Functional analyses of dipeptide and pentapeptide insertions on Theileria annulata enolase by site-directed mutagenesis and in silico approaches
In this study, the functional effects of these insertions on TaENO activity were analyzed by in vitro site-directed mutagenesis and in silico molecular docking analyses for the first time in the literature. In vitro results showed that, although the deletion of the pentapeptide insertion (TaENOΔEWGYC) reduced the enzyme activity slightly, the removal of the dipeptide insertion (TaENOΔEK) halted it. Also, molecular docking results revealed that the deletion of these insertions affected the substrate binding affinity of the mutant enzymes. The active site of TaENOΔEK exhibited a small decrease of substrate ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 18, 2019 Category: Biochemistry Source Type: research

The roles of Ser-36, Asp-132 and Asp-201 in the reaction of Pseudomonas fluorescens Kynureninase
Publication date: Available online 14 May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Robert S. Phillips, Mori Crocker, Richard Lin, O. Elijah Idowu, David K. McCannon, Santiago LimaAbstractKynureninase from Pseudomonas fluorescens (Pfkynase) catalyzes the pyridoxal-5′-phosphate (PLP) dependent hydrolytic cleavage of L-kynurenine to give anthranilate and L-alanine. Asp-132 and Asp-201 are located in the structure near the pyridine NH of the PLP, with Asp-201 forming a hydrogen bond. Mutation of Asp-132 to alanine and glutamate and Asp-201 to glutamate results in reduced catalyt...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 15, 2019 Category: Biochemistry Source Type: research

Kinase activity of casein kinase 1 delta (CK1δ) is modulated by protein kinase C α (PKCα) by site-specific phosphorylation within the kinase domain of CK1δ
Publication date: Available online 13 May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Zhigang Meng, Thomas Böhm, Pengfei Xu, Doris Henne-Bruns, Christian Peifer, Lydia Witt, Uwe Knippschild, Joachim BischofAbstractMembers of the casein kinase 1 (CK1) family are involved in regulation of crucial cellular pathways including chromosomal segregation, DNA repair, and apoptosis. Therefore, the activity of CK1 isoforms needs to be tightly regulated in order to avoid pathogenesis of proliferative diseases. Regulation of cellular CK1 activity is mainly mediated by (auto-)phosphorylation ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 15, 2019 Category: Biochemistry Source Type: research

α-Synuclein aggregation at low concentrations
Conclusions: The critical concentration of α-synuclein fibril growth is ~0.4 μM. Prefibrillar amyloid aggregates appear at concentrations between 0.45 and 3 μM and are an intermediate state between monomers and fibrils. Although morphologically different from fibrils, prefibrillar aggregates have similar properties to those of fibrils.General Significance: We determined the critical concentration of α-synuclein fibril growth. We showed that fibrils can grow at much lower monomer concentrations than that required for de novo fibril formation. We characterized a prefibrillar intermediate species formed ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 15, 2019 Category: Biochemistry Source Type: research

Membrane interactions of intrinsically disordered proteins: The example of alpha-synuclein
Publication date: Available online 13 May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Tapojyoti Das, David EliezerAbstractPeripheral membrane proteins associate reversibly with biological membranes that, compared to protein binding partners, are structurally labile and devoid of specific binding pockets. Membranes in different subcellular compartments vary primarily in their chemical composition and physical properties, and recognition of these features is therefore critical for allowing such proteins to engage their proper membrane targets. Intrinsically disordered proteins are well...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 15, 2019 Category: Biochemistry Source Type: research

NQO1: A target for the treatment of cancer and neurological diseases, and a model to understand loss of function disease mechanisms
Publication date: Available online 12 May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Sarah K. Beaver, Noel Mesa-Torres, Angel L. Pey, David J. TimsonAbstractNAD(P)H quinone oxidoreductase 1 (NQO1) is a multi-functional protein that catalyses the reduction of quinones (and other molecules), thus playing roles in xenobiotic detoxification and redox balance, and also has roles in stabilising apoptosis regulators such as p53. The structure and enzymology of NQO1 is well-characterised, showing a substituted enzyme mechanism in which NAD(P)H binds first and reduces an FAD cofactor in the ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 12, 2019 Category: Biochemistry Source Type: research

