journal
MENU ▼
Read by QxMD icon Read
search

Biochemical Journal

journal
https://www.readbyqxmd.com/read/28424368/spatial-intensity-distribution-analysis-quantifies-the-extent-and-regulation-of-homo-dimerization-of-the-secretin-receptor
#1
Richard J Ward, John D Pediani, Kaleeckal G Harikumar, Laurence J Miller, Graeme Milligan
Previous studies have indicated that the G protein-coupled secretin receptor is present as a homo-dimer, organized through symmetrical contacts in transmembrane domain IV, and that receptor dimerization is critical for high potency signalling by secretin. However, whether all of the receptor exists in the dimeric form or if this is regulated, is unclear. We used measures of quantal brightness of the secretin receptor tagged with monomeric enhanced green fluorescent protein (mEGFP) and Spatial Intensity Distribution Analysis to assess this...
April 19, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28408432/1-n-6-%C3%AE-hydroxypropanoadenine-the-acrolein-adduct-to-adenine-is-a-substrate-for-alkb-dioxygenase
#2
Małgorzata Dylewska, Jarosław Tomasz Kuśmierek, Tomasz Pilzys, Jarosław Poznański, Agnieszka Monika Maciejewska
1,N(6)-α-hydroxypropanoadenine (HPA) is an exocyclic DNA adduct of acrolein - an environmental pollutant and endocellular oxidative stress product. E. coli AlkB dioxygenase belongs to the superfamily of α-ketoglutarate (αKG)- and iron-dependent dioxygenases which remove alkyl lesions from bases via an oxidative mechanism, thereby restoring native DNA structure. Here, we provide in vivo and in vitro evidence that HPA is mutagenic and is effectively repaired by AlkB dioxygenase. HPA generated in plasmid DNA caused A→C and A→T transversions and, less frequently, A→G transitions...
April 13, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28408431/molecular-basis-for-the-interaction-between-stress-inducible-phosphoprotein-1-stip1-and-s100a1
#3
Andrzej Maciejewski, Vania F Prado, Marco A M Prado, Wing-Yiu Choy
Stress-inducible phosphoprotein 1 (STIP1) is a cellular co-chaperone, which regulates Hsp70 and Hsp90 activity during client protein folding. Members of the S100-family of dimeric calcium binding proteins have been found to inhibit Hsp association with STIP1 through binding of STIP1 tetratricopeptide repeat (TPR) domains, possibly regulating the chaperone cycle. Here we investigated the molecular basis of S100A1 binding to STIP1. We show that three S100A1 dimers associate with one molecule of STIP1 in a calcium-dependent manner...
April 13, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28389436/identification-of-residues-critical-for-proton-coupled-glutathione-translocation-in-the-yeast-glutathione-transporter-hgt1p
#4
Mohammad Zulkifli, Anand Kumar Bachhawat
Proton gradient acts as the driving force for the transport of many metabolites across fungal and plant plasma membranes. Identifying the mechanism of proton relay is critical for understanding the mechanism of transport mediated by these transporters. We have investigated two strategies for identifying residues critical for proton dependent substrate transport in the yeast glutathione transporter, Hgt1p, a member of poorly understood OPT family of transporters. In the first strategy we tried to identify the pH-independent mutants that could grow at higher pH when dependant on glutathione transport...
April 7, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28385879/transcriptional-and-translational-adaptation-to-aerobic-nitrate-anabolism-in-the-denitrifier-paracoccus-denitrificans
#5
Víctor M Luque-Almagro, Isabel Manso, Matthew J Sullivan, Gary Rowley, Stuart John Ferguson, Conrado Moreno-Vivián, David J Richardson, Andrew J Gates, María Dolores Roldán
Transcriptional adaptation to nitrate-dependent anabolism by Paracoccus denitrificans PD1222 was studied. A total of 74 genes were induced in cells grown with nitrate as N-source compared to ammonium, including nasTSABGHC and ntrBC genes. The nasT and nasS genes were cotranscribed, although nasT was more strongly induced by nitrate than nasS The nasABGHC genes constituted a transcriptional unit, which is preceded by a non-coding region containing hairpin structures involved in transcription termination. The nasTS and nasABGHC transcripts were detected at similar levels with nitrate or glutamate as N-source, but nasABGHC transcript was undetectable in ammonium-grown cells...
