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You searched for: Journal Biochimica et biophysica acta Remove constraint Journal: Biochimica et biophysica acta Publication Year 2019 Remove constraint Publication Year: 2019 Source 2019 v.1863 no.1 Remove constraint Source: 2019 v.1863 no.1
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1. ABC transporters as cancer drivers: Potential functions in cancer development

Author:
Domenichini, Alice; Adamska, Aleksandra; Falasca, Marco
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 52-60
ISSN:
0304-4165
Subject:
ABC transporters; bioactive compounds; carcinogenesis; drugs; multiple drug resistance; neoplasms; therapeutics
Abstract:
... ABC transporters have attracted considerable attention for their function as drug transporters in a broad range of tumours and are therefore considered as major players in cancer chemoresistance. However, less attention has been focused on their potential role as active players in cancer development and progression.This review presents the evidence suggesting that ABC transporters might have a mor ...
DOI:
10.1016/j.bbagen.2018.09.019

2. Atomistic mechanism of the constitutive activation of PDGFRA via its transmembrane domain

Author:
Polyansky, Anton A.; Bocharov, Eduard V.; Velghe, Amélie I.; Kuznetsov, Andrey S.; Bocharova, Olga V.; Urban, Anatoly S.; Arseniev, Alexander S.; Zagrovic, Bojan; Demoulin, Jean-Baptiste; Efremov, Roman G.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 82-95
ISSN:
0304-4165
Subject:
dimerization; models; mutants; mutation; nuclear magnetic resonance spectroscopy; receptor protein-tyrosine kinase
Abstract:
... Single-point mutations in the transmembrane (TM) region of receptor tyrosine kinases (RTKs) can lead to abnormal ligand-independent activation. We use a combination of computational modeling, NMR spectroscopy and cell experiments to analyze in detail the mechanism of how TM domains contribute to the activation of wild-type (WT) PDGFRA and its oncogenic V536E mutant. Using a computational framework ...
DOI:
10.1016/j.bbagen.2018.09.011

3. Biomedical potential of chitosan-silver nanoparticles with special reference to antioxidant, antibacterial, hemolytic and in vivo cutaneous wound healing effects

Author:
Hajji, Sawssen; Khedir, Sameh Ben; Hamza-Mnif, Ibtissem; Hamdi, Marwa; Jedidi, Ines; Kallel, Rim; Boufi, Sami; Nasri, Moncef
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 241-254
ISSN:
0304-4165
Subject:
Chinese hamsters; animal ovaries; antibacterial properties; antioxidant activity; antioxidants; chitosan; cytotoxicity; histology; nanoparticles; nanosilver; oxidative stress; polymers; stabilizers; tissue repair; tissues; transmission electron microscopy
Abstract:
... The aim of the present study was to prepare chitosan-PVA-silver nanoparticles (CS-AgNPs) through green method. Chitosan and PVA polymers acted as stabilizing agents. DLS and TEM analyses showed that CS-AgNPs were homogeneously dispersed in matrix with an average size of 190–200 nm. The CS-AgNPs were tested for their antioxidant and antibacterial properties and the results revealed that they exhibi ...
DOI:
10.1016/j.bbagen.2018.10.010

4. Biophysical simulations and structure-based modeling of residue interaction networks in the tumor suppressor proteins reveal functional role of cancer mutation hotspots in molecular communication

Author:
Verkhivker, Gennady M.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 210-225
ISSN:
0304-4165
Subject:
loss-of-function mutation; models; molecular dynamics; neoplasms; phenotype; protein structure; regression analysis; tumor suppressor genes; tumor suppressor proteins
Abstract:
... In the current study, we have combined molecular simulations and energetic analysis with dynamics-based network modeling and perturbation response scanning to determine molecular signatures of mutational hotspot residues in the p53, PTEN, and SMAD4 tumor suppressor proteins. By examining structure, energetics and dynamics of these proteins, we have shown that inactivating mutations preferentially ...
DOI:
10.1016/j.bbagen.2018.10.009

5. Boron inhibits apoptosis in hyperapoptosis condition: Acts by stabilizing the mitochondrial membrane and inhibiting matrix remodeling

