The action of Echis carinatus and Naja naja venoms on human neutrophils; an emphasis on NETosis
ConclusionFor the first time our study demonstrates the distinct action of E. carinatus and N. naja venoms on the process of NETosis. NETosis being a newly explored area in snake venom pharmacodynamics, it is important to study its impact on the various pathophysiological properties induced by snake venoms.SignificanceUnderstanding the varied actions of snake venoms on neutrophils/blood cells and the role of DNase are likely to provide insights for better management of snakebite pathophysiology. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 15, 2020 Category: Biochemistry Source Type: research

A dual PI3 kinase/mTOR inhibitor BEZ235 reverses doxorubicin resistance in ABCB1 overexpressing ovarian and pancreatic cancer cell lines
ConclusionsThese results suggest that BEZ is a non-substrate inhibitor of ABCB1 and is able to effectively re-sensitize cells overexpressing ABCB1 to the effects of DOX.General significanceDual PI3 Kinase/mTOR inhibitor, BEZ has the potential to reverse MDR in cancer patients. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 14, 2020 Category: Biochemistry Source Type: research

S-glutathionylation of human glyceraldehyde-3-phosphate dehydrogenase and possible role of Cys152-Cys156 disulfide bridge in the active site of the protein
ConclusionsS-glutathionylation induces the formation of Cys152-Cys156 disulfide bond in the active site of hGAPDH, which results in structural changes of the protein molecule. Cys156 is important for reactivation of S-glutathionylated GAPDH by glutaredoxin 1.General significanceThe described mechanism may be important for interaction between GAPDH and other proteins and ligands, involved in cell signaling. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 14, 2020 Category: Biochemistry Source Type: research

The effect of UV radiation in the presence of TiO2-NPs on Leishmania major promastigotes
In this study, TiO2-NPs with ultraviolet (UV) radiation were administered as photodynamic therapy against Leishmania Major (LM) promastigotes.Methods: Two forms of TiO2 viz. including Anatase and Rutile were administered in two UV ranges
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 14, 2020 Category: Biochemistry Source Type: research

Machine learning and ligand binding predictions: A review of data, methods, and obstacles
Publication date: Available online 10 February 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Sally R. Ellingson, Brian Davis, Jonathan AllenAbstractComputational predictions of ligand binding is a difficult problem, with more accurate methods being extremely computationally expensive. The use of machine learning for drug binding predictions could possibly leverage the use of biomedical big data in exchange for time-intensive simulations. This paper reviews current trends in the use of machine learning for drug binding predictions, data sources to develop machine learning algorithms, and poten...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 11, 2020 Category: Biochemistry Source Type: research

Polyamines and its analogue modulates amyloid fibrillation in lysozyme: A comparative investigation
This study, thus, potentiates, the development of a polyamine analogue that can perform as an effective inhibitor targeted towards aggregation of amyloidogenic proteins.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 10, 2020 Category: Biochemistry Source Type: research

Editorial Board
Publication date: April 2020Source: Biochimica et Biophysica Acta (BBA) - General Subjects, Volume 1864, Issue 4Author(s): (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 8, 2020 Category: Biochemistry Source Type: research

Crystal structure of a novel xylose isomerase from Streptomyces sp. F-1 revealed the presence of unique features that differ from conventional classes
ConclusionsWe have characterized two novel xylose isomerases that display distinct functional behavior and harbor unprecedented amino-acid substitutions in the catalytic interface.General significanceOur findings contribute to a better understanding of the functional and structural aspects of xylose isomerases, which might be instrumental for the valorization of the hemicellulosic fraction of vegetal biomass. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 7, 2020 Category: Biochemistry Source Type: research

Radiation activates myeloperoxidase (MPO) to generate active chlorine species (ACS) via a dephosphorylation mechanism - inhibitory effect of LGM2605
ConclusionsWe demonstrate that γ-radiation induces MPO-dependent generation of ACS, which is dependent, at least in part, by protein tyrosine and Ser/Thr dephosphorylation and is reduced by LGM2605. This study identified for the first time a novel protein dephosphorylation-dependent mechanism of radiation-induced MPO activation. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 7, 2020 Category: Biochemistry Source Type: research

