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Journal articles on the topic 'Arginine clusters'

Author: Grafiati

Published: 6 September 2023

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1

Horbal, Liliya, Marc Stierhof, Anja Palusczak, Nikolas Eckert, Josef Zapp, and Andriy Luzhetskyy. "Cyclofaulknamycin with the Rare Amino Acid D-capreomycidine Isolated from a Well-Characterized Streptomyces albus Strain." Microorganisms 9, no. 8 (2021): 1609. http://dx.doi.org/10.3390/microorganisms9081609.

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Targeted genome mining is an efficient method of biosynthetic gene cluster prioritization within constantly growing genome databases. Using two capreomycidine biosynthesis genes, alpha-ketoglutarate-dependent arginine beta-hydroxylase and pyridoxal-phosphate-dependent aminotransferase, we identified two types of clusters: one type containing both genes involved in the biosynthesis of the abovementioned moiety, and other clusters including only arginine hydroxylase. Detailed analysis of one of the clusters, the flk cluster from Streptomyces albus, led to the identification of a cyclic peptide t

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Shaikh, A. R., and D. Shah. "Arginine-Amino Acid Interactions and Implications to Protein Solubility and Aggregation." Journal of Engineering Research [TJER] 12, no. 2 (2015): 1. http://dx.doi.org/10.24200/tjer.vol12iss2pp1-14.

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Arginine, useful in protein refolding, solubilization of proteins, and suppression of protein aggregation and non-specific adsorption during formulation and purification, is a ubiquitous additive in the biotechnology and pharmaceutical industries. In order to provide a framework for analyzing the molecular level mechanisms behind arginine/protein interactions in the above context, density functional theory was used to systematically examine how arginine interacts with naturally occurring amino acids. The results show that the most favorable interaction of arginine is with acidic amino acids an

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Bentham, Matthew, Sabine Mazaleyrat, and Mark Harris. "Role of myristoylation and N-terminal basic residues in membrane association of the human immunodeficiency virus type 1 Nef protein." Journal of General Virology 87, no. 3 (2006): 563–71. http://dx.doi.org/10.1099/vir.0.81200-0.

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Human immunodeficiency virus type 1 Nef protein is N-terminally myristoylated, a modification reported to be required for the association of Nef with cytoplasmic membranes. As myristate alone is not sufficient to anchor a protein stably into a membrane, it has been suggested that N-terminal basic residues contribute to Nef membrane association via electrostatic interactions with acidic phospholipids. Here, data are presented pertaining to the role of the myristate and basic residues in Nef membrane association, subcellular localization and function. Firstly, by using a biochemical assay for me

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Luo, Xiaomei, and Juncheng Liu. "Transcriptome Analysis of Acid-Responsive Genes and Pathways Involved in Polyamine Regulation in Iron Walnut." Genes 10, no. 8 (2019): 605. http://dx.doi.org/10.3390/genes10080605.

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We reported changes in the co-regulated mRNA expression in iron walnut (Juglans sigillata) in response to soil pH treatments and identified mRNAs specific to acidic soil conditions. Phenotypic and physiological analyses revealed that iron walnut growth was greater for the pH 4–5 and pH 5–6 treatments than for the pH 3–4 and pH 6–7 treatments. A total of 2768 differentially expressed genes were detected and categorized into 12 clusters by Short Time-series Expression Miner (STEM). The 994 low-expression genes in cluster III and 255 high-expression genes in cluster X were classified as acid-resp

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Brudar, Sandi, and Barbara Hribar-Lee. "The Effect of Arginine on the Phase Stability of Aqueous Hen Egg-White Lysozyme Solutions." International Journal of Molecular Sciences 24, no. 2 (2023): 1197. http://dx.doi.org/10.3390/ijms24021197.

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The effect of arginine on the phase stability of the hen egg-white lysozyme (HEWL) has been studied via molecular dynamics computer simulations, as well as experimentally via cloud-point temperature determination. The experiments show that the addition of arginine increases the stability of the HEWL solutions. The computer simulation results indicate that arginine molecules tend to self-associate. If arginine residues are located on the protein surface, the free arginine molecules stay in their vicinity and prevent the way protein molecules “connect” through them to form clusters. The results

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6

Kohbara, J., W. Michel, and J. Caprio. "Responses of single facial taste fibers in the channel catfish, Ictalurus punctatus, to amino acids." Journal of Neurophysiology 68, no. 4 (1992): 1012–26. http://dx.doi.org/10.1152/jn.1992.68.4.1012.