Single-molecule fluorescence studies of intrinsically disordered proteins and liquid phase separation
Publication date: Available online 2 May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Irem Nasir, Paulo L. Onuchic, Sergio R. Labra, Ashok A. DenizAbstractIntrinsically disordered proteins (IDPs) are ubiquitous in proteomes and serve in a range of cellular functions including signaling, regulation, transport and enzyme function. IDP misfunction and aggregation are also associated with several diseases including neurodegenerative diseases and cancer. During the past decade, single-molecule methods have become popular for detailed biophysical and structural studies of these complex prot...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - May 4, 2019 Category: Biochemistry Source Type: research

Editorial Board
Publication date: June 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 6Author(s): (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 25, 2019 Category: Biochemistry Source Type: research

Lipid-modulation of membrane insertion and refolding of the apoptotic inhibitor Bcl-xL
Publication date: Available online 18 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Victor Vasquez-Montes, Mauricio Vargas-Uribe, Nitin K. Pandey, Mykola V. Rodnin, Ralf Langen, Alexey S. LadokhinAbstractBcl-xL is a member of the Bcl-2 family of apoptotic regulators, responsible for inhibiting the permeabilization of the mitochondrial outer membrane, and a promising anti-cancer target. Bcl-xL exists in the following conformations, each believed to play a role in the inhibition of apoptosis: (a) a soluble folded conformation, (b) a membrane-anchored (by its C-terminal α8 hel...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 19, 2019 Category: Biochemistry Source Type: research

Altered dynamics may drift pathological fibrillization in membraneless organelles
Publication date: Available online 16 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): B. Tüű-Szabó, G. Hoffka, N. Duro, M. FuxreiterAbstractProtein phase transition can generate non-membrane bound cellular compartments, which can convert from liquid-like to solid-like states. While the molecular driving forces of phase separation have been largely understood, much less is known about the mechanisms of material-state conversion. We apply a recently developed algorithm to describe the weak interaction network of multivalent motifs, and simulate the effect of pathological...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 17, 2019 Category: Biochemistry Source Type: research

Mechanistic approaches to understand the prion-like propagation of aggregates of the human tau protein
Publication date: Available online 12 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Harish Kumar, Jayant B. UdgaonkarAbstractThe dynamic nature of the tau protein under physiological conditions is likely to be critical for it to perform its diverse functions inside a cell. Under some conditions, this intrinsically disordered protein assembles into pathogenic aggregates that are self-perpetuating, toxic and infectious in nature. The role of liquid-liquid phase separation in the initiation of the aggregation reaction remains to be delineated. Depending on the nature of the aggregat...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 13, 2019 Category: Biochemistry Source Type: research

Analysis of the pathogenic I326T variant of human tRNA nucleotidyltransferase reveals reduced catalytic activity and thermal stability in vitro linked to a conformational change
Publication date: Available online 5 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): M. Leibovitch, N.E. Reid, J. Victoria, P.J. Hanic-Joyce, P.B.M. JoyceAbstractThe I326T mutation in the TRNT1 gene encoding human tRNA nucleotidyltransferase (tRNA-NT) is linked to a relatively mild form of SIFD. Previous work indicated that the I326T variant was unable to incorporate AMP into tRNAs in vitro, however, expression of the mutant allele from a strong heterologous promoter supported in vivo CCA addition to both cytosolic and mitochondrial tRNAs in a yeast strain lacking tRNA-NT. To addre...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 7, 2019 Category: Biochemistry Source Type: research

