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Protein turnover

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https://www.readbyqxmd.com/read/28924046/in-silico-modeling-of-the-cryptic-e2-ubiquitin-binding-site-of-e6-associated-protein-e6ap-ube3a-reveals-the-mechanism-of-polyubiquitin-chain-assembly
#1
Virginia P Ronchi, Elizabeth D Kim, Christopher M Summa, Jennifer M Klein, Arthur L Haas
To understand the mechanism for assembly of Lys(48)-linked polyubiquitin degradation signals, we previously demonstrated the E6AP/UBE3A ligase harbors two functionally-distinct E2~ubiquitin binding sites: a high-affinity Site 1 required for E6AP Cys(820)~ubiquitin thioester formation and a canonical Site 2 responsible for subsequent chain elongation. Ordered binding to Sites 1 and 2 is here revealed by observation of UbcH7~ubiquitin-dependent substrate inhibition of chain formation at micromolar concentrations...
September 18, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28923951/bpm-cul3-e3-ligase-modulates-thermotolerance-by-facilitating-negative-regulatory-domain-mediated-degradation-of-dreb2a-in-arabidopsis
#2
Kyoko Morimoto, Naohiko Ohama, Satoshi Kidokoro, Junya Mizoi, Fuminori Takahashi, Daisuke Todaka, Junro Mogami, Hikaru Sato, Feng Qin, June-Sik Kim, Yoichiro Fukao, Masayuki Fujiwara, Kazuo Shinozaki, Kazuko Yamaguchi-Shinozaki
DEHYDRATION-RESPONSIVE ELEMENT BINDING PROTEIN 2A (DREB2A) acts as a key transcription factor in both drought and heat stress tolerance in Arabidopsis and induces the expression of many drought- and heat stress-inducible genes. Although DREB2A expression itself is induced by stress, the posttranslational regulation of DREB2A, including protein stabilization, is required for its transcriptional activity. The deletion of a 30-aa central region of DREB2A known as the negative regulatory domain (NRD) transforms DREB2A into a stable and constitutively active form referred to as DREB2A CA...
September 18, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28923350/ascorbate-starvation-alters-endoplasmic-reticulum-resident-enzymes-in-cardiac-fibroblasts-priming-them-for-increased-procollagen-secretion
#3
Randy T Cowling, Joong Il Park, Ayodeji E Sotimehin, Barry H Greenberg
Since ascorbate is unnecessary for cell growth and survival, cardiac fibroblasts are routinely cultured without it. However, ascorbate is necessary for optimal collagen synthesis, so we hypothesized that its presence would influence cell phenotype. Cardiac fibroblasts cultured without ascorbate had increased intracellular levels of procollagens, with procollagen α1(III) showing the largest accumulation. Endoplasmic reticulum (ER)-resident proteins that are known to bind single-stranded procollagens were also elevated...
September 15, 2017: Journal of Molecular and Cellular Cardiology
https://www.readbyqxmd.com/read/28918740/methylglyoxal-and-small-heat-shock-proteins
#4
REVIEW
M V Sudnitsyna, N B Gusev
Methylglyoxal is a highly reactive dicarbonyl compound formed during glucose metabolism and able to modify phospholipids, nucleic acids, and proteins belonging to the so-called dicarbonyl proteome. Small heat shock proteins participating in protection of the cell against different unfavorable conditions can be modified by methylglyoxal. The probability of methylglyoxal modification is increased in the case of distortion of glucose metabolism (diabetes), in the case of utilization of glycolysis as the main source of energy (malignancy), and/or at low rate of modified protein turnover...
July 2017: Biochemistry. Biokhimii︠a︡
https://www.readbyqxmd.com/read/28918527/alterations-in-epididymal-proteomics-and-antioxidant-activity-of-mice-exposed-to-fluoride
#5
Zilong Sun, Sujuan Li, Yuxiang Yu, Hongyu Chen, Mohammad Mehdi Ommati, Ram Kumar Manthari, Ruiyan Niu, Jundong Wang
It is well known that high fluoride results in low fertility. Epididymis is the important place for spermatozoa maturation, which is essential for successful fertilization. In the previous studies, fluoride was reported to damage the epididymal structure of mouse and rabbit. However, the mechanism underlying sodium fluoride (NaF)-induced epididymal toxicity has not yet been well elucidated. The aim of this study is to explore the global protein alterations in epididymis of mice exposed to NaF using the iTRAQ technique...