Author:
Routray, Indusmita; Ali, Shakir
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 144-152
ISSN:
0304-4165
Subject:
DNA damage; abnormal development; apoptosis; boron; caspase-3; cytochrome c; diabetes; membrane potential; mitochondria; mitochondrial membrane; models; neurodegenerative diseases; phosphatidylserines; protective effect
Abstract:
... An abnormally high apoptosis has been associated with a number of clinical conditions including embryonal malformations and various pathologies such as neuronal degeneration and diabetes. In this study, boron is reported to inhibit apoptosis in hyperapoptosis conditions as demonstrated in a model of hyperapoptosis. Boron is a metalloid which is present in food in small amounts and is suggested her ...
DOI:
10.1016/j.bbagen.2018.10.007

6. Catechin-mediated restructuring of a bacterial toxin inhibits activity

Author:
Chang, En Hyung; Huang, Joanne; Lin, Zixiang; Brown, Angela C.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 191-198
ISSN:
0304-4165
Subject:
Actinobacillus actinomycetemcomitans; antibacterial properties; bacteria; bacterial toxins; catechin; cholesterol; circular dichroism spectroscopy; confocal microscopy; cytotoxicity; fluorescence; humans; leaves; leukocytes; leukotoxins; mechanism of action; polyphenols; staining; tea; virulence
Abstract:
... Catechins, polyphenols derived from tea leaves, have been shown to have antibacterial properties, through direct killing of bacteria as well as through inhibition of bacterial toxin activity. In particular, certain catechins have been shown to have bactericidal effects on the oral bacterium, Aggregatibacter actinomycetemcomitans, as well as the ability to inhibit a key virulence factor of this org ...
DOI:
10.1016/j.bbagen.2018.10.011
PubMed:
30342156
PubMed Central:
PMC6235716

7. Characterization of an RNase with two catalytic centers. Human RNase6 catalytic and phosphate-binding site arrangement favors the endonuclease cleavage of polymeric substrates

Author:
Prats-Ejarque, Guillem; Blanco, Jose A.; Salazar, Vivian A.; Nogués, Victòria M.; Moussaoui, Mohammed; Boix, Ester
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 105-117
ISSN:
0304-4165
Subject:
Primates; X-ray diffraction; active sites; anions; antimicrobial proteins; binding sites; crystal structure; enzyme activity; histidine; humans; lysine; phosphates; polymers; ribonucleases; site-directed mutagenesis
Abstract:
... Human RNase6 is a small cationic antimicrobial protein that belongs to the vertebrate RNaseA superfamily. All members share a common catalytic mechanism, which involves a conserved catalytic triad, constituted by two histidines and a lysine (His15/His122/Lys38 in RNase6 corresponding to His12/His119/Lys41 in RNaseA). Recently, our first crystal structure of human RNase6 identified an additional Hi ...
DOI:
10.1016/j.bbagen.2018.09.021

8. Characterization of a nucleus located mollusc mitoferrin and its response to OsHV-1 infection

Author:
Xin, Lusheng; Huang, Bowen; Li, Chen; Bai, Changming; Wang, Chongming
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 255-265
ISSN:
0304-4165
Subject:
clams; ferritin; functional properties; genes; immunohistochemistry; iron; iron absorption; mitochondria; pathogens
Abstract:
... Mitoferrin genes as members of SLC25 family are conservatively existed across species, mainly locate on mitochondria and serve an important role in the regulation of whole cellular iron metabolism. Available iron withholding from pathogens presents an important host defense strategy, while the regulation role of mitoferrin against invading pathogens is largely unknown. In this study, a unique moll ...
DOI:
10.1016/j.bbagen.2018.10.014

9. Circulating small non-coding RNAs provide new insights into vitamin K nutrition and reproductive physiology in teleost fish