Inhibition of human 3-hydroxy-3-methylglutaryl CoA reductase by peptides leading to cholesterol homeostasis through SREBP2 pathway in HepG2 cells
Publication date: Available online 4 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Varun Kumar, P. Sharma, H.R. Bairagya, S. Sharma, T.P. Singh, Purnima Kaul TikuAbstractIn mammalian cells, human 3-hydroxy-3-methylglutaryl coenzyme A reductase (HMGCR), a rate-limiting endoplasmic reticulum (ER) bonded enzyme, plays a central role in the cholesterol homeostasis via the negative feedback mechanism. The present study indicates that the interactions of novel peptides with the catalytic domain of HMGCR, provides an alternative therapeutic candidate for reducing cholesterol. The potent...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 5, 2019 Category: Biochemistry Source Type: research

Characterization of a novel cytochrome cGJ as the electron acceptor of XoxF-MDH in the thermoacidophilic methanotroph Methylacidiphilum fumariolicum SolV
Publication date: Available online 4 April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Wouter Versantvoort, Arjan Pol, Lena J. Daumann, James A. Larrabee, Aidan H. Strayer, Mike S.M. Jetten, Laura van Niftrik, Joachim Reimann, Huub J.M. Op den CampAbstractMethanotrophs play a prominent role in the global carbon cycle, by oxidizing the potent greenhouse gas methane to CO2. Methane is first converted into methanol by methane monooxygenase. This methanol is subsequently oxidized by either a calcium-dependent MxaF-type or a lanthanide-dependent XoxF-type methanol dehydrogenase (MDH). Ele...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 5, 2019 Category: Biochemistry Source Type: research

Novel X-ray sequences and crystal structures of Persian and Starry sturgeon methemoglobins: Highlighting the role of heme pocket waters in causing autoxidation
In this study, novel high resolution X-ray sequences and crystal structures of methemoglobin (Met-Hb) from two sturgeon fish including Persian sturgeon (Acipenser percisus) and Starry sturgeon (Acipenser stellatus) belonging to the Caspian sea has been determined. A comprehensive sequence and structure comparison between these sturgeon Met-Hbs and a number of non-sturgeon and normal and sickle cell anaemia human Hb in varying heme states has been carried out highlighting (i) the structural variability in the heme propionate groups; (ii) the existence of certain residues or their displacement and shift in the heme pocket al...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 3, 2019 Category: Biochemistry Source Type: research

Editorial Board
Publication date: May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 5Author(s): (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 2, 2019 Category: Biochemistry Source Type: research

Lipid-protein interactions in amyloid formation
Publication date: May 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 5Author(s): Emma Sparr, Sara Linse (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - April 2, 2019 Category: Biochemistry Source Type: research

Impact of N-glycosylation site variants during human PrP aggregation and fibril nucleation
Publication date: Available online 30 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Rajesh Mishra, Mathias Elgland, Afshan Begum, Timmy Fyrner, Peter Konradsson, Sofie Nyström, Per HammarströmAbstractMisfolding and aggregation of the human prion protein (PrP) cause neurodegenerative transmissible spongiform encephalopathies such as Creutzfeldt-Jakob disease. Mature native PrP is composed of 209 residues and is folded into a C-terminal globular domain (residues 125–209) comprising a small two-stranded β-sheet and three α-helices. The N-terminal domain (r...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 30, 2019 Category: Biochemistry Source Type: research

Influence of crowding and surfaces on protein amyloidogenesis: A thermo-kinetic perspective
Publication date: Available online 28 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Sneha Menon, Neelanjana SenguptaAbstractThe last few decades have irreversibly implicated protein self-assembly and aggregation leading to amyloid fibril formation in proteopathies that include several neurodegenerative diseases. Emerging studies recognize the importance of eliciting the pathways leading to protein aggregation in the context of the crowded intracellular environment rather than in conventional in vitro conditions. It is found that crowded environments can have acceleratory as well ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 28, 2019 Category: Biochemistry Source Type: research