September 16, 2017: Archives of Toxicology
https://www.readbyqxmd.com/read/28918244/determinants-and-regulation-of-protein-turnover-in-yeast
#6
Miguel Martin-Perez, Judit Villén
Protein turnover maintains the recycling needs of the proteome, and its malfunction has been linked to aging and age-related diseases. However, not all proteins turnover equally, and the factors that contribute to accelerate or slow down turnover are mostly unknown. We measured turnover rates for 3,160 proteins in exponentially growing yeast and analyzed their dependence on physical, functional, and genetic properties. We found that functional characteristics, including protein localization, complex membership, and connectivity, have greater effect on turnover than sequence elements...
September 13, 2017: Cell Systems
https://www.readbyqxmd.com/read/28918148/mammalian-target-of-rapamycin-signaling-and-ubiquitin-proteasome-related-gene-expression-in-3-different-skeletal-muscles-of-colostrum-versus-formula-fed-calves
#7
H Sadri, J Steinhoff-Wagner, Harald M Hammon, R M Bruckmaier, S Görs, H Sauerwein
The rates of protein turnover are higher during the neonatal period than at any other time in postnatal life. The mammalian target of rapamycin (mTOR) and the ubiquitin-proteasome system are key pathways regulating cellular protein turnover. The objectives of this study were (1) to elucidate the effect of feeding colostrum versus milk-based formula on the mRNA abundance of key components of the mTOR pathway and of the ubiquitin-proteasome system in skeletal muscle of neonatal calves and (2) to compare different muscles...
September 13, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28918129/where-do-substrates-of-diacylglycerol-kinases-come-from-diacylglycerol-kinases-utilize-diacylglycerol-species-supplied-from-phosphatidylinositol-turnover-independent-pathways
#8
REVIEW
Fumio Sakane, Satoru Mizuno, Daisuke Takahashi, Hiromichi Sakai
Diacylglycerol kinase (DGK) phosphorylates diacylglycerol (DG) to produce phosphatidic acid (PA). Mammalian DGK comprises ten isozymes (α-κ) and regulates a wide variety of physiological and pathological events, such as cancer, type II diabetes, neuronal disorders and immune responses. DG and PA consist of various molecular species that have different acyl chains at the sn-1 and sn-2 positions, and consequently, mammalian cells contain at least 50 structurally distinct DG/PA species. Because DGK is one of the components of phosphatidylinositol (PI) turnover, the generally accepted dogma is that all DGK isozymes utilize 18:0/20:4-DG derived from PI turnover...
September 9, 2017: Advances in Biological Regulation
https://www.readbyqxmd.com/read/28915035/photoelectrochemistry-of-photosystem-ii-in-vitro-vs-in-vivo
#9
Jenny Z Zhang, Paolo Bombelli, Katarzyna P Sokol, Andrea Fantuzzi, A William Rutherford, Christopher J Howe, Erwin Reisner
Factors governing the photoelectrochemical output of photosynthetic microorganisms are poorly understood, which can lead to energy losses through inefficient electron transfer (ET) processes. Here, we systematically compare the photoe-lectrochemistry of photosystem II (PSII) protein-films to cyano-bacteria biofilms to derive: (i) the losses in light-to-charge con-version efficiencies, (ii) gains in photocatalytic longevity, and (iii) insights into the ET mechanism at the biofilm interface. This study was enabled by the use of hierarchically structured elec-trodes, which could be tailored for high/stable loadings of PSII core complexes and Synechocystis sp...
September 15, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28913868/alterations-of-c-di-gmp-turnover-proteins-modulate-semi-constitutive-rdar-biofilm-formation-in-commensal-and-uropathogenic-escherichia-coli
#10
Annika Cimdins, Roger Simm, Fengyang Li, Petra Lüthje, Kaisa Thorell, Åsa Sjöling, Annelie Brauner, Ute Römling
Agar plate-based biofilm of enterobacteria like Escherichia coli is characterized by expression of the extracellular matrix components amyloid curli and cellulose exopolysaccharide, which can be visually enhanced upon addition of the dye Congo Red, resulting in a red, dry, and rough (rdar) colony morphology. Expression of the rdar morphotype depends on the transcriptional regulator CsgD and occurs predominantly at ambient temperature in model strains. In contrast, commensal and pathogenic isolates frequently express the csgD-dependent rdar morphotype semi-constitutively, also at human host body temperature...