Discovery of multidrug efflux pump inhibitors with a novel chemical scaffold
Publication date: Available online 4 February 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Adam T. Green, Mohammad Moniruzzaman, Connor J. Cooper, John K. Walker, Jeremy C. Smith, Jerry M. Parks, Helen I. ZgurskayaAbstractMultidrug efflux is a major contributor to antibiotic resistance in Gram-negative bacterial pathogens. Inhibition of multidrug efflux pumps is a promising approach for reviving the efficacy of existing antibiotics. Previously, inhibitors targeting both the efflux transporter AcrB and the membrane fusion protein AcrA in the Escherichia coli AcrAB-TolC efflux pump were identi...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 5, 2020 Category: Biochemistry Source Type: research

The relation between lignin sequence and its 3D structure
ConclusionsThe 3D structure of lignin is influenced by the overall content of monomeric units and interunit linkages and not by its precise primary sequence.General significanceLignin is assumed to not have a well-defined primary structure. The results presented here demonstrate there are no significant differences in the 3D structure of lignin molecules with the same average composition but different primary sequence. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 5, 2020 Category: Biochemistry Source Type: research

Expression of elastolytic cathepsins in human skin and their involvement in age-dependent elastin degradation
ConclusionCathepsins are powerful elastin-degrading enzymes and capable of generating a multitude of elastokines. They may represent a viable target for intervention strategies to reduce skin ageing. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - February 1, 2020 Category: Biochemistry Source Type: research

Development and characterisation of a peptidergic N-and C-terminally stabilised mammalian NPY1R agonist which protects against diabetes induction
ConclusionWe present (d-Arg35)-sea lamprey PYY (1–36) as the first-in-class N- and C-terminally stable PYY (1–36) peptide analogue.General significanceEnzymatically stable, long-acting PYY (1–36) peptides highlight the therapeutic benefits of sustained activation of NPYR1's in diabetes. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 30, 2020 Category: Biochemistry Source Type: research

Interactions between PAMAM dendrimers and DOPC lipid multilayers: Membrane thinning and structural disorder
ConclusionsThese results show the complexity of the effect of dendrimer physicochemical properties and the addition method of dendrimers on the structure of mixed dendrimer-DOPC multilayers.General significanceThese insights are useful for fundamental understanding of nanotoxicity and future biomedical application of nanocomposite multilayer materials in which nanoparticles are added for enhanced properties and functionality.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 26, 2020 Category: Biochemistry Source Type: research

PEGylation-based strategy to identify pathways involved in the activation of apoptotic BAX protein
ConclusionPEGylation-based approach is proven useful to shield individual binding grooves of BAX from apoptotic stimuli. Groove engagement in CG of BAX is required for a full cBid-induced BAX activation. This study has identified differences in the pathways involved during the initiation of BAX activation by full-length cBid protein versus synthetic BimBH3-based peptides.General significanceOur finding is potentially valuable for therapeutic application as the pore-forming activity of 164-PEG is independent from the cBid-mediated apoptotic pathways, but can be administrated by the synthetic short peptides.Graphical abstrac...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 26, 2020 Category: Biochemistry Source Type: research

A novel neuronal organoid model mimicking glioblastoma (GBM) features from induced pluripotent stem cells (iPSC)
This study shows the feasibility of generating “off-the shelf” neuronal-like organoid model mimicking GBM using c-met-mutated iPSC aggregates and its potential future use in research. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 23, 2020 Category: Biochemistry Source Type: research

Why do water molecules around small hydrophobic solutes form stronger hydrogen bonds than in the bulk?
Publication date: Available online 21 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Franci Merzel, Franc AvbeljAbstractMolecular solutes are known to have a strong effect on the structural and dynamical properties of the surrounding water. In our recent study (PNAS, 114, 322 (2017)) we have identified the presence of strengthened water hydrogen bonds near hydrophobic solutes by using both IR spectroscopy and ab-initio molecular dynamics simulations. The water molecules involved in the enhanced hydrogen bonding have been shown to display extensive structural ordering and restricted mob...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 21, 2020 Category: Biochemistry Source Type: research

The lac repressor hinge helix in context: The effect of the DNA binding domain and symmetry
Publication date: Available online 17 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Danielle Seckfort, Gillian C. Lynch, B. Montgomery PettittAbstractThe Lac system of genes has been an important model system in understanding gene regulation. When the dimer lac repressor protein binds to the correct DNA sequence, the hinge region of the protein goes through a disorder to order transition. The hinge region is disordered when binding to nonoperator sequences. This region of the protein must pay a conformational entropic penalty to order when it is bound to operator DNA. Structural studi...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 18, 2020 Category: Biochemistry Source Type: research