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1. Amino acids and nucleotides stimulate taste receptors of teleosts. In this report, responses to these compounds of 105 facial taste fibers (79 fully characterized) that innervate maxillary barbel taste buds of the channel catfish (Ictalurus punctatus) were analyzed. 2. The fully characterized facial taste fibers that responded to amino acids (n = 68) were generally poorly responsive to nucleotides and related substances (NRS), whereas the fibers responsive to NRS (n = 11) were poorly responsive to amino acids. Spike discharge of the amino acid-responsive fibers to the most potent amino acid

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Smart, W. C., J. A. Coffman, and T. G. Cooper. "Combinatorial regulation of the Saccharomyces cerevisiae CAR1 (arginase) promoter in response to multiple environmental signals." Molecular and Cellular Biology 16, no. 10 (1996): 5876–87. http://dx.doi.org/10.1128/mcb.16.10.5876.

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CAR1 (arginase) gene expression responds to multiple environmental signals; expression is induced in response to the intracellular accumulation of arginine and repressed when readily transported and catabolized nitrogen sources are available in the environment. Up to 14 cis-acting sites and 9 trans-acting factors have been implicated in regulated CAR1 transcription. In all but one case, the sites are redundant. To test whether these sites actually participate in CAR1 expression, each class of sites was inactivated by substitution mutations that retained the native spacing of the CAR1 cis-actin

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8

Smart, Scott E., Viktor Dubovoy, and Long Pan. "Stabilization of cationic aluminum hydroxide clusters in high pH environments with a CaCl2/l-arginine matrix." Chemical Communications 55, no. 43 (2019): 5998–6001. http://dx.doi.org/10.1039/c9cc01463b.

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9

Nam, Yong-Suk, Ana Petrovic, Kyu-Shik Jeong, and Sundararajan Venkatesan. "Exchange of the Basic Domain of Human Immunodeficiency Virus Type 1 Rev for a Polyarginine Stretch Expands the RNA Binding Specificity, and a Minimal Arginine Cluster Is Required for Optimal RRE RNA Binding Affinity, Nuclear Accumulation, andtrans-Activation." Journal of Virology 75, no. 6 (2001): 2957–71. http://dx.doi.org/10.1128/jvi.75.6.2957-2971.2001.

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ABSTRACT The Rev regulatory protein of human immunodeficiency virus (HIV) facilitates the nuclear export of unspliced and partially spliced HIV RNAs. Using a Rev:MS2 phage coat protein fusion that could be targeted to bind and activate the Rev-responsive element (RRE) RNA or heterologous MS2 phage operator RNA, we analyzed the role(s) of the arginine-rich RNA binding domain in RNA binding and transactivation. The arginine-rich domain could be functionally replaced by a stretch of nine arginines. However, polyarginine substitutions expanded the RNA binding specificity of the resultant mutant Re

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10

Ghiasi, Mina, Shadi Bavafa, and Mansour Zahedi. "QM study of interaction between arginine amino acid and Au clusters and the effects on arginine acidity." Gold Bulletin 54, no. 1 (2021): 45–57. http://dx.doi.org/10.1007/s13404-021-00292-7.

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11

Nielsen, T. B., K. B. Yderstraede, H. D. Schrøder, Jens Juul Holst, Klaus Brusgaard, and H. Beck-Nielsen. "Functional and Immunohistochemical Evaluation of Porcine Neonatal Islet-Like Cell Clusters." Cell Transplantation 12, no. 1 (2003): 13–25. http://dx.doi.org/10.3727/000000003783985142.

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Porcine neonatal islet-like cell clusters (NICCs) may be an attractive source of insulin-producing tissue for xenotransplantation in type I diabetic patients. We examined the functional and immunohistochemical outcome of the islet grafts in vitro during long-term culture and in vivo after transplantation to athymic nude mice. On average we obtained 29,000 NICCs from each pancreas. In a perifusion system, NICCs responded poorly to a glucose challenge alone, but 10 mmol/L arginine elicited a fourfold increase in insulin secretion and 16.7 mmol/L glucose + 10 mmol/L arginine caused a sevenfold in

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12

Wu, Qiong, Jing Lu, Xiao Lin Ji, et al. "A New Organic-Inorganic Hybrid Based on L-Arginine and Polyoxoanion." Advanced Materials Research 1105 (May 2015): 335–38. http://dx.doi.org/10.4028/www.scientific.net/amr.1105.335.

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Modifying polyoxometalates with organic and/or metal-organic moieties is a widely adopted method for broading the range of properties. In this work a new polyoxometalate constructed from Anderson-type polyoxoanions and L-arginine (Arg =L-arginine) molecules Na [CrMo6(OH)6O18]}(H2Arg)2·8H2O(1) has been synthesized via conventional method and characterized by routine techniques. Single-crystal X-Ray diffraction analysis shows that compound 1 is constructed by chiralL-arginine grafted Anderson-type clusters, sodium cation and water molecules which are further stabilized by hydrogen bonding intera

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Yang, David S., Arash Saeedi, Aram Davtyan, et al. "Mesoscopic protein-rich clusters host the nucleation of mutant p53 amyloid fibrils." Proceedings of the National Academy of Sciences 118, no. 10 (2021): e2015618118. http://dx.doi.org/10.1073/pnas.2015618118.