April 6, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28381646/analysis-of-phosphoinositide-3-kinase-inhibitors-by-bottom-up-electron-transfer-dissociation-hydrogen-deuterium-exchange-mass-spectrometry
#6
Glenn Robert Masson, Sarah L Maslen, Roger L Williams
Until recently, one of the major limitations of Hydrogen/Deuterium Exchange Mass Spectrometry (HDX-MS) was the peptide-level resolution afforded by proteolytic digestion. This limitation can be selectively overcome through the use of Electron Transfer Dissociation (ETD) to fragment peptides in a manner that allows the retention of the deuterium signal to produce Hydrogen Deuterium Exchange Tandem Mass Spectrometry (HDX-MS/MS). Here we describe the application of HDX-MS/MS to structurally screen inhibitors of the oncogene phosphoinositide 3-kinase (PI3K) catalytic p110α subunit...
April 5, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28381645/effect-of-position-specific-single-point-mutations-%C3%A2-and-%C3%A2-biophysical-characterization-of-amyloidogenic-peptide-fragments-identified-from-lattice-corneal-dystrophy-%C3%A2-patients
#7
Venkatraman Anandalakshmi, Elavazhagan Murugan, Eunice Tze Leng Goh, Lim Wei Ting, Shyam S Chaurasia, Toshio Yamazaki, Toshio Nagashima, Benjamin Lawrence George, Gary Swee Lim Peh, Konstantin Pervushin, R Lakshminarayanan, Jodhbir S Mehta
Corneal stromal dystrophies are a group of genetic disorders that may be caused by mutations in the TGFBI gene which results in the aggregation and deposition of mutant proteins in various layers of the cornea. The type of amino acid substitution dictates the age of onset, anatomical location of the deposits, morphological features of deposits (amyloid, amorphous powder or a mixture of both forms) and the severity of disease presentation. It has been suggested that abnormal turn over and aberrant proteolytic processing of the mutant proteins results in the accumulation of insoluble protein deposits...
April 5, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28377494/arabidopsis-fructokinase-like-protein-associations-are-regulated-by-atp
#8
John W Riggs, Judy Callis
The Arabidopsis thaliana FRUCTOKINASE-LIKE PROTEINs FLN1 and FLN2 are required for the differentiation of plastids into photosynthetically-competent chloroplasts. However, their specific roles are unknown. FLN1 and FLN2 localize in a multi-subunit prokaryotic-type polymerase (PEP) complex that transcribes genes encoding components of photosynthesis-related assemblies. Despite sequence identity to fructokinases, which are members of the pfkB family of enzymes, kinase activity of FLN1 and FLN2 has not been demonstrated...
April 4, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28377493/roles-of-leu28-side-chain-intercalation-in-the-interaction-between-cren7-and-dna
#9
Zhenfeng Zhang, Mohan Zhao, Li Wang, Yuanyuan Chen, Yuhui Dong, Yong Gong, Li Huang
Crenarchaeal chromatin protein Cren7 binds double-stranded DNA in the minor groove, introducing a sharp single-step DNA kink. The side chain of Leu28, a residue conserved among all Cren7 homologues, intercalates into the kink DNA step. In this study, we replaced Leu28 with a residue containing a hydrophobic side chain of different sizes (i.e., L28A, L28V, L28I, L28M and L28F). Both the stability of the Cren7-DNA complex and the ability of Cren7 to constrain DNA supercoils correlated well with the size of the intercalated side chain...
April 4, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28356402/the-biochemical-properties-of-the-two-arabidopsis-thaliana-isochorismate-synthases
#10
Keith M Macaulay, Geraldine Ann Heath, Alessio Ciulli, Alexandra Marie Murphy, Chris Abell, John Peter Carr, Alison G Smith
The important plant hormone salicylic acid (SA; 2-hydroxybenzoic acid) regulates several key plant responses including, most notably, defence against pathogens. A key enzyme for SA biosynthesis is isochorismate synthase (ICS), which converts chorismate to isochorismate, for which there are two genes in Arabidopsis thaliana . One ( AtICS1 ) has been shown to be required for increased SA biosynthesis in response to pathogens and its expression can be stimulated throughout the leaf by virus infection and exogenous SA...