September 15, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28911098/the-smap2-rna-binding-motif-in-the-3-utr-affects-mrna-stability-in-the-crenarchaeum-sulfolobus-solfataricus
#11
Birgit Märtens, Kundan Sharma, Henning Urlaub, Udo Bläsi
Sm and Sm-like proteins represent an evolutionarily conserved family with key roles in RNA metabolism in Pro- and Eukaryotes. In this study, a collection of 53 mRNAs that co-purified with Sulfolobus solfataricus (Sso) SmAP2 were surveyed for a specific RNA binding motif (RBM). SmAP2 was shown to bind with high affinity to the deduced consensus RNA binding motif (SmAP2-cRBM) in vitro. Residues in SmAP2 interacting with the SmAP2-cRBM were mapped by UV-induced crosslinking in combination with mass-spectrometry, and verified by mutational analyses...
September 6, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28906250/the-aaa-protein-msp1-mediates-clearance-of-excess-tail-anchored-proteins-from-the-peroxisomal-membrane
#12
Nicholas R Weir, Roarke A Kamber, James S Martenson, Vladimir Denic
Msp1 is a conserved AAA ATPase in budding yeast localized to mitochondria where it prevents accumulation of mistargeted tail-anchored (TA) proteins, including the peroxisomal TA protein Pex15. Msp1 also resides on peroxisomes but it remains unknown how native TA proteins on mitochondria and peroxisomes evade Msp1 surveillance. We used live-cell quantitative cell microscopy tools and drug-inducible gene expression to dissect Msp1 function. We found that a small fraction of peroxisomal Pex15, exaggerated by overexpression, is turned over by Msp1...
September 14, 2017: ELife
https://www.readbyqxmd.com/read/28904206/a-disease-associated-frameshift-mutation-in-caveolin-1-disrupts-caveolae-formation-and-function-through-introduction-of-a-de-novo-er-retention-signal
#13
Courtney A Copeland, Bing Han, Ajit Tiwari, Eric D Austin, James E Loyd, James D West, Anne K Kenworthy
Caveolin-1 (CAV1) is an essential component of caveolae and is implicated in numerous physiological processes. Recent studies have identified heterozygous mutations in the CAV1 gene in patients with pulmonary arterial hypertension (PAH), but the mechanisms by which these mutations impact caveolae assembly and contribute to disease remain unclear. To address this question, we examined the consequences of a familial PAH-associated frameshift mutation in CAV1, P158PfsX22, on caveolae assembly and function. We show that C-terminus of the CAV1 P158 protein contains a functional ER-retention signal that inhibits ER exit and caveolae formation and accelerates CAV1 turnover in Cav1(-/-) MEFs...
September 13, 2017: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/28900007/e46k-%C3%AE-synuclein-pathological-mutation-causes-cell-autonomous-toxicity-without-altering-protein-turnover-or-aggregation
#14
Ignacio Íñigo-Marco, Miguel Valencia, Laura Larrea, Ricardo Bugallo, Mikel Martínez-Goikoetxea, Iker Zuriguel, Montserrat Arrasate
α-Synuclein (aSyn) is the main driver of neurodegenerative diseases known as "synucleinopathies," but the mechanisms underlying this toxicity remain poorly understood. To investigate aSyn toxic mechanisms, we have developed a primary neuronal model in which a longitudinal survival analysis can be performed by following the overexpression of fluorescently tagged WT or pathologically mutant aSyn constructs. Most aSyn mutations linked to neurodegenerative disease hindered neuronal survival in this model; of these mutations, the E46K mutation proved to be the most toxic...
September 12, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28899103/drfrne-represents-a-hitherto-unknown-class-of-eubacterial-cytoplasmic-disulfide-oxido-reductases
#15
Subhash C Bihani, Lata Panicker, Yogendra S Rajpurohit, Hari S Misra, Vinay Kumar
Aims Living cells employ thioredoxin and glutaredoxin disulfide oxido-reductases to protect thiol groups in intracellular proteins. FrnE protein of Deinococcus radiodurans (drFrnE) is a disulfide oxido-reductase induced in response to Cd2+ exposure and is involved in cadmium and radiation tolerance. The aim of the present study is to probe structure, function and cellular localization of FrnE class of proteins. Results Here we show drFrnE as a novel cytoplasmic oxido-reductase that could be functional in eubacteria under conditions where thioredoxin/glutaredoxin systems are inhibited or absent...