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The protein p53 is a crucial tumor suppressor, often called “the guardian of the genome”; however, mutations transform p53 into a powerful cancer promoter. The oncogenic capacity of mutant p53 has been ascribed to enhanced propensity to fibrillize and recruit other cancer fighting proteins in the fibrils, yet the pathways of fibril nucleation and growth remain obscure. Here, we combine immunofluorescence three-dimensional confocal microscopy of human breast cancer cells with light scattering and transmission electron microscopy of solutions of the purified protein and molecular simulations to

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14

Martin-Kearley, Jennifer, John A. Gow, Marc Péloquin, and Charles W. Greer. "Numerical analysis and the application of random amplified polymorphic DNA polymerase chain reaction to the differentiation of Vibrio strains from a seasonally cold ocean." Canadian Journal of Microbiology 40, no. 6 (1994): 446–55. http://dx.doi.org/10.1139/m94-073.

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Eighty regional strains of Vibrio isolated from the seasonally cold waters of coastal Newfoundland, and a number of Vibrio reference cultures, were studied. The regional strains had been isolated from the brown macroalga Alaria esculenta and the giant scallop Placopecten magellanicus and were known to grow at 4 °C. The strains were grouped according to their arginine-dihydrolase reactions and examined by numerical analysis. According to phenotypic properties the arginine-dihydrolase positive strains closely resembled Vibrio splendidus biovar I. Most clusters of the arginine-dihydrolase negativ

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Hutcheon, G. W., and A. Bolhuis. "The archaeal twin-arginine translocation pathway." Biochemical Society Transactions 31, no. 3 (2003): 686–89. http://dx.doi.org/10.1042/bst0310686.

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The twin-arginine translocation (Tat) pathway is a system with the unique ability to export proteins in a fully folded conformation. Its main components are TatA, TatB and TatC, all of which are required for Tat-dependent export. The Tat pathway is found in several Archaea, and in most of them a moderate number of predicted Tat-dependent substrates are present. Putative substrates include those binding cofactors such as iron–sulphur clusters and molybdopterin. In these Archaea, the role of the Tat pathway seems to be similar to that of bacteria: the export of a small subset of proteins that fo

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Abdollahi, Sara, Mohammad H. Morowvat, Amir Savardashtaki, et al. "Amino Acids Sequence-based Analysis of Arginine Deiminase from Different Prokaryotic Organisms: An In Silico Approach." Recent Patents on Biotechnology 14, no. 3 (2020): 235–46. http://dx.doi.org/10.2174/1872208314666200324114441.

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Background: Arginine deiminase is a bacterial enzyme, which degrades L-arginine. Some human cancers such as hepatocellular carcinoma (HCC) and melanoma are auxotrophic for arginine. Therefore, PEGylated arginine deiminase (ADI-PEG20) is a good anticancer candidate with antitumor effects. It causes local depletion of L-arginine and growth inhibition in arginineauxotrophic tumor cells. The FDA and EMA have granted orphan status to this drug. Some recently published patents have dealt with this enzyme or its PEGylated form. Objective: Due to increasing attention to it, we aimed to evaluate and co

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17

Julian, Ryan R., J. L. Beauchamp, and William A. Goddard. "Cooperative Salt Bridge Stabilization of Gas-Phase Zwitterions in Neutral Arginine Clusters." Journal of Physical Chemistry A 106, no. 1 (2002): 32–34. http://dx.doi.org/10.1021/jp013205i.

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18

Zhang, Duxi, Lianming Wu, Kim Koch, and R. Cooks. "Arginine clusters generated by electrospray ionization and identified by tandem mass spectrometry." European Journal of Mass Spectrometry 5, no. 1 (1999): 353. http://dx.doi.org/10.1255/ejms.295.

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19

Bragg, Jennifer N., Diane M. Lawrence та Andrew O. Jackson. "The N-Terminal 85 Amino Acids of the Barley Stripe Mosaic Virus γb Pathogenesis Protein Contain Three Zinc-Binding Motifs". Journal of Virology 78, № 14 (2004): 7379–91. http://dx.doi.org/10.1128/jvi.78.14.7379-7391.2004.

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ABSTRACT Barley stripe mosaic virus RNAγ encodes γb, a cysteine-rich protein that affects pathogenesis. Nine of the eleven cysteines are concentrated in two clusters, designated C1 (residues 1 to 23) and C2 (residues 60 to 85), that are arranged in zinc finger-like motifs. A basic motif (BM) rich in lysine and arginine (residues 19 to 47) resides between the C1 and C2 clusters. We have demonstrated that γb binds zinc and that the C1, BM, and C2 motifs have independent zinc-binding activities. To evaluate the requirements for binding, mutations were introduced into each region. Cysteine residue

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20

McCorvie, Thomas J., Paula M. Loria, Meihua Tu, et al. "Molecular basis for the regulation of human glycogen synthase by phosphorylation and glucose-6-phosphate." Nature Structural & Molecular Biology 29, no. 7 (2022): 628–38. http://dx.doi.org/10.1038/s41594-022-00799-3.