Author:
Fernández, Ignacio; Fernandes, Jorge M.O.; Roberto, Vânia P.; Kopp, Martina; Oliveira, Catarina; Riesco, Marta F.; Dias, Jorge; Cox, Cymon J.; Leonor Cancela, M.; Cabrita, Elsa; Gavaia, Paulo
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 39-51
ISSN:
0304-4165
Subject:
DNA fragmentation; Solea senegalensis; bioinformatics; biomarkers; blood coagulation; blood plasma; brain; dietary supplements; estriol; fish; fish nutrition; gene expression regulation; gonads; males; messenger RNA; non-coding RNA; nutritional status; reproductive performance; skeletal development; sperm quality; spermatogenesis; testosterone; viability; vitamin K
Abstract:
... Vitamin K (VK) is a fat-soluble vitamin known for its essential role in blood coagulation, but also on other biological processes (e.g. reproduction, brain and bone development) have been recently suggested. Nevertheless, the molecular mechanisms behind its particular function on reproduction are not yet fully understood.The potential role of VK on reproduction through nutritional supplementation ...
DOI:
10.1016/j.bbagen.2018.09.017

10. Deinococcus radiodurans' SRA-HNH domain containing protein Shp (Dr1533) is involved in faithful genome inheritance maintenance following DNA damage

Author:
Ferrandi, Alex; Castani, Federica; Pitaro, Mauro; Tagliaferri, Sara; de la Tour, Claire Bouthier; Alduina, Rosa; Sommer, Suzanne; Fasano, Mauro; Barbieri, Paola; Mancini, Monica; Bonapace, Ian Marc
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 118-129
ISSN:
0304-4165
Subject:
DNA; DNA damage; DNA repair; Deinococcus radiodurans; Escherichia coli; bioinformatics; cytosine; deoxyribonucleases; enzyme activity; genome; homologous recombination; inheritance (genetics); irradiation; kanamycin; knockout mutants; loci; manganese; molecular cloning; mutagens; oligonucleotides
Abstract:
... Deinococcus radiodurans R1 (DR) survives conditions of extreme desiccation, irradiation and exposure to genotoxic chemicals, due to efficient DNA breaks repair, also through Mn2+ protection of DNA repair enzymes.Possible annotated domains of the DR1533 locus protein (Shp) were searched by bioinformatic analysis. The gene was cloned and expressed as fusion protein. Band-shift assays of Shp or the S ...
DOI:
10.1016/j.bbagen.2018.09.020

11. Dimerization of an aptamer generated from Ligand-guided selection (LIGS) yields a high affinity scaffold against B-cells

Author:
Batool, Sana; Argyropoulos, Kimon V.; Azad, Roksana; Okeoma, Precious; Zumrut, Hasan; Bhandari, Sanam; Dekhang, Rigzin; Mallikaratchy, Prabodhika R.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 232-240
ISSN:
0304-4165
Subject:
B-lymphocytes; DNA; RNA; antibodies; confocal microscopy; dimerization; image analysis; immunoglobulin M; ligands; neoplasm cells; neoplasms; oligonucleotides; therapeutics
Abstract:
... Nucleic Acid Aptamers (NAAs) are a class of synthetic DNA or RNA molecules that bind specifically to their target. We recently introduced an aptamer termed R1.2 against membrane Immunoglobulin M (mIgM) expressing B-cell neoplasms using Ligand Guided Selection (LIGS). While LIGS-generated aptamers are highly specific, their lower affinity prevents aptamers from being used for translational applicat ...
DOI:
10.1016/j.bbagen.2018.10.006
PubMed:
30342154
PubMed Central:
PMC6248343

12. Identification of amino acid residues critical for the B cell growth-promoting activity of HIV-1 matrix protein p17 variants

Author:
He, Wangxiao; Mazzuca, Pietro; Yuan, Weirong; Varney, Kristen; Bugatti, Antonella; Cagnotto, Alfredo; Giagulli, Cinzia; Rusnati, Marco; Marsico, Stefania; Diomede, Luisa; Salmona, Mario; Caruso, Arnaldo; Lu, Wuyuan; Caccuri, Francesca
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 13-24
ISSN:
0304-4165
Subject:
B-lymphocytes; HIV infections; Human immunodeficiency virus 1; Western blotting; agar; amino acids; cell proliferation; circular dichroism spectroscopy; denaturation; disulfide bonds; epitopes; non-Hodgkin lymphoma; nuclear magnetic resonance spectroscopy; patients; protein conformation; receptors; signal transduction; surface plasmon resonance; synthetic peptides
Abstract:
... HIV-1 matrix protein p17 variants (vp17s) detected in HIV-1-infected patients with non-Hodgkin's lymphoma (HIV-NHL) display, differently from the wild-type protein (refp17), B cell growth-promoting activity. Biophysical analysis revealed that vp17s are destabilized as compared to refp17, motivating us to explore structure-function relationships.We used: biophysical techniques (circular dichroism ( ...
DOI:
10.1016/j.bbagen.2018.09.016