Directly targeting glutathione peroxidase 4 may be more effective than disrupting glutathione on ferroptosis-based cancer therapy
Publication date: Available online 18 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Yunpeng Wei, Huanhuan Lv, Atik Badshah Shaikh, Wei Han, Hongjie Hou, Zhihao Zhang, Shenghang Wang, Peng ShangAbstractBackgroundCancer is one of the major threats to human health and current cancer therapies have been unsuccessful in eradicating it. Ferroptosis is characterized by iron-dependence and lipid hydroperoxides accumulation, and its primary mechanism involves the suppression of system Xc−-GSH (glutathione)-GPX4 (glutathione peroxidase 4) axis. Co-incidentally, cancer cells are also metab...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 18, 2020 Category: Biochemistry Source Type: research

Prediction of peptide binding to MHC using machine learning with sequence and structure-based feature sets
Publication date: Available online 16 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Michelle P. Aranha, Catherine Spooner, Omar Demerdash, Bogdan Czejdo, Jeremy C. Smith, Julie C. MitchellAbstractSelecting peptides that bind strongly to the major histocompatibility complex (MHC) for inclusion in a vaccine has therapeutic potential for infections and tumors. Machine learning models trained on sequence data exist for peptide:MHC (p:MHC) binding predictions. Here, we train support vector machine classifier (SVMC) models on physicochemical sequence-based and structure-based descriptor set...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 17, 2020 Category: Biochemistry Source Type: research

Identification of novel RNA design candidates by clustering the extended RNA-as-graphs library
Conclusions: Using linear regression with unsupervised clustering, or quadratic regression with supervised clustering, provides better accuracies than supervised/linear clustering. All accuracies are better than random, especially for newly added existing topologies, thus lending credibility to our approach.General Significance: Our updated RAG-3D database and motif classification by clustering present new RNA substructures and RNA-like motifs as novel design candidates. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 17, 2020 Category: Biochemistry Source Type: research

Rigidity of protein structure revealed by incoherent neutron scattering
Publication date: Available online 17 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Hiroshi Nakagawa, Mikio KataokaAbstractThe rigidity and flexibility of a protein is reflected in its structural dynamics. Studies on protein dynamics often focus on flexibility and softness; this review focuses on protein structural rigidity. The extent of rigidity can be assessed experimentally with incoherent neutron scattering; a method that is complementary to molecular dynamics simulation. This experimental technique can provide information about protein dynamics in timescales of pico- to nanoseco...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 17, 2020 Category: Biochemistry Source Type: research

Enhanced cell selectivity of hybrid peptides with potential antimicrobial activity and immunomodulatory effect
ConclusionHybridization is a useful strategy to bond the advantages of different peptides. KFSP1 and its analogs are worth of advanced efforts to explore their potential applications as novel antimicrobial agents. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 15, 2020 Category: Biochemistry Source Type: research

Metformin attenuates adhesion between cancer and endothelial cells in chronic hyperglycemia by recovery of the endothelial glycocalyx barrier
ConclusionOur results identify metformin-induced endothelial glycocalyx restoration as a key factor responsible for the attenuation of adhesion between EA.hy926 endothelial cells and A549 lung carcinoma cells.General significanceMetformin-induced glycocalyx restoration and the resulting attenuation of adhesive interactions between the endothelium and cancer cells may account for the antimetastatic properties of this drug. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 15, 2020 Category: Biochemistry Source Type: research

Biochemical characterization of tirabrutinib and other irreversible inhibitors of Bruton's tyrosine kinase reveals differences in on - and off - target inhibition
ConclusionsFor the BTK inhibitors tested in this study, analysis of the inactivation kinetics yielded a more accurate measurement of potency and selectivity than conventional single-time point inhibition measurements. Subtle but clear differences were identified between clinically tested BTK inhibitors which may translate into differentiated clinical efficacy and safety.General significanceThis is the first study that offers a detailed side-by-side comparison of four clinically-relevant BTK inhibitors with respect to their inactivation of BTK and related kinases. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 15, 2020 Category: Biochemistry Source Type: research