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AbstractGlycogen synthase (GYS1) is the central enzyme in muscle glycogen biosynthesis. GYS1 activity is inhibited by phosphorylation of its amino (N) and carboxyl (C) termini, which is relieved by allosteric activation of glucose-6-phosphate (Glc6P). We present cryo-EM structures at 3.0–4.0 Å resolution of phosphorylated human GYS1, in complex with a minimal interacting region of glycogenin, in the inhibited, activated and catalytically competent states. Phosphorylations of specific terminal residues are sensed by different arginine clusters, locking the GYS1 tetramer in an inhibited state vi

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van Oers, Nicolai, Laura DeFord-Watts, David Dougall та ін. "The TCR CD3 ζ subunit contains a charged inositol phospholipid-binding sequence that supports T cell interactions with antigen presenting cells (50.4)". Journal of Immunology 184, № 1_Supplement (2010): 50.4. http://dx.doi.org/10.4049/jimmunol.184.supp.50.4.

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Abstract TCR-mediated intracellular signal transmission commences following the tyrosine phosphorylation of the CD3-encoded ITAMs. The CD3 ζ subunit, containing three ITAMs per chain, becomes one of the more heavily phosphorylated of the CD3 chains. The cytoplasmic tail of CD3 ζ contains multiple clusters of basic amino acids lysine and arginine. A number of transmembrane and cytosolic proteins, including the CD3 ϵ subunit, use these types of clusters to bind phospholipids. We report that the cytoplasmic tail of CD3 ζ contains a phospholipid-binding cluster with a relatively high affinity for

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22

Deverson, Edward V., Louise Leong, Angela Seelig, et al. "Functional Analysis by Site-Directed Mutagenesis of the Complex Polymorphism in Rat Transporter Associated with Antigen Processing." Journal of Immunology 160, no. 6 (1998): 2767–79. http://dx.doi.org/10.4049/jimmunol.160.6.2767.

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Abstract The transporter associated with Ag processing, TAP, is an endoplasmic reticulum resident heterodimeric member of the ATP-binding cassette transporter family. TAP transports short peptides from cytosol to the endoplasmic reticulum lumen for loading into recently synthesized class I MHC molecules. In the rat, two alleles of the TAP2 chain differ in their permissiveness to the transport of peptides with small hydrophobic, polar, or charged amino acids at the C terminus, and this correlates with differences between the peptide sets loaded into certain class I molecules in vivo. We have us

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Mitrou, Nicholas, Christopher G. Scully, Branko Braam, Ki H. Chon, and William A. Cupples. "Laser speckle contrast imaging reveals large-scale synchronization of cortical autoregulation dynamics influenced by nitric oxide." American Journal of Physiology-Renal Physiology 308, no. 7 (2015): F661—F670. http://dx.doi.org/10.1152/ajprenal.00022.2014.

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Synchronization of tubuloglomerular feedback (TGF) dynamics in nephrons that share a cortical radial artery is well known. It is less clear whether synchronization extends beyond a single cortical radial artery or whether it extends to the myogenic response (MR). We used LSCI to examine cortical perfusion dynamics in isoflurane-anesthetized, male Long-Evans rats. Inhibition of nitric oxide synthases by Nω-nitro-l-arginine methyl ester (l-NAME) was used to alter perfusion dynamics. Phase coherence (PC) was determined between all possible pixel pairs in either the MR or TGF band (0.09–0.3 and 0.

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Lin, Jianwei, Murray S. R. Smith, Bernard E. Tuch, David A. Walsh, and Danny K. Y. Wong. "Detection of NO at Small Carbon Electrodes as a Means to Assess the Inhibition Efficiency in its Release from Foetal Pig Islet-Like Cell Clusters." Australian Journal of Chemistry 56, no. 3 (2003): 167. http://dx.doi.org/10.1071/ch02204.

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As a xenotransplant, foetal pig islet-like cell clusters (ICCs) are tissues with a potential to reverse hyperglycaemia in Type I diabetes. Following the exposure of ICCs to some pro-inflammatory cytokine factors, the amino acid L-arginine is catalytically cleaved into NO. A cascade of events is then triggered by the NO, leading to tissue apoptosis. In our laboratory, N-monomethyl-L-arginine (an antagonist of NO formation) and heat shock treatment (an inhibitor of NO synthetic enzyme) have been used to prevent pathological injuries in cytokine-induced ICCs. Chronoamperometry at Nafion-coated ca

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Gettins, Peter G. W., and Klavs Dolmer. "A proximal pair of positive charges provides the dominant ligand-binding contribution to complement-like domains from the LRP (low-density lipoprotein receptor-related protein)." Biochemical Journal 443, no. 1 (2012): 65–73. http://dx.doi.org/10.1042/bj20111867.