13. Insulin adsorption onto zinc oxide nanoparticle mediates conformational rearrangement into amyloid-prone structure with enhanced cytotoxic propensity

Author:
Asthana, Shreyasi; Hazarika, Zaved; Nayak, Parth Sarathi; Roy, Jyoti; Jha, Anupam Nath; Mallick, Bibekanand; Jha, Suman
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 153-166
ISSN:
0304-4165
Subject:
X-ray diffraction; adsorption; amyloidosis; calorimetry; cell lines; circular dichroism spectroscopy; cytotoxicity; dye binding; dyes; fluorescence; insulin; molecular dynamics; nanoparticles; pH; patients; proteins; simulation models; titration; transmission electron microscopy; zinc oxide
Abstract:
... Injection localized amyloidosis is one of the most prevalent disorders in type II diabetes mellitus (TIIDM) patients relying on insulin injections. Previous studies have reported that nanoparticles can play a role in the amyloidogenic process of proteins. Hence, the present study deals with the effect of zinc oxide nanoparticles (ZnONP) on the amyloidogenicity and cytotoxicity of insulin.ZnONP is ...
DOI:
10.1016/j.bbagen.2018.10.004

14. Insulin-like growth factor type I selectively binds to G-quadruplex structures

Author:
Chen, Hongbo; Sun, Hongxia; Chai, Yahong; Zhang, Suge; Guan, Aijiao; Li, Qian; Yao, Li; Tang, Yalin
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 31-38
ISSN:
0304-4165
Subject:
binding capacity; circular dichroism spectroscopy; energy transfer; fluorescence; fluorescence emission spectroscopy; growth and development; insulin-like growth factor I; ligands; melting; nucleotide motifs; proteins; surface plasmon resonance; therapeutics; topology
Abstract:
... G-quadruplex has been viewed as a promising therapeutic target in oncology due to its potentially important roles in physiological and pathological processes. Emerging evidence suggests that the biological functions of G-quadruplexes are closely related to the binding of some proteins. Insulin-like growth factor type I (IGF-1), as a significant modulator of cell growth and development, may serve a ...
DOI:
10.1016/j.bbagen.2018.09.022

15. Lifetime-based photoconversion of EGFP as a tool for FLIM

Author:
Herman, Petr; Holoubek, Aleš; Brodska, Barbora
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 266-277
ISSN:
0304-4165
Subject:
T-lymphocytes; absorption; biomedical research; cell lines; fluorescence; fluorescent proteins; image analysis; irradiation; mutants; photochemistry; solvents; viscosity
Abstract:
... EGFP is a fluorescent tag extensively used in biological and biomedical research. Over the years many researches have gathered collections of cell lines bearing specific EGFP-tagged proteins. Despite its popularity some photochemical properties of EGFP remain undocumented and unused. We report on so far unexplored lifetime photoconversion of EGFP usable in FLIM.Fluorescence lifetime imaging and sp ...
DOI:
10.1016/j.bbagen.2018.10.016

16. Long-chain polyphosphate in osteoblast matrix vesicles: Enrichment and inhibition of mineralization

Author:
Li, Lina; Khong, Mei Li; Lui, Eric L.H.; Mebarek, Saida; Magne, David; Buchet, Rene; Tanner, Julian A.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 199-209
ISSN:
0304-4165
Subject:
4',6-diamidino-2-phenylindole; cartilage; chick embryos; confocal microscopy; enzymatic treatment; eukaryotic cells; fluorescence; gel chromatography; hydroxyapatite; mammals; mineralization; models; osteoblasts; polyacrylamide gel electrophoresis; prokaryotic cells; staining; transmission electron microscopy; urea
Abstract:
... Inorganic polyphosphate (polyP) is a fundamental and ubiquitous molecule in prokaryotes and eukaryotes. PolyP has been found in mammalian tissues with particularly high levels of long-chain polyP in bone and cartilage where critical questions remain as to its localization and function. Here, we investigated polyP presence and function in osteoblast-like SaOS-2 cells and cell-derived matrix vesicle ...
DOI:
10.1016/j.bbagen.2018.10.003

