Genomes and Genes
Experts and Doctors on escherichia coli in Philadelphia, Pennsylvania, United States
Locale: Philadelphia, Pennsylvania, United States
Topic: escherichia coli
Publications167 found, 100 shown here
- Ugulava N, Surerus K, Jarrett J. Evidence from Mössbauer spectroscopy for distinct [2Fe-2S](2+) and [4Fe-4S](2+) cluster binding sites in biotin synthase from Escherichia coli. J Am Chem Soc. 2002;124:9050-1 pubmed..These data suggest that biotin synthase is evolved to simultaneously accommodate two different clusters with unique roles in catalysis. ..
- Xu L, Benson S, Butcher S, Bamford D, Burnett R. The receptor binding protein P2 of PRD1, a virus targeting antibiotic-resistant bacteria, has a novel fold suggesting multiple functions. Structure. 2003;11:309-22 pubmed..quot; The head and fin structures are well suited to recognition and attachment, and the tail is likely to trigger the processes of vertex disassembly, membrane tube formation, and subsequent DNA injection...
- Browne R, Barr E, Stitt B. Catalytic cooperativity among subunits of Escherichia coli transcription termination factor Rho. Kinetics and substrate structural requirements. J Biol Chem. 2005;280:13292-9 pubmed..The results reinforce the importance of catalytic cooperativity in normal Rho function and suggest that several protein conformations exist along the catalytic pathway. ..
- Sterner D, Nathan D, Reindle A, Johnson E, Berger S. Sumoylation of the yeast Gcn5 protein. Biochemistry. 2006;45:1035-42 pubmed..Taken together with recent identification of multiple additional subunits of SAGA as sumoylated proteins in vivo, these data suggest that Gcn5 sumoylation may have an inhibitory role in transcriptional regulation. ..
- Chaudhary K, Ting L, Kim K, Roos D. Toxoplasma gondii purine nucleoside phosphorylase biochemical characterization, inhibitor profiles, and comparison with the Plasmodium falciparum ortholog. J Biol Chem. 2006;281:25652-8 pubmed..Targeting T. gondii PNP alone is unlikely to be efficacious for treatment of toxoplasmosis. ..
- Miyashiro T, Goulian M. Stimulus-dependent differential regulation in the Escherichia coli PhoQ PhoP system. Proc Natl Acad Sci U S A. 2007;104:16305-10 pubmed
- Thomson A, Rothberg B. Voltage-dependent inactivation gating at the selectivity filter of the MthK K+ channel. J Gen Physiol. 2010;136:569-79 pubmed publisher..These results provide a quantitative working hypothesis for voltage-dependent, K(+)-sensitive inactivation gating, a property that may be common to other K(+) channels. ..
- Balasubramanian K, Stitt B. Evidence for amino acid roles in the chemistry of ATP hydrolysis in Escherichia coli Rho. J Mol Biol. 2010;404:587-99 pubmed publisher..All four mutant proteins behaved as expected for Rhos lacking the proposed mechanistic roles. The results provide firm biochemical evidence in support of the proposed model for hydrolysis chemistry. ..
- Holt J, Grant A, Coward C, Maskell D, Quinlan J. Identification of Cj1051c as a major determinant for the restriction barrier of Campylobacter jejuni strain NCTC11168. Appl Environ Microbiol. 2012;78:7841-8 pubmed publisher..The identification of this determinant provides a greater understanding of the molecular biology of C. jejuni as well as