Editorial Board
Publication date: March 2020Source: Biochimica et Biophysica Acta (BBA) - General Subjects, Volume 1864, Issue 3Author(s): (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 14, 2020 Category: Biochemistry Source Type: research

Acquisition of stem associated-features on metastatic osteosarcoma cells and their functional effects on mesenchymal stem cells
ConclusionsAll this suggests that a major trait acquired by metastatic cells is a switch into a stem-like state that could favor its survival in the pulmonary niche, opening new possibilities for personalized chemotherapeutic schemes.General significanceOur work provides new insights regarding differences among metastatic and non-metastatic OS cells, with particular emphasis on differentiation potential, multidrug resistance and interaction with MSCs. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 14, 2020 Category: Biochemistry Source Type: research

Adaptation of striated muscles to Wolframin deficiency in mice: Alterations in cellular bioenergetics
ConclusionsWfs1-deficiency in both cardiac and skeletal muscles results in functional alterations of energy transport from mitochondria to ATP-ases. There was a substrate-dependent decrease in the maximal Complex I –linked respiratory capacity of the electron transport system in muscles of Wfs1 KO mice. Moreover, in cardiac and gastrocnemius white muscles a decrease in the function of one pathway were balanced by the increase in the activity of the parallel pathway.General significanceThis work provides new insights to the muscle involvement at early stages of metabolic syndrome like WS as well as developing glucose ...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 12, 2020 Category: Biochemistry Source Type: research

Structural characterization and polymorphism analysis of the NS2B-NS3 protease from the 2017 Brazilian circulating strain of Yellow Fever virus
ConclusionsThe crystal structure of YFV NS2B-NS3 in closed conformation might be an important tool for the development of new drugs, as well as understanding the activation mechanism of viral proteases. Biochemical analyses indicate that the NS2B-NS3 protease of the circulating strain of YFV is more stable than previous strains.General significanceThe YFV NS2B-NS3 protease is the first flaviviral structure described in its closed conformation when in a free form, implying that external factors might induce the activation of the enzyme.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 11, 2020 Category: Biochemistry Source Type: research

Ezrin interacts with L-periaxin by the “head to head and tail to tail” mode and influences the location of L-periaxin in Schwann cell RSC96
Publication date: Available online 10 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Tao Guo, Lei Zhang, Hong Xiao, Yan Yang, Yawei ShiAbstractIn the peripheral nervous system (PNS), Schwann cells (SCs) are required for the myelination of axons. Periaxin (PRX), one of the myelination proteins expressed in SCs, is critical for the normal development and maintenance of PNS. As a member of the ERM (ezrin-radxin-moesin) protein family, ezrin holds our attention since their link to the formation of the nodes of Ranvier. Furthermore, PRX and ezrin are co-expressed in cytoskeletal complexes w...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 11, 2020 Category: Biochemistry Source Type: research

CLPB (caseinolytic peptidase B homolog), the first mitochondrial protein refoldase associated with human disease
Publication date: Available online 7 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Dagmara Mróz, Hubert Wyszkowski, Tomasz Szablewski, Katarzyna Zawieracz, Rafał Dutkiewicz, Katarzyna Bury, Saskia B. Wortmann, Ron A. Wevers, Szymon Ziętkiewicz (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 8, 2020 Category: Biochemistry Source Type: research

Characterization of Macrophage Galactose-type Lectin (MGL) ligands in colorectal cancer cell lines
ConclusionsWe have identified cell surface MGL-ligands on CRC cell lines.General significanceAdvances in (glyco)proteomics have led to identification of candidate key mediators of immune-evasion and tumor growth in CRC. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

A novel Xanthomonas citri subsp. citri NADPH quinone reductase involved in salt stress response and virulence
ConclusionsA FAD containing flavoprotein from Xcc is a new NADPH quinone reductase required for bacterial virulence, particularly in Xcc epiphytic survival on citrus leaves.General significanceA novel protein involved in the worldwide disease citrus canker was characterized.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

Four countries for science
Publication date: Available online 3 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Jeremy C. SmithAbstractA personal retrospect is given on four decades in science in four countries - the UK, France, Germany and the USA. Some historical observations are made together with a time transect through scientific systems and institutions in the four countries. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