Functional characterization of PLP fold type IV transaminase with a mixed type of activity from Haliangium ochraceum
Publication date: Available online 19 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Yulia S. Zeifman, Konstantin M. Boyko, Alena Yu Nikolaeva, Vladimir I. Timofeev, Tatiana V. Rakitina, Vladimir O. Popov, Ekaterina Yu BezsudnovaAbstractPyridoxal-5′-phosphate (PLP)-dependent transaminases are industrially important enzymes catalyzing the stereoselective amination of ketones and keto acids. Transaminases of PLP fold type IV are characterized by (R)- or (S)-stereoselective transfer of amino groups, depending on the substrate profile of the enzyme. PLP fold type IV transaminase...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 21, 2019 Category: Biochemistry Source Type: research

Simultaneous characterization of SNPs and N-glycans from multiple glycosylation sites of intact β-2-glycoprotein-1 (B2GP1) by ESI-qTOF-MS
Publication date: Available online 20 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Melissa Baerenfaenger, Bernd MeyerAbstractThe highly glycosylated ß-2-glycoprotein-1 (B2GP1), also called apolipoprotein H, is a 50 kDa human plasma protein with four or five N-glycosylation sites. Glycosylation of B2GP1 can impact auto antibody recognition leading to the development of antiphospholipid syndrome (APS), which can result in miscarriages or thrombosis. Next to its glycosylation different genetic variants are known to increase the risk of suffering from APS. Here we show that ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 21, 2019 Category: Biochemistry Source Type: research

An acidic loop within the human soluble CD23 protein may direct the interaction between sCD23 and the αXβ2 integrin
This study thus presents an alternative site as a possible contributor to the CD23-integrin interaction exhibiting cation-dependence. (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 21, 2019 Category: Biochemistry Source Type: research

Novel X-ray Sequences and Crystal Structures of Persian and Starry Sturgeon Methemoglobin: Highlighting the Role of Heme Pocket Waters in causing autoxidation
In this study, novel high resolution X-ray sequences and crystal structures of methemoglobin (Met-Hb) from two sturgeon fish including Persian sturgeon (Acipenser percisus) and Starry sturgeon (Acipenser stellatus) belonging to the Caspian sea has been determined. A comprehensive sequence and structure comparison between these sturgeon Met-Hb and a number of non-sturgeon and normal and sickle cell anaemia human Hb in varying heme states has been carried out highlighting (i) the structural variability in the heme propionate groups; (ii) the existence of certain residues or their displacement and shift in the heme pocket all...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 21, 2019 Category: Biochemistry Source Type: research

Translocation of non-interacting heteropolymer protein chains in terms of single helical propensity and size
Publication date: Available online 16 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): L. Olivares-Quiroz, José Antonio Vélez-PérezAbstractIn this work we present an analytical framework to calculate the average translocation time τ required for an ideal proteinogenic polypeptide chain to cross over a small pore on a membrane. Translocation is considered to proceed as a chain of non-interacting amino acid residues of sequence {Xj} diffuses through the pore against an energy barrier Δℱ, set by chain entropy and unfolding-folding energetics. We analyze...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 16, 2019 Category: Biochemistry Source Type: research

Structural and binding studies of phosphopantetheine adenylyl transferase from Acinetobacter baumannii
Publication date: Available online 15 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): A. Gupta, P.K. Singh, N. Iqbal, P. Sharma, H.R. Baraigya, P. Kaur, M.S. Umar, F. Ahmad, A. Sharma, M. Owais, S. Sharma, T.P. SinghAbstractPhosphopantetheine adenylyltransferase (PPAT, EC. 2.7.7.3) catalyzes an essential step in the reaction that transfers an adenylyl group from adenosine tri phosphate (ATP) to 4′-phosphopantetheine (pPant) yielding 3′- dephospho-coenzyme A (dPCoA) and pyrophosphate (PP) in the coenzyme A (CoA) biosynthesis pathway. The enzyme PPAT from Acinetobacter ba...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 15, 2019 Category: Biochemistry Source Type: research

