domain-swapped oligomers. The positively charged Hydrogenobacter thermophilus (HT) cytochrome (cyt) c552 forms domain-swapped oligomers during expression in the Escherichia coli (E. coli) expression system, but the factors influencing the oligomerization remain unrevealed. Here, we found that the dimer of the negatively charged Shewanella viola...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 20, 2019 Category: Biochemistry Source Type: research

Bacterial amphiphiles as amyloid inducers: Effect of Rhamnolipid and Lipopolysaccharide on FapC fibrillation
Publication date: Available online 14 August 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Zahra Najarzadeh, Jannik Nedergaard Pedersen, Gunna Christiansen, Seyed Abbas Shojaosadati, Jan Skov Pedersen, Daniel E. OtzenAbstractPseudomonas species export the amyloid-forming protein FapC to strengthen bacterial biofilm. P. species also produce the biosurfactant rhamnolipid (Rhl) and its outer membrane contains lipopolysaccharide (LPS). Given the possible contacts between FapC, Rhl and LPS, we here investigate how Rhl and LPS affect FapC fibrillation compared with SDS, known to promote fibr...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 15, 2019 Category: Biochemistry Source Type: research

Tailoring of microbes for the production of high value plant-derived compounds: From pathway engineering to fermentative production
Publication date: Available online 9 August 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Aravind Madhavan, Arun Karthika Bahuleyan, Raveendran Sindhu, Parameswaran Binod, Sang Hyoun Kim, Ashok PandeyAbstractPlant natural products have been an attracting platform for the isolation of various active drugs and other bioactives. However large-scale extraction of these compounds is affected by the difficulty in mass cultivation of these plants and absence of strategies for successful extraction. Even though, synthesis by chemical method is an alternative method; it is less efficient as the...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 10, 2019 Category: Biochemistry Source Type: research

Engineering lipases for temperature adaptation: Structure function correlation
Publication date: Available online 8 August 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Rakesh Kumar, Shelly Goomber, Jagdeep KaurAbstractBacillus lipases are industrially attractive enzymes due to their broad substrate specificity and optimum alkaline pH. However, narrow temperature range of action and low thermostability restrain their optimal use and thus, necessitate attention. Several laboratories are engaged in protein engineering of Bacillus lipases to generate variants with improved attributes for decades using techniques such as directed evolution or rational design. This re...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 10, 2019 Category: Biochemistry Source Type: research

Application of native mass spectrometry in studying intrinsically disordered proteins: A special focus on neurodegenerative diseases
Publication date: Available online 2 August 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Gopa MitraAbstractIntrinsically disordered proteins (IDPs) are integral part of the proteome, regulating vital biological processes. Such proteins gained further visibility due to their key role in neurodegenerative diseases and cancer. IDPs however, escape structural characterization by traditional biophysical tools owing to their extreme flexibility and heterogeneity. In this review, we discuss the advantages of native mass spectrometry (MS) in analysing the atypical conformational dynamics of I...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 3, 2019 Category: Biochemistry Source Type: research

Novel applications of modification of thiol enzymes and redox-regulated proteins using S-methyl methanethiosulfonate (MMTS)
In this study we report examples of MMTS application in experiments involving oxidoreductase (glyceraldehyde-3-phosphate dehydrogenase, GAPDH), redox-regulated protein (recoverin) and cysteine protease (triticain-α). We demonstrate that on the one hand MMTS can modify functional cysteines in the thiol enzyme GAPDH, thereby preventing thiol oxidation and reversibly inhibiting the enzyme, while on the other hand it can protect the redox-sensitive thiol group of recoverin from oxidation and such modification produces no impact on the activity of the protein. Furthermore, using the example of the papain-like enzyme triticain-...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - August 1, 2019 Category: Biochemistry Source Type: research

Blue autofluorescence in protein aggregates “lighted on” by UV induced oxidation
Publication date: Available online 29 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): A. Fricano, F. Librizzi, E. Rao, C. Alfano, V. VetriAbstractOxidation of amino acid side chains in protein structure can be induced by UV irradiation leading to critical changes in molecular structure possibly modifying protein stability and bioactivity.Here we show, by using a combination of multiple spectroscopic techniques and Fluorescence Lifetime Imaging, that UV-light exposure induces irreversible oxidation processes in Ubiquitin structure. In particular, the growth of a new autofluorescence ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 30, 2019 Category: Biochemistry Source Type: research

Solution thermodynamic approach to analyze protein stability in aqueous solutions
Publication date: Available online 25 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Osato MiyawakiAbstractProtein thermal stability was analyzed by a solution thermodynamic approach. The small energetic differences in hydrogen-bonds (HB) among amino acid residues and water molecules were proved to be amplified by the large number of HB involved to bring about the equilibrium shift from folding to unfolding of proteins. In aqueous solutions, water activity (Aw) plays a key role in protein stability. Therefore, Aw was precisely determined for various solutions and its relationship w...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 26, 2019 Category: Biochemistry Source Type: research