Kinetic and structural analysis of Escherichia coli phosphoenolpyruvate carboxykinase mutants
ConclusionsOur results show that mutation of residues involved in coordinating OAA, MgATP and Mn2+ significantly reduce PEPCK activity. K254 plays an important role in phosphoryl transfer, while R333 is involved in both OAA decarboxylation and phosphoryl transfer by E. coli PEPCK.General significanceIn higher organisms including humans, PEPCK helps to regulate blood glucose levels, hence PEPCK is a potential drug target for patients with non-insulin dependent diabetes mellitus. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

Additional sequence and structural characterization of an endo-processive GH74 xyloglucanase from Myceliophthora thermophila and the revision of the EC 3.2.1.155 entry
Publication date: Available online 3 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Alexander V. Gusakov (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

Identification and characterization of fragment binding sites for allosteric ligand design using the site identification by ligand competitive saturation hotspots approach (SILCS-Hotspots)
Publication date: Available online 3 January 2020Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Alexander D. MacKerell, Sunhwan Jo, Sirish Kaushik Lakkaraju, Christoffer Lind, Wenbo YuAbstractBackgroundFragment-based ligand design is used for the development of novel ligands that target macromolecules, most notably proteins. Central to its success is the identification of fragment binding sites that are spatially adjacent such that fragments occupying those sites may be linked to create drug-like ligands. Current experimental and computational approaches that address this problem typically identif...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 5, 2020 Category: Biochemistry Source Type: research

Genetic analysis of oxidative and endoplasmic reticulum stress responses induced by cobalt toxicity in budding yeast
ConclusionsThis study reinforced the fact that cobalt toxicity might be due to the high intracellular cobalt and ROS levels, and the endoplasmic reticulum stress responses induced by cobalt.General significanceElucidating the toxicity mechanisms of cobalt stress response will help reveal new routes for the treatment of the diseases induced by cobalt.Graphical abstractSuggested model for the toxicity mechanisms of cobalt stress. Cells uptake the extracellular cobalt via the plasma membrane transporters Smf2, Fet4 and Pho84. Once inside the cell, cobalt generates ROS, causing DNA damage and lipid/protein oxidation, thus indu...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 3, 2020 Category: Biochemistry Source Type: research

Fibrillar conformation of an apolipoprotein A-I variant involved in amyloidosis and atherosclerosis
ConclusionsWe conclude that a pro-inflammatory microenvironment could result in the formation of aggregation-prone species, which, in addition may induce a positive feed-back in the activation of an inflammatory response.General significanceThese events may explain a close association between amyloidosis due to apoA-I Lys107–0 and atherosclerosis. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - January 3, 2020 Category: Biochemistry Source Type: research

Profiling of isomer-specific IgG N-glycosylation in cohort of Chinese colorectal cancer patients
ConclusionsThis is the first comprehensively profiling of isomer-specific IgG N-glycosylation, which could differentiate normal controls from colorectal disease patients. The candidate IgG glyco-biomarkers provide important screening indicators for early diagnosis of CRC.General significanceColorectal cancer progression is strongly associated with isomer-specific IgG N-glycosylation.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 29, 2019 Category: Biochemistry Source Type: research

Region-specific upregulation of HNK-1 glycan in the PRMT1-deficient brain
ConclusionsLoss of arginine methylation leads to an increase in HNK-1 glycan in the developing cerebellum but not in the cerebral cortex via upregulation of the biosynthetic enzyme and carrier glycoproteins.General significancePRMT1 is a novel regulator of HNK-1 glycan production in the cerebellum. Mechanisms involving crosstalk between glycosylation and arginine methylation are suggested to occur. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 27, 2019 Category: Biochemistry Source Type: research

The transition between active and inactive conformations of Abl kinase studied by rock climbing and Milestoning
ConclusionsThe transition from DFG-in to DFG-out in Abl kinase was simulated using atomic resolution of a fully solvated protein yielding detailed description of the kinetics and the mechanism of the DFG flip. The results are consistent with other computational methods that simulate the kinetics and with some indirect experimental measurements.General significanceThe activation of kinases includes a conformational transition of the DFG motif that is important for enzyme activity but is not accessible to conventional Molecular Dynamics. We propose a detailed mechanism for the transition, at a timescale longer than conventio...
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 27, 2019 Category: Biochemistry Source Type: research

Lyn regulates creatine uptake in an imatinib-resistant CML cell line
ConclusionsThese data suggest that Lyn can affect creatine uptake through Lyn-dependent phosphorylation and regulation of the Na+/K+-ATPase pump activity.General significanceThese studies identify kinase regulation of the Na+/K+-ATPase as pivotal in regulating creatine uptake and energy metabolism in cells. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 26, 2019 Category: Biochemistry Source Type: research