Reprint of “Ganglioside lipids accelerate α-synuclein amyloid formation”
Publication date: Available online 13 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Ricardo Gaspar, Jon Pallbo, Ulrich Weininger, Sara Linse, Emma SparrAbstractThe deposition of α-synuclein fibrils is one hallmark of Parkinson's disease. Here, we investigate how ganglioside lipids, present in high amounts in neurons and exosomes, influence the aggregation kinetics of α-synuclein. Gangliosides, as well as, other anionic lipid species with small or large headgroups were found to induce conformational changes of α-synuclein monomers and catalyse their aggregation a...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 15, 2019 Category: Biochemistry Source Type: research

Fungal Lanosterol 14α-demethylase: A target for next-generation antifungal design
Publication date: Available online 6 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Brian C. Monk, Alia A. Sagatova, Parham Hosseini, Yasmeen N. Ruma, Rajni K. Wilson, Mikhail V. KeniyaAbstractThe cytochrome P450 enzyme lanosterol 14α-demethylase (LDM) is the target of the azole antifungals used widely in medicine and agriculture as prophylaxis or treatments of infections or diseases caused by fungal pathogens. These drugs and agrochemicals contain an imidazole, triazole or tetrazole substituent, with one of the nitrogens in the azole ring coordinating as the sixth axial lig...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 8, 2019 Category: Biochemistry Source Type: research

α-Synuclein misfolding and aggregation: Implications in Parkinson’s disease pathogenesis
Publication date: Available online 7 March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Surabhi Mehra, Shruti Sahay, Samir K. MajiAbstractα-Synuclein (α-Syn) has been extensively studied for its structural and biophysical properties owing to its pathophysiological role in Parkinson’s disease. Lewy bodies and Lewy neurites are the pathological hallmarks of PD and contain α-Syn aggregates as their major component. Therefore, it was hypothesized that α-Syn aggregation is actively associated with Parkinson’s disease pathogenesis. The central role of &al...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 8, 2019 Category: Biochemistry Source Type: research

Emergent functions of proteins in non-stoichiometric supramolecular assemblies
Publication date: Available online 28 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Rita Pancsa, Eva Schad, Agnes Tantos, Peter TompaAbstractProteins are the basic functional units of the cell, carrying out myriads of functions essential for life. There are countless reports in molecular cell biology addressing the functioning of proteins under physiological and pathological conditions, aiming to understand life at the atomistic-molecular level and thereby being able to develop remedies against diseases. The central theme in most of these studies is that the functional unit un...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 1, 2019 Category: Biochemistry Source Type: research

Modulation of p53 and prion protein aggregation by RNA
Publication date: Available online 28 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Yraima Cordeiro, Tuane Vieira, Petar S. Kovachev, Suparna Sanyal, Jerson L. SilvaAbstractSeveral RNA-binding proteins undergo reversible liquid-liquid phase transitions, which, in pathological conditions, might evolve into transitions to solid-state phases, giving rise to amyloid structures. Amyloidogenic and prion-like proteins, such as the tumor suppressor protein p53 and the mammalian prion protein (PrP), bind RNAs specifically or nonspecifically, resulting in changes in their propensity to ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - March 1, 2019 Category: Biochemistry Source Type: research

Ticket to a bubble ride: Cargo sorting into exosomes and extracellular vesicles
Publication date: Available online 26 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Sushma Anand, Monisha Samuel, Sharad Kumar, Suresh MathivananAbstractExtracellular vesicles (EVs) are released by cells into the extracellular milieu to facilitate intercellular communication in both physiological and pathological condition. EVs contain selective repertoires of proteins, RNAs, lipids and metabolites that moderate signalling pathways in the recipient cells. The enrichment of a particular set of proteins or RNAs within the EVs highlights the existence of specific sorting mechanis...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 27, 2019 Category: Biochemistry Source Type: research