March 29, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28341809/structural-basis-of-molecular-recognition-of-helical-histone-h3-tail-by-phd-finger-domains
#11
Alessio Bortoluzzi, Anastasia Amato, Xavier Lucas, Manuel Blank, Alessio Ciulli
The plant homeodomain (PHD) fingers are amongst the largest family of epigenetic domains, first characterized as readers of methylated H3K4. Readout of histone post-translational modifications by PHDs has been the subject of intense investigation, however less is known about the recognition of secondary structure features within histone tail itself. We solved the crystal structure of the PHD finger of the bromodomain adjacent to zinc finger 2A (BAZ2A, also known as TIP5) in complex with unmodified N-terminal histone H3 tail...
March 29, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28341808/protein-coalation-a-redox-regulated-protein-modification-by-coenzyme-ain-mammalian-cells
#12
Yugo Tsuchiya, Sew Peak-Chew, Clare Newell, Sheritta Miller-Aidoo, Sriyash Mangal, Alexander Zhyvoloup, Jovana Baković, Oksana Malanchuk, Gonçalo Pereira, Vassilios Kotiadis, Gyorgy Szabadkai, Michael Duchen, Mark Campbell, Sergio Rodriguez Cuenca, Antonio Vidal-Puig, Andrew James, Michael P Murphy, Valeriy Filonenko, Mark Skehel, Ivan Gout
Coenzyme A (CoA) is an obligatory cofactor in all branches of life. CoA and its derivatives are involved in major metabolic pathways, allosteric interactions and the regulation of gene expression. Abnormal biosynthesis and homeostasis of CoA and its derivatives have been associated with various human pathologies, including cancer, diabetes and neurodegeneration. Using an anti-CoA monoclonal antibody and mass spectrometry we identified a wide range of cellular proteins which are modified by covalent attachment of CoA to cysteine thiols (CoAlation)...
March 24, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28341807/the-human-cancer-cell-active-toxin-cry41aa-from-bacillus-thuringiensis-acts-like-its-insecticidal-counterparts
#13
Vidisha Krishnan, Barbara Domanska, Alicia Elhigazi, Fatai Afolabi, Michelle J West, Neil Crickmore
Understanding how certain protein toxins from the normally insecticidal bacterium Bacillus thuringiensis target human cell lines has implications for both the risk assessment of products containing these toxins and potentially for cancer therapy. This understanding requires knowledge of whether the human cell active toxins work by the same mechanism as their insecticidal counterparts or by alternative ones. The B. thuringiensis Cry41Aa (also known as Parasporin3) toxin is structurally related to the toxins synthesized by commercially produced transgenic insect-resistant plants, with the notable exception of an additional C-terminal beta-trefoil ricin domain...
March 24, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28320779/the-g2385r-risk-factor-for-parkinson-s-disease-enhances-chip-dependent-intracellular-degradation-of-lrrk2
#14
Iakov N Rudenko, Alice Kaganovich, Rebekah G Langston, Aleksandra Beilina, Kelechi Ndukwe, Ravindran Kumaran, Allissa A Dillman, Ruth Chia, Mark R Cookson
Autosomal dominant mutations in leucine-rich repeat kinase 2 ( LRRK2 ) are associated with Parkinson's disease (PD). Most pathogenic LRRK2 mutations result in amino-acid substitutions in the central ROC-COR-Kinase triple domain and affect enzymatic functions of the protein. However, there are several variants in LRRK2 , including the risk factor G2385R, that impact PD pathogenesis by unknown mechanisms. Previously, we have shown that G2385R LRRK2 has decreased kinase activity in vitro and altered affinity to LRRK2 interactors...
March 20, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28302767/effect-of-different-%C3%AE-subunit-isoforms-on-the-regulation-of-ampk
#15
Robin Willows, Naveenan Navaratnam, Ana Lima, Jon Read, David Carling
AMP-activated protein kinase (AMPK) plays a key role in integrating metabolic pathways in response to energy demand. AMPK activation results in a wide range of downstream responses, many of which are associated with improved metabolic outcome, making AMPK an attractive target for the treatment of metabolic diseases. AMPK is a heterotrimeric complex consisting of a catalytic subunit (α) and two regulatory subunits (β and γ). The γ subunit harbours the nucleotide binding sites and plays an important role in AMPK regulation in response to cellular energy levels...