The molecular lifecycle of amyloid – Mechanism of assembly, mesoscopic organisation, polymorphism, suprastructures, and biological consequences
Publication date: Available online 25 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Liisa Lutter, Christopher J. Serpell, Mick F. Tuite, Wei-Feng XueAbstractThe formation of a diverse range of amyloid structures from normally soluble proteins and peptides is a hallmark of devastating human disorders as well as biological functions. The current molecular understanding of the amyloid lifecycle reveals four processes central to their growth and propagation: primary nucleation, elongation, secondary nucleation and division. However, these processes result in a wide range of cross-β p...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 26, 2019 Category: Biochemistry Source Type: research

Editorial Board
Publication date: October 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 10Author(s): (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 25, 2019 Category: Biochemistry Source Type: research

Biochemical characterization of human D-2-hydroxyglutarate dehydrogenase and two disease related variants reveals the molecular cause of D-2-hydroxyglutaric aciduria
Publication date: Available online 23 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Marina Toplak, Julia Brunner, Julia Schmidt, Peter MacherouxAbstractD-2-hydroxyglutaric aciduria is a neurometabolic disorder, characterized by the accumulation of D-2-hydroxyglutarate (D-2HG) in human mitochondria. Increased levels of D-2HG are detected in humans exhibiting point mutations in the genes encoding isocitrate dehydrogenase, citrate carrier, the electron transferring flavoprotein (ETF) and its downstream electron acceptor ETF-ubiquinone oxidoreductase or D-2-hydroxyglutarate dehydrogen...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 24, 2019 Category: Biochemistry Source Type: research

Exploring iron-binding to human frataxin and to selected Friedreich ataxia mutants by means of NMR and EPR spectroscopies
Publication date: Available online 22 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Massimo Bellanda, Lorenzo Maso, Davide Doni, Marco Bortolus, Edith De Rosa, Federica Lunardi, Arianna Alfonsi, Martín Ezequiel Noguera, Maria Georgina Herrera, Javier Santos, Donatella Carbonera, Paola CostantiniAbstractThe neurodegenerative disease Friedreich ataxia results from a deficiency of frataxin, a mitochondrial protein. Most patients have a GAA expansion in the first intron of both alleles of frataxin gene, whereas a minority of them are heterozygous for the expansion and contain a mutat...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 23, 2019 Category: Biochemistry Source Type: research

Predictive models of protease specificity based on quantitative protease-activity profiling data
Publication date: Available online 19 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Gennady G. Fedonin, Alexey Eroshkin, Piotr Cieplak, Evgenii V. Matveev, Gennady V. Ponomarev, Mikhail S. Gelfand, Boris I. Ratnikov, Marat D. KazanovAbstractBioinformatics-based prediction of protease substrates can help to elucidate regulatory proteolytic pathways that control a broad range of biological processes such as apoptosis and blood coagulation. The majority of published predictive models are position weight matrices (PWM) reflecting specificity of proteases toward target sequence. These ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 19, 2019 Category: Biochemistry Source Type: research

Dynamics of the intrinsically disordered protein NUPR1 in isolation and in its fuzzy complexes with DNA and prothymosin α
Publication date: Available online 17 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): José L. Neira, Martina Palomino-Schätzlein, Caterina Ricci, Maria Grazia Ortore, Bruno Rizzuti, Juan L. IovannaAbstractIntrinsically disordered proteins (IDPs) explore diverse conformations in their free states and, a few of them, also in their molecular complexes. This functional plasticity is essential for the function of IDPs, although their dynamics in both free and bound states is poorly understood. NUPR1 is a protumoral multifunctional IDP, activated during the acute phases of pancreatitis....
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 18, 2019 Category: Biochemistry Source Type: research

Sustainable synthesis of uridine-5′-monophosphate analogues by immobilized uracil phosphoribosyltransferase from Thermus thermophilus
Publication date: Available online 9 July 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Jon del Arco, Javier Galindo, Vicente Javier Clemente-Suárez, Amaira Corrales, Jesús Fernández-LucasAbstractNowadays enzymatic synthesis of nucleic acid derivatives is gaining momentum over traditional chemical synthetic processes. Biotransformations catalyzed by whole cells or enzymes offer an ecofriendly and efficient alternative to the traditional multistep chemical methods, avoiding the use of chemical reagents and organic solvents that are expensive and environmentally harmful. Herein we rep...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - July 10, 2019 Category: Biochemistry Source Type: research