Inhibition of ricin A-chain (RTA) catalytic activity by a viral genome-linked protein (VPg)
Publication date: Available online 27 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Valentina R. Aitbakieva, Rahimah Ahmad, Shaneen Singh, Artem V. DomashevskiyAbstractRicin is a plant derived protein toxin produced by the castor bean plant (Ricinus communis). The Centers for Disease Control (CDC) classifies ricin as a Category B biological agent. Currently, there is neither an effective vaccine that can be used to protect against ricin exposure nor a therapeutic to reverse the effects once exposed. Here we quantitatively characterize interactions between catalytic ricin A-cha...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 27, 2019 Category: Biochemistry Source Type: research

Editorial Board
Publication date: April 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 4Author(s): (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 21, 2019 Category: Biochemistry Source Type: research

Genetic code ambiguity modulates the activity of a C. albicans MAP kinase linked to cell wall remodeling
Publication date: Available online 20 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Joana S. Fraga, Zsuzsa Sárkány, Alexandra Silva, Inês Correia, Pedro José Barbosa Pereira, Sandra Macedo-RibeiroAbstractThe human fungal pathogen Candida albicans ambiguously decodes the universal leucine CUG codon predominantly as serine but also as leucine. C. albicans has a high capacity to survive and proliferate in adverse environments but the rate of leucine incorporation fluctuates in response to different stress conditions. C. albicans is adapted to tolerate t...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 20, 2019 Category: Biochemistry Source Type: research

Corrigendum to quantitative NMR study of heat-induced aggregation of eye-lens crystallin proteins under crowding conditions. BBAPAP Volume 1866/10 2018 1055-1061]
Publication date: Available online 14 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Maria Camilles, Susanne Link, Jochen Balbach, Kay Saalwächter, Alexey Krushelnitsky (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 14, 2019 Category: Biochemistry Source Type: research

Secretome analysis of human bone marrow derived mesenchymal stromal cells
Publication date: Available online 1 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Falk Baberg, Stefanie Geyh, Daniel Waldera-Lupa, Anja Stefanski, Christoph Zilkens, Rainer Haas, Thomas Schroeder, Kai StühlerAbstractAs an essential cellular component of the bone marrow (BM) microenvironment mesenchymal stromal cells (MSC) play a pivotal role for the physiological regulation of hematopoiesis, in particular through the secretion of cytokines and chemokines. Mass spectrometry (MS) facilitates the identification and quantification of a large amount of secreted proteins (secr...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 2, 2019 Category: Biochemistry Source Type: research

Structure and function of the putative thioredoxin 1 from the thermophilic eubacterium Thermosipho africanus strain TCF52B
In this study, Thermosipho africanus, a thermophilic eubacterium, Trx1 (TaTrx1) was successfully cloned, overexpressed and purified, to greater than 95% purity. Inspection of the amino acid sequence of TaTrx1 categorized the protein as a putative Trx. Its ability to reduce the interchain disulfides of insulin, in the presence of dithiothreitol, provided further evidence to suggest that it was a Trx. The three dimensional structure of the protein, determined using X-ray crystallography, provided additional evidence for this. The crystal structure was solved in space group P212121 to 1.8 Ă resolution and showed the characte...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 2, 2019 Category: Biochemistry Source Type: research

pH-Dependent fibril maturation of a Pmel17 repeat domain isoform revealed by tryptophan fluorescence
Publication date: Available online 2 February 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Dexter N. Dean, Jennifer C. LeeAbstractThe pre-melanosomal protein (Pmel17) aggregates within melanosomes to form functional amyloid fibrils that facilitate melanin polymerization. The repeat domain (RPT) of Pmel17 fibrillates under strict acidic melanosomal pH. Alternative splicing results in a shortened repeat domain (sRPT), which also forms amyloid fibrils. Here, we explored the effects of pH and protein concentration on sRPT aggregation by monitoring the intrinsic fluorescence of the sole tr...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 2, 2019 Category: Biochemistry Source Type: research