March 16, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28298475/purification-and-biochemical-characterization-of-npabcg5-nppdr5-a-plant-pleiotropic-drug-resistance-transporter-expressed-in-nicotiana-tabacum-by-2-suspension-cells
#16
Frédéric Toussaint, Baptiste Pierman, Aurélie Bertin, Daniel Lévy, Marc Boutry
Pleiotropic drug resistance (PDR) transporters belong to the ABCG subfamily of ATP binding cassette (ABC) transporters and are involved in the transport of various molecules across plasma membranes. During evolution PDR genes appeared independently in fungi and in plants from a duplication of a half-size ABC gene. The enzymatic properties of purified PDR transporters from yeast have been characterized. This is not the case for any plant PDR transporter, or, incidentally, for any purified plant ABC transporter...
March 15, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28298474/tumor-protein-d52-expression-is-post-transcriptionally-regulated-by-t-cell-intercellular-antigen-tia-1-and-tia-related-protein-via-mrna-stability
#17
Hiromi Motohashi, Yoshiki Mukudai, Chihiro Ito, Kosuke Kato, Toshikazu Shimane, Seiji Kondo, Tatsuo Shirota
Although tumor protein D52 (TPD) family proteins were first identified nearly 20 years ago, their molecular regulatory mechanisms remain unclear. Therefore, we investigated the post-transcriptional regulation of TPD52 family genes. An RNA immunoprecipitation assay showed the potential binding ability of TPD52 family mRNAs to several RNA-binding proteins, and an RNA degradation assay revealed that TPD52 is subject to more prominent post-transcriptional regulation than TPD53 and 54. We subsequently focused on the 3'-untranslated region (3'-UTR) of TPD52 as a cis -acting element in post-transcriptional gene regulation...
March 15, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28280111/usp7-deubiquitinase-controls-hiv-1-production-by-stabilizing-tat-protein
#18
Amjad Ali, Rameez Raja, Sabihur Rahman Farooqui, Shaista Ahmad, Akhil C Banerjea
Deubiquitinases (DUBs) are key regulators of complex cellular processes.  HIV-1 Tat is synthesized early after infection and is mainly responsible for enhancing viral production. Here, we report that one of the DUBs, USP7, stabilized HIV-1 Tat protein through its deubiquitination. Treatment with either general DUB inhibitor (PR-619) or USP7-specific inhibitor (P5091) resulted in Tat protein degradation. USP7-specific inhibitor reduced virus production in latently infected T-lymphocytic cell line J1.1, which produces large amounts of HIV-1 upon stimulation...
March 9, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28258151/staphylococcus-aureussdre-captures-the-factor-h-c-terminus-via-a-novel-close-dock-lock-and-latch-mechanism-for-complement-evasion
#19
Yingjie Zhang, Minhao Wu, Tianrong Hang, Chengliang Wang, Ye Yang, Weimin Pan, Jianye Zang, Min Zhang, Xuan Zhang
Complement factor H (CFH) is a soluble complement regulatory protein essential for the downregulation of the alternative pathway upon interaction with specific markers on host cell surface. It recognizes the complement component 3b (C3b) and 3d (C3d) fragments in addition to self cell markers (i.e. glycosaminoglycans (GAG), sialic acid) to distinguish host cells that deserve protection from pathogens that need elimination. The Staphylococcus aureus surface protein serine-aspartate repeat protein E (SdrE) was previously reported to bind human CFH as an immune-evasion tactic...
March 3, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/28246335/dynamic-regulation-of-extracellular-atp-in-escherichia-coli
#20
Cora Lilia Alvarez, Gerardo Corradi, Natalia Lauri, Irene Marginedas-Freixa, María Florencia Leal Denis, Nicolás Enrique, Sabina María Mate, Verónica Milesi, Mariano Anibal Ostuni, Vanesa Herlax, Pablo J Schwarzbaum
We studied the kinetics of extracellular ATP (ATPe) in Escherichia coli , and their outer membrane vesicles (OMVs) stimulated with amphipatic peptides melittin (MEL) and mastoparan 7 (MST7). Real time luminometry was used to measure ATPe kinetics, ATP release and ATPase activity. The latter was also determined by following [(32)P]Pi released from [γ-(32)P]ATP. E. coli was studied alone, coincubated with Caco-2 cells or in rat jejunum segments. In E. coli , addition of [γ-(32)P]ATP led to uptake and subsequent hydrolysis of ATPe...
February 28, 2017: Biochemical Journal
journal
journal
25492
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"