17. Loss of cytosolic Mg2+ binding sites in the Thermotoga maritima CorA Mg2+ channel is not sufficient for channel opening

Author:
Kowatz, Thomas; Maguire, Michael E.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 25-30
ISSN:
0304-4165
Subject:
Thermotoga maritima; binding sites; cobalt; crystal structure; magnesium; mutants; proteins
Abstract:
... The CorA Mg2+ channel is a homopentamer with five-fold symmetry. Each monomer consists of a large cytoplasmic domain and two transmembrane helices connected via a short periplasmic loop. In the Thermotoga maritima CorA crystal structure, a Mg2+ is bound between D89 of one monomer and D253 of the adjacent monomer (M1 binding site). Release of Mg2+ from these sites has been hypothesized to cause ope ...
DOI:
10.1016/j.bbagen.2018.09.001
PubMed:
30293964
PubMed Central:
PMC6342003

18. Methylation of selenocysteine catalysed by thiopurine S-methyltransferase

Author:
Urbančič, Dunja; Kotar, Anita; Šmid, Alenka; Jukič, Marko; Gobec, Stanislav; Mårtensson, Lars-Göran; Plavec, Janez; Mlinarič-Raščan, Irena
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 182-190
ISSN:
0304-4165
Subject:
S-adenosylmethionine; active sites; binding properties; computer simulation; enzymatic reactions; fluorescence; humans; methylation; methylselenocysteine; nuclear magnetic resonance spectroscopy; selenium; stable isotopes; thiopurine S-methyltransferase; tryptophan
Abstract:
... Methylation driven by thiopurine S-methylatransferase (TPMT) is crucial for deactivation of cytostatic and immunosuppressant thiopurines. Despite its remarkable integration into clinical practice, the endogenous function of TPMT is unknown.To address the role of TPMT in methylation of selenium compounds, we established the research on saturation transfer difference (STD) and 77Se NMR spectroscopy, ...
DOI:
10.1016/j.bbagen.2018.10.002

19. Microwave characterization of low-molecular-weight antioxidant specific biomarkers

Author:
Naumova, Natalia; Hlukhova, Hanna; Barannik, Alexander; Gubin, Alexey; Protsenko, Irina; Cherpak, Nickolay; Vitusevich, Svetlana
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 226-231
ISSN:
0304-4165
Subject:
ascorbic acid; biomarkers; chemical reactions; dielectric properties; glutathione; metabolites; reactive oxygen species
Abstract:
... Antioxidants play a crucial role in the life sciences, as the regulators of biochemical reactions. We studied the dielectric properties of the low-molecular weight antioxidant specific biomarkers sodium ascorbate and glutathione in solutions of different concentrations. The biomarkers are multifunctional metabolites relevant to the reactive oxygen species (ROS) scavenging system of cells. The newl ...
DOI:
10.1016/j.bbagen.2018.10.013

20. Modulating α-synuclein fibril formation using DNA tetrahedron nanostructures

Author:
Yoo, Wan Ki; Ryu, Bum Han; Kim, Kyoung-Ran; Wang, Ying; Le, Ly Thi Huong Luu; Lee, Jun Hyuck; Kim, Kyeong Kyu; Toth, Gergely; Ahn, Dae-Ro; Doohun Kim, T.
Source:
Biochimica et biophysica acta 2019 v.1863 no.1 pp. 73-81
ISSN:
0304-4165
Subject:
DNA; Parkinson disease; amyloid; atomic force microscopy; cytotoxicity; etiology; fluorescence; light scattering; nanomaterials; therapeutics; toxicity testing; transmission electron microscopy
Abstract:
... The small presynaptic protein α-synuclein (α-syn) is involved in the etiology of Parkinson's disease owing to its abnormal misfolding. To date, little information is known on the role of DNA nanostructures in the formation of α-syn amyloid fibrils. Here, the effects of DNA tetrahedrons on the formation of α-syn amyloid fibrils were investigated using various biochemical and biophysical methods suc ...
DOI:
10.1016/j.bbagen.2018.09.025