Biophysical and structural characterization of the small heat shock protein HspA from Thermosynechococcus vulcanus in 2 M urea
Publication date: Available online 31 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Sudeshna Ghosh, Faris Salama, Monica Dines, Avital Lahav, Noam AdirAbstractSmall heat shock proteins (sHSPs) belong to the superfamily of molecular chaperones. They prevent aggregation of partially unfolded or misfolded client proteins, providing protection to organisms under stress conditions. Here, we report the biophysical and structural characterization of a small heat shock protein (HspA) from a thermophilic cyanobacterium Thermosynechococcus vulcanus in the presence of 2 M urea. HspA has...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - February 2, 2019 Category: Biochemistry Source Type: research

Structural insights into amyloid structures of the C-terminal region of Nucleophosmin 1 in type a mutation of Acute Myeloid Leukemia
Publication date: Available online 30 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Concetta Di Natale, Sara La Manna, Anna Maria Malfitano, Sarah Di Somma, Daniele Florio, Pasqualina Liana Scognamiglio, Ettore Novellino, Paolo Antonio Netti, Daniela MarascoAbstractAcute myeloid leukemia (AML) is a clinically and a molecularly heterogeneous disease characterized by the accumulation of undifferentiated and uncontrolled proliferation of hematopoietic progenitor cells. The sub-group named “AML with gene mutations” includes mutations in nucleophosmin (NPM1) assumed as a...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 30, 2019 Category: Biochemistry Source Type: research

Modulation of aggregation of silk fibroin by synergistic effect of the complex of curcumin and β-cyclodextrin
Publication date: Available online 21 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Priyanka Dubey, Pramit K. Chowdhury, Sourabh GhoshAbstractAmyloid aggregation has been associated with numerous human pathological diseases. A recent study has demonstrated that silk fibroin intermittently endorses amyloidogenesis in vivo. In the current study, we explored the propensity of silk fibroin to undergo amyloid-like aggregation and its prevention using optimized concoction of curcumin with β-cyclodextrin. Aggregation of silk fibroin resulted in the formation of fibrils with a dia...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 22, 2019 Category: Biochemistry Source Type: research

Insight into the interaction between PriB and DnaT on bacterial DNA replication restart: Significance of the residues on PriB dimer interface and highly acidic region on DnaT
In this study, we examined the contribution of the residues Ser20, His26 and Ser55, which are located on the PriB dimer interface. These residues are proximal to Glu39 and Arg44, which are important for PriB-DnaT interaction. Mutational analyses revealed that His26 and Ser20 of PriB are important for the interaction with DnaT, and that the Ser55 residue of PriB might have a role in negatively regulating the DnaT binding. These residues are involved in not only the interaction between PriB and DnaT but also the dissociation of single-stranded DNA (ssDNA) from the PriB−ssDNA complex due to DnaT binding. Moreover, NMR s...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 17, 2019 Category: Biochemistry Source Type: research

Sequence Specificity of Amylin-Insulin Interaction: A Fragment-based Insulin Fibrillation Inhibition Study
Publication date: Available online 17 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Bhisma Narayan Ratha, Rajiv K. Kar, Sujan Kalita, Sourav Kalita, Sreyan Raha, Achintya Singha, Kanchan Garai, Bhubaneswar Mandal, Anirban BhuniaAbstractSubcutaneous insulin delivery serves as the major treatment for the ever-increasing spread of type II diabetes worldwide. However, long-term exposure to insulin results in local aggregates at the site of injection. This therapeutic concern accentuates the need to develop newer effective excipients to stabilize the insulin in pharmaceutical formul...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 17, 2019 Category: Biochemistry Source Type: research