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The LRP (low-density lipoprotein receptor-related protein) can bind a wide range of structurally diverse ligands to regions composed of clusters of ~40 residue Ca2+-dependent, disulfide-rich, CRs (complement-like repeats). Whereas lysine residues from the ligands have been implicated in binding, there has been no quantification of the energetic contributions of such interactions and hence of their relative importance in overall affinity, or of the ability of arginine or histidine residues to bind. We have used four representative CR domains from the principal ligand-binding cluster of LRP to d

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Kern, A., K. Schmidt, C. Leder, et al. "Identification of a Heparin-Binding Motif on Adeno-Associated Virus Type 2 Capsids." Journal of Virology 77, no. 20 (2003): 11072–81. http://dx.doi.org/10.1128/jvi.77.20.11072-11081.2003.

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ABSTRACT Infection of cells with adeno-associated virus (AAV) type 2 (AAV-2) is mediated by binding to heparan sulfate proteoglycan and can be competed by heparin. Mutational analysis of AAV-2 capsid proteins showed that a group of basic amino acids (arginines 484, 487, 585, and 588 and lysine 532) contribute to heparin and HeLa cell binding. These amino acids are positioned in three clusters at the threefold spike region of the AAV-2 capsid. According to the recently resolved atomic structure for AAV-2, arginines 484 and 487 and lysine 532 on one site and arginines 585 and 588 on the other si

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He, Jinzhi, Geelsu Hwang, Yuan Liu, et al. "l-Arginine Modifies the Exopolysaccharide Matrix and Thwarts Streptococcus mutans Outgrowth within Mixed-Species Oral Biofilms." Journal of Bacteriology 198, no. 19 (2016): 2651–61. http://dx.doi.org/10.1128/jb.00021-16.

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ABSTRACTl-Arginine, a ubiquitous amino acid in human saliva, serves as a substrate for alkali production by arginolytic bacteria. Recently, exogenousl-arginine has been shown to enhance the alkalinogenic potential of oral biofilm and destabilize its microbial community, which might help control dental caries. However,l-arginine exposure may inflict additional changes in the biofilm milieu when bacteria are growing under cariogenic conditions. Here, we investigated how exogenousl-arginine modulates biofilm development using a mixed-species model containing both cariogenic (Streptococcus mutans)

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Turov, V. V., V. M. Gun'ko, and T. V. Krupska. "Methane adsorption onto silicas with various degree of hydrophobicity." Surface 13(28) (December 30, 2021): 94–126. http://dx.doi.org/10.15407/surface.2021.13.094.

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The methane adsorption onto a hydrated surface of hydrophobic silica AM1 alone and impregnated by arginine, and silica gel Si-100 has been studied using low-temperature 1H NMR spectroscopy. It has been shown that the methane adsorption onto the AM1 surface depends on the degree of hydration and pretreatment type. The maximum adsorption (up to 80 mg/g) is observed for a sample hydrated after complete drying. It has been established that the adsorption is determined by a number of clusters of bound water of small radii. Based on a shape of the temperature dependence of the adsorption, it has bee

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Adams, William M., Michael Wininger, Mitchell E. Zaplatosch, Derek J. Hevel, Jaclyn P. Maher, and Jared T. McGuirt. "Influence of Nutrient Intake on 24 Hour Urinary Hydration Biomarkers Using a Clustering-Based Approach." Nutrients 12, no. 10 (2020): 2933. http://dx.doi.org/10.3390/nu12102933.

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Previous work focusing on understanding nutrient intake and its association with total body water homeostasis neglects to consider the collinearity of types of nutrients consumed and subsequent associations with hydration biomarkers. Therefore, the purpose of this study was to analyze consumption patterns of 23 a priori selected nutrients involved in osmotic homeostasis, as well as their association with 24 h urinary hydration markers among fifty African–American first-year college students through a repeated measures observation in a daily living setting. Through application of hierarchical c

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Ye, L., Z. Wu, M. Eleftheriou, and R. Zhou. "Single-mutation-induced stability loss in protein lysozyme." Biochemical Society Transactions 35, no. 6 (2007): 1551–57. http://dx.doi.org/10.1042/bst0351551.

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Recent NMR experiments have revealed that a single residue mutation W62G on protein hen's-egg white lysozyme can cause a dramatic loss of long-range interactions and protein stability; however, the molecular mechanism for this surprising phenomenon is not completely clear. In this mini-review, we have summarized some of our recent work on the molecular mechanism with large-scale molecular modelling, and also utilized a new wavelet method to analyse the local structural clusters present in both the wild-type and mutant folding trajectories. These extensive MD (Molecular Dynamics) simulations (1

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Vagenende, Vincent, Alvin X. Han, Monika Mueller, and Bernhardt L. Trout. "Protein-Associated Cation Clusters in Aqueous Arginine Solutions and Their Effects on Protein Stability and Size." ACS Chemical Biology 8, no. 2 (2012): 416–22. http://dx.doi.org/10.1021/cb300440x.