September 13, 2017: Antioxidants & Redox Signaling
https://www.readbyqxmd.com/read/28898250/effects-of-proteasome-inhibitor-mg-132-on-the-parasite-schistosoma-mansoni
#16
Enyara R Morais, Katia C Oliveira, Renato G de Paula, Alice M M Ornelas, Érika B C Moreira, Fernanda Rafacho Badoco, Lizandra G Magalhães, Sergio Verjovski-Almeida, Vanderlei Rodrigues
Proteasome is a proteolytic complex responsible for intracellular protein turnover in eukaryotes, archaea and in some actinobacteria species. Previous work has demonstrated that in Schistosoma mansoni parasites, the proteasome inhibitor MG-132 affects parasite development. However, the molecular targets affected by MG-132 in S. mansoni are not entirely known. Here, we used expression microarrays to measure the genome-wide changes in gene expression of S. mansoni adult worms exposed in vitro to MG-132, followed by in silico functional analyses of the affected genes using Ingenuity Pathway Analysis (IPA)...
2017: PloS One
https://www.readbyqxmd.com/read/28891228/investigating-a-biomarker-driven-approach-to-target-collagen-turnover-in-diabetic-heart-failure-with-preserved-ejection-fraction-patients-effect-of-torasemide-vs-furosemide-on-serum-c-terminal-propeptide-of-procollagen-type-i-drop-pip-trial
#17
Tobias Daniel Trippel, Sophie Van Linthout, Dirk Westermann, Ruhdja Lindhorst, Anja Sandek, Stefanie Ernst, Anna Bobenko, Mario Kasner, Frank Spillmann, Arantxa González, Begoña López, Susana Ravassa, Burkert Pieske, Walter J Paulus, Javier Díez, Frank Edelmann, Carsten Tschöpe
AIM: Heart failure with preserved ejection fraction (HFpEF) is associated with myocardial remodelling including severe pro-fibrotic changes contributing to an increase in left ventricular stiffness and diastolic dysfunction. Serum C-terminal propeptide of procollagen type I (PIP) strongly correlates with the turnover of extracellular cardiac matrix proteins and fibrosis. Torasemide, but not furosemide, was described to reduce collagen type I synthesis in clinically unstable patients with heart failure with reduced ejection fraction...
September 11, 2017: European Journal of Heart Failure
https://www.readbyqxmd.com/read/28890418/arc-ubiquitination-in-synaptic-plasticity
#18
REVIEW
Angela M Mabb, Michael D Ehlers
The activity-regulated cytoskeleton-associated protein (Arc) is a neuron-expressed activity regulated immediate early gene (IEG) product that is essential for memory consolidation and serves as a direct readout for neural activation during learning. Arc contributes to diverse forms of synaptic plasticity mediated by the trafficking of α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors. Notably, Arc protein expression abruptly increases and then rapidly decreases following augmented network activity...
September 7, 2017: Seminars in Cell & Developmental Biology
https://www.readbyqxmd.com/read/28889298/semiquantitative-analysis-of-the-red-dry-and-rough-colony-morphology-of-salmonella-enterica-serovar-typhimurium-and-escherichia-coli-using-congo-red
#19
Annika Cimdins, Roger Simm
The Congo Red (CR) assay is a standard biofilm test assessing the colony morphology of bacteria growing on agar plates supplemented with the diazo dye Congo Red. Biofilm forming Salmonella enterica serovar Typhimurium and Escherichia coli produce a red, dry, and rough (rdar) morphotype on CR-plates. The phenotype is characterized by staining of the extracellular matrix components curli (brown color) and cellulose (pink color) by CR. This method allows semiquantitative determination of the expression level of the individual matrix components and dissection of the regulatory networks controlling their production in response to c-di-GMP levels...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28888693/n-terminus-determines-activity-and-specificity-of-styrene-monooxygenase-reductases
#20
Thomas Heine, Anika Scholtissek, Adrie H Westphal, Willem J H van Berkel, Dirk Tischler
Styrene monooxygenases (SMOs) are two-enzyme systems that catalyze the enantioselective epoxidation of styrene to (S)-styrene oxide. The FADH2 co-substrate of the epoxidase component (StyA) is supplied by an NADH-dependent flavin reductase (StyB). The genome of Rhodococcus opacus 1CP encodes two SMO systems. One system, which we define as E1-type, displays homology to the SMO from Pseudomonas taiwanensis VLB120. The other system, originally reported as a fused system (RoStyA2B), is defined as E2-type. Here we found that E1-type RoStyB is inhibited by FMN, while RoStyA2B is known to be active with FMN...
September 6, 2017: Biochimica et Biophysica Acta
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