Editorial Board
Publication date: March 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Volume 1867, Issue 3Author(s): (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 16, 2019 Category: Biochemistry Source Type: research

Modification by glyceraldehyde-3-phosphate prevents amyloid transformation of alpha-synuclein
Publication date: Available online 10 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Kseniya Barinova, Marina Serebryakova, Evgeny Sheval, Elena Schmalhausen, Vladimir MuronetzAbstractNumerous investigations point to the relation between diabetes and neurodegenerative disorders. Alpha-synuclein is a protein involved in the development of synucleinopathies including Parkinson's disease. In the present work, alpha-synuclein was for the first time modified by the intermediate product of glycolysis, glyceraldehyde-3-phosphate (GA-3-P). The resulting product was compared with the alp...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 11, 2019 Category: Biochemistry Source Type: research

Transmembrane topology of mammalian ORMDL proteins in the endoplasmic reticulum as revealed by the substituted cysteine accessibility method (SCAM™)
Publication date: Available online 10 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Deanna Davis, John Suemitsu, Binks WattenbergAbstractSphingolipids are diverse lipids with essential, and occasionally opposing, functions in the cell and therefore tight control over biosynthesis is vital. Mechanisms governing this regulation are not understood. Initial steps in sphingolipid biosynthesis take place on the cytosolic face of the endoplasmic reticulum (ER). Serine palmitoyltransferase (SPT) is an ER-resident enzyme catalyzing the first-committed step in sphingolipid biosynthesis. ...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 11, 2019 Category: Biochemistry Source Type: research

Thiopurine intolerance-causing mutations in NUDT15 induce temperature-dependent destabilization of the catalytic site
This study shows the action of pharmacogenetic variants in NUDT15 in a context of protein structure, which might open novel directions in personalized chemotherapy.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 11, 2019 Category: Biochemistry Source Type: research

In depth, thermodynamic analysis of Ca2+ binding to human cardiac troponin C: Extracting buffer-independent binding parameters
ConclusionsTaken together, the consistency of these data between buffer systems and the similarity between theoretical and experimental proton release is indicative of the reliability of the method used and the importance of extracting metal-buffer interactions in these studies.General significanceThe experimental approach described herein is clearly applicable to other metal ions and other EF-hand protein systems.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics)
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 11, 2019 Category: Biochemistry Source Type: research

Regulation of two GTPases Toc159 and Toc34 in the translocon of the outer envelope of chloroplasts
Publication date: Available online 3 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Katharina Wiesemann, Stefan Simm, Oliver Mirus, Roman Ladig, Enrico SchleiffAbstractThe GTPases Toc159 and Toc34 of the translocon of the outer envelope of chloroplasts (TOC) are involved in recognition and transfer of precursor proteins at the cytosolic face of the organelle. Both proteins engage multiple interactions within the translocon during the translocation process, including dimeric states of their G-domains. The units of the Toc34 homodimer are involved in the recognition of the transit...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 4, 2019 Category: Biochemistry Source Type: research

Comparative proteomic analysis of salt-responsive proteins in canola roots by 2-DE and MALDI-TOF MS
Publication date: Available online 3 January 2019Source: Biochimica et Biophysica Acta (BBA) - Proteins and ProteomicsAuthor(s): Maryam Kholghi, Mahmoud Toorchi, Ali Bandehagh, Anna Ostendorp, Steffen Ostendorp, Patrizia Hanhart, Julia KehrAbstractSalinity stress is a major abiotic stress that affects plant growth and limits crop production. Roots are the primary site of salinity perception, and salt sensitivity in roots limits the productivity of the entire plant. To better understand salt stress responses in canola, we performed a comparative proteomic analysis of roots from the salt-tolerant genotype Safi-7 and the salt...
Source: Biochimica et Biophysica Acta (BBA) Proteins and Proteomics - January 4, 2019 Category: Biochemistry Source Type: research