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Ohtsuki, Kenzo, Yukihiro Nishikawa, Hitoshi Saito, Hiroshi Munakata, and Toyoki Kato. "DNA-binding sperm proteins with oligo-arginine clusters function as potent activators for egg CK-II." FEBS Letters 378, no. 2 (1996): 115–20. http://dx.doi.org/10.1016/0014-5793(95)01424-1.

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Holloman, Bryan L., Mitzi Nagarkatti, Prakash Nagarkatti, and Kiesha Wilson. "Single-cell RNA Sequencing Reveals Heterogeneity Amongst Immune Cell Subpopulations in LPS-Induced ALI Mice treated with I3C." Journal of Immunology 206, no. 1_Supplement (2021): 13.09. http://dx.doi.org/10.4049/jimmunol.206.supp.13.09.

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Abstract Traditionally, macrophage M1-vs-M2 dichotomy have remained fundamentally unchanged since their identification. The oversimplification of immune cell subpopulations using flow cytometric analysis fails to capture the full heterogeneity of these cells in response to disease state and treatment. However, single-cell RNA sequencing (sc-RNAseq) serves as a diagnostic tool that clusters cells based on the whole transcriptomics of individual cells, without the limitation of surface markers and transcriptional factors. In the current study, we aimed to better understand the immunomodulatory m

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Tolo, Isaiah, Jonathan C. Thomas, Rebecca S. B. Fischer, Eric L. Brown, Barry M. Gray, and D. Ashley Robinson. "Do Staphylococcus epidermidis Genetic Clusters Predict Isolation Sources?" Journal of Clinical Microbiology 54, no. 7 (2016): 1711–19. http://dx.doi.org/10.1128/jcm.03345-15.

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Staphylococcus epidermidisis a ubiquitous colonizer of human skin and a common cause of medical device-associated infections. The extent to which the population genetic structure ofS. epidermidisdistinguishes commensal from pathogenic isolates is unclear. Previously, Bayesian clustering of 437 multilocus sequence types (STs) in the international database revealed a population structure of six genetic clusters (GCs) that may reflect the species' ecology. Here, we first verified the presence of six GCs, including two (GC3 and GC5) with significant admixture, in an updated database of 578 STs. Ne

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Tuch, Bernard E., Jocelyn C. Madrid, Ellie Summers, and Murray S. R. Smith. "Production and Characterization of Fetal Sheep Pancreatic Islet-Like Cell Clusters." Cell Transplantation 5, no. 4 (1996): 491–98. http://dx.doi.org/10.1177/096368979600500408.

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Explants of fetal sheep pancreas transplanted into diabetic athymic mice survive for many months but there is only partial differentiation of the endocrine cells. As an alternative form of graft we examined the possibility of creating islet-like cell clusters (ICCs) by collagenase digestion of the fetal sheep pancreas, as has been described for human and porcine fetal pancreas. Such ICCs did form at the rate of 6-23 per 10 mg pancreas; their size varied between 65 and 474 μm (median 232 μm) and their insulin content was 1.6 ± 0.2 mU per 20 ICCs. Laser scanning confocal analysis showed that 4.6

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Sacco-Bubulya, Paula, and David L. Spector. "Disassembly of interchromatin granule clusters alters the coordination of transcription and pre-mRNA splicing." Journal of Cell Biology 156, no. 3 (2002): 425–36. http://dx.doi.org/10.1083/jcb.200107017.

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To examine the involvement of interchromatin granule clusters (IGCs) in transcription and pre-mRNA splicing in mammalian cell nuclei, the serine-arginine (SR) protein kinase cdc2-like kinase (Clk)/STY was used as a tool to manipulate IGC integrity in vivo. Both immunofluorescence and transmission electron microscopy analyses of cells overexpressing Clk/STY indicate that IGC components are completely redistributed to a diffuse nuclear localization, leaving no residual structure. Conversely, overexpression of a catalytically inactive mutant, Clk/STY(K190R), causes retention of hypophosphorylated

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Beatch, Martin D., Jason C. Everitt, LokMan J. Law, and Tom C. Hobman. "Interactions between Rubella Virus Capsid and Host Protein p32 Are Important for Virus Replication." Journal of Virology 79, no. 16 (2005): 10807–20. http://dx.doi.org/10.1128/jvi.79.16.10807-10820.2005.