Dehydrin ERD14 activates glutathione transferase Phi9 in Arabidopsis thaliana under osmotic stress
ConclusionsWe propose that fully intrinsically disordered dehydrin ERD14 might protect and even activate redox enzymes, helping plants to survive oxidative stress under dehydration conditions.General significanceERD14 has a direct effect on the activity of redox enzymes. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 21, 2019 Category: Biochemistry Source Type: research

Angiotensin II modulates brain-derived neurotrophic factor expression in the brain and adrenal
Publication date: Available online 19 December 2019Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Hong-Wei Wang, Jiao Lu, Wenbin Liang, Frans H.H. Leenen (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 20, 2019 Category: Biochemistry Source Type: research

Mitochondrial glucose 6-phosphate dehydrogenase and 6-phosphogluconate dehydrogenase abrogate p53 induced apoptosis in a yeast model: Possible implications for apoptosis resistance in cancer cells
ConclusionsEnhanced association of HXK2 with the mitochondria with the concomitant accumulation of G6PDG and 6PGDH results in increased NADPH that scavenges ROS and provides resistance to apoptosis.General significanceGiven the extensive similarity of aerobic glycolysis between humans and yeast, the phenomena described here could as well be responsible for the escape of apoptosis in cancer cells. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 18, 2019 Category: Biochemistry Source Type: research

Assessment of cytotoxic and genotoxic potentials of a mononuclear Fe(II) Schiff base complex with photocatalytic activity in Trigonella
ConclusionThe growth inhibitory and cytotoxic effects of the complex result from activation of DNA damage response along with oxidative stress and cell cycle arrest.General significanceOverall, our results have provided comprehensive information on the mechanism of action and efficacy of a Fe(II) Schiff base complex in higher eukaryotic genomes and indicated its future implications as potential therapeutic agent.Graphical abstract (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 7, 2019 Category: Biochemistry Source Type: research

Ligand binding and activation of UTP-activated G protein-coupled P2Y2 and P2Y4 receptors elucidated by mutagenesis, pharmacological and computational studies
Publication date: Available online 5 December 2019Source: Biochimica et Biophysica Acta (BBA) - General SubjectsAuthor(s): Isaac Y. Attah, Alexander Neumann, Haneen Al-Hroub, Muhammad Rafehi, Younis Baqi, Vigneshwaran Namasivayam, Christa E. MüllerAbstractThe nucleotide receptors P2Y2 and P2Y4 are the most closely related G protein-coupled receptors (GPCRs) of the P2Y receptor (P2YR) family. Both subtypes couple to Gq proteins and are activated by the pyrimidine nucleotide UTP, but only P2Y2R is also activated by the purine nucleotide ATP. Agonists and antagonists of both receptor subtypes have potential as drugs e.g....
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 7, 2019 Category: Biochemistry Source Type: research

Human αB-crystallin discriminates between aggregation-prone and function-preserving variants of a client protein
ConclusionsαB-crystallin is capable of distinguishing between aggregation-prone and function-preserving variants, and recognizing the transient unfolding or minor conformers that lead to aggregation in the disease-related variant.General significanceHuman αB-crystallin distinguishes between highly similar variants of a structural crystallin, binding the cataract-related γS-G18V variant, but not the function-preserving γS-G18A variant, which is monomeric at physiological temperature. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - December 7, 2019 Category: Biochemistry Source Type: research

Heat shock factor 4 regulates lysosome activity by modulating the αB-crystallin-ATP6V1A-mTOR complex in ocular lens
ConclusionHSF4 regulates lysosomal acidification by controlling the association of αB-crystallin with ATP6V1A and mTOR and regulating ATP6V1A protein stabilization.General significanceThis study uncovers a novel function of αB-crystallin, demonstrating that αB-crystallin can regulate lysosomal ATP6V1A protein stabilization by complexing to ATP6V1A and mTOR. This highlights a novel mechanism by which HSF4 regulates the proteolytic process of organelles during lens development. (Source: Biochimica et Biophysica Acta (BBA) General Subjects)
Source: Biochimica et Biophysica Acta (BBA) General Subjects - November 29, 2019 Category: Biochemistry Source Type: research