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ABSTRACT The distribution and morphology of mitochondria are dramatically affected during infection with rubella virus (RV). Expression of the capsid, in the absence of other viral proteins, was found to induce both perinuclear clustering of mitochondria and the formation of electron-dense intermitochondrial plaques, both hallmarks of RV-infected cells. We previously identified p32, a host cell mitochondrial matrix protein, as a capsid-binding protein. Here, we show that two clusters of arginine residues within capsid are required for stable binding to p32. Mutagenic ablation of the p32-bindin

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Coffey, A. K., D. J. O'Sullivan, S. Homma, T. P. Dousa, and H. Valtin. "Induction of intramembranous particle clusters in mice with nephrogenic diabetes insipidus." American Journal of Physiology-Renal Physiology 261, no. 4 (1991): F640—F646. http://dx.doi.org/10.1152/ajprenal.1991.261.4.f640.

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In mice with hereditary nephrogenic diabetes insipidus (NDI), the inability of vasopressin to increase hydraulic water permeability is reflected in a lack of intramembranous particle (IMP) clusters in apical membranes of inner medullary collecting ducts. The lack arises from anomalously high activity of one or two isozymes of adenosine 3',5'-cyclic monophosphate-phosphodiesterase (cAMP-PDE). We asked whether inhibition of these isozymes with rolipram and cilostamide would raise not only the tissue content of cAMP but also and simultaneously restore IMP clusters. Inner medullary collecting duct

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Nützmann, Hans-Wilhelm, Juliane Fischer, Kirstin Scherlach, Christian Hertweck, and Axel A. Brakhage. "Distinct Amino Acids of Histone H3 Control Secondary Metabolism in Aspergillus nidulans." Applied and Environmental Microbiology 79, no. 19 (2013): 6102–9. http://dx.doi.org/10.1128/aem.01578-13.

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ABSTRACTChromatin remodelling events play an important role in the secondary metabolism of filamentous fungi. Previously, we showed that a bacterium,Streptomyces rapamycinicus, is able to reprogram the histone-modifying Spt-Ada-Gcn5-acetyltransferase/ADA (SAGA/ADA) complex of the model fungusAspergillus nidulans. Consequently, the histone H3 amino acids lysine 9 and lysine 14 at distinct secondary metabolism genes were specifically acetylated during the bacterial fungal interaction, which, furthermore, was associated with the activation of the otherwise silent orsellinic acid gene cluster. To

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Kinsel, Gary R., Qingchun Zhao, Jayakumar Narayanasamy, et al. "Arginine/2,5-Dihydroxybenzoic Acid Clusters: An Experimental and Computational Study of the Gas-Phase and Solid-State Systems†." Journal of Physical Chemistry A 108, no. 15 (2004): 3153–61. http://dx.doi.org/10.1021/jp031207s.

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Dahl, J., U. Thathamangalam, R. Freund, and T. L. Benjamin. "Functional asymmetry of the regions juxtaposed to the membrane-binding sequence of polyomavirus middle T antigen." Molecular and Cellular Biology 12, no. 11 (1992): 5050–58. http://dx.doi.org/10.1128/mcb.12.11.5050-5058.1992.

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The functional importance of the two clusters of positively charged amino acids which flank the hydrophobic membrane-anchoring sequence of polyomavirus middle T (mT) protein has been investigated by using site-directed mutagenesis. A clear asymmetry was apparent. No effect on transformation was seen following multiple alterations or complete removal of the cluster at the carboxyl end of the protein. In contrast, a single substitution replacing the first arginine amino terminal to the hydrophobic stretch with glutamic acid, but not with lysine, histidine, or methionine, produced a partially tra

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Dahl, J., U. Thathamangalam, R. Freund, and T. L. Benjamin. "Functional asymmetry of the regions juxtaposed to the membrane-binding sequence of polyomavirus middle T antigen." Molecular and Cellular Biology 12, no. 11 (1992): 5050–58. http://dx.doi.org/10.1128/mcb.12.11.5050.

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The functional importance of the two clusters of positively charged amino acids which flank the hydrophobic membrane-anchoring sequence of polyomavirus middle T (mT) protein has been investigated by using site-directed mutagenesis. A clear asymmetry was apparent. No effect on transformation was seen following multiple alterations or complete removal of the cluster at the carboxyl end of the protein. In contrast, a single substitution replacing the first arginine amino terminal to the hydrophobic stretch with glutamic acid, but not with lysine, histidine, or methionine, produced a partially tra

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Wessolowski, A., M. Bienert, and M. Dathe. "Antimicrobial activity of arginine- and tryptophan-rich hexapeptides: the effects of aromatic clusters, d-amino acid substitution and cyclization." Journal of Peptide Research 64, no. 4 (2004): 159–69. http://dx.doi.org/10.1111/j.1399-3011.2004.00182.x.

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Ogushi, Yuji, Hiroshi Mochida, Takashi Nakakura, Masakazu Suzuki, and Shigeyasu Tanaka. "Immunocytochemical and Phylogenetic Analyses of an Arginine Vasotocin-Dependent Aquaporin, AQP-h2K, Specifically Expressed in the Kidney of the Tree Frog, Hyla japonica." Endocrinology 148, no. 12 (2007): 5891–901. http://dx.doi.org/10.1210/en.2007-0613.

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Water movement occurs across the plasma membrane of various cells of animals, plants, and microorganisms through specialized water-channel proteins called aquaporins (AQPs). We have identified a new member of the amphibian AQP family, AQP-h2K, from the kidneys of Hyla japonica. This protein consists of 280 amino acid residues with two NPA (Asn-Pro-Ala) sequence motifs and a mercury-sensitive cysteine residue just upstream from the second NPA motif. There are two putative N-linked glycosylation sites at Asn-120 and Asn-128 and one protein kinase A phosphorylation site at Ser-262. The AQP-h2K pr

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Maillard, Julien, Pierre Genevaux, and Christof Holliger. "Redundancy and specificity of multiple trigger factor chaperones in Desulfitobacteria." Microbiology 157, no. 8 (2011): 2410–21. http://dx.doi.org/10.1099/mic.0.050880-0.

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The ribosome-bound trigger factor (TF) chaperone assists folding of newly synthesized polypeptides and participates in the assembly of macromolecular complexes. In the present study we showed that multiple distinct TF paralogues are present in genomes of Desulfitobacteria, a bacterial genus known for its ability to grow using organohalide respiration. Two full-length TF chaperones and at least one truncated TF (lacking the N-terminal ribosome-binding domain) were identified, the latter being systematically linked to clusters of reductive dehalogenase genes encoding the key enzymes in organohal

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OTONKOSKI, TIMO. "Insulin and Glucagon Secretory Responses to Arginine, Glue agon, and Theophylline During Perifusion of Human Fetal Islet-Like Cell Clusters*." Journal of Clinical Endocrinology & Metabolism 67, no. 4 (1988): 734–40. http://dx.doi.org/10.1210/jcem-67-4-734.

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Ivanov, Ivan G., Adriana A. Saraffova та Mounir G. Abouhaidar. "Unusual effect of clusters of rare arginine (AGG) codons on the expression of human interferon α1 gene in Escherichia Coli". International Journal of Biochemistry & Cell Biology 29, № 4 (1997): 659–66. http://dx.doi.org/10.1016/s1357-2725(96)00161-6.

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Schmitt, Christine, Jayesh Arun Bafna, Benedikt Schmid, et al. "Manipulation of charge distribution in the arginine and glutamate clusters of the OmpG pore alters sugar specificity and ion selectivity." Biochimica et Biophysica Acta (BBA) - Biomembranes 1861, no. 10 (2019): 183021. http://dx.doi.org/10.1016/j.bbamem.2019.07.009.

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Brown, D., G. I. Shields, H. Valtin, J. F. Morris, and L. Orci. "Lack of intramembranous particle clusters in collecting ducts of mice with nephrogenic diabetes insipidus." American Journal of Physiology-Renal Physiology 249, no. 4 (1985): F582—F589. http://dx.doi.org/10.1152/ajprenal.1985.249.4.f582.

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We suggested previously, on the basis of indirect evidence, that in two strains of mice with nephrogenic defects of urinary concentration the deficiency arose from an inadequate rise in water permeability of the collecting duct system. In this study we tested the question further by assuming that the frequency of intramembranous particle (IMP) clusters seen by freeze-fracture can be used as a morphological marker of vasopressin-induced water permeability. Three genotypes of mice were studied: 1) DI +/+ Severe, with florid, vasopressin-resistant diabetes insipidus; 2) DI +/+ Nonsevere, with an

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Ruzicka, Frank J., Kafryn W. Lieder, and Perry A. Frey. "Lysine 2,3-Aminomutase from Clostridium subterminale SB4: Mass Spectral Characterization of Cyanogen Bromide-Treated Peptides and Cloning, Sequencing, and Expression of the Gene kamA in Escherichia coli." Journal of Bacteriology 182, no. 2 (2000): 469–76. http://dx.doi.org/10.1128/jb.182.2.469-476.2000.

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ABSTRACT Lysine 2,3-aminomutase (KAM, EC 5.4.3.2 .) catalyzes the interconversion of l-lysine and l-β-lysine, the first step in lysine degradation in Clostridium subterminale SB4. KAM requires S-adenosylmethionine (SAM), which mediates hydrogen transfer in a mechanism analogous to adenosylcobalamin-dependent reactions. KAM also contains an iron-sulfur cluster and requires pyridoxal 5′-phosphate (PLP) for activity. In the present work, we report the cloning and nucleotide sequencing of the gene kamA for C. subterminale SB4 KAM and conditions for its expression in Escherichia coli. The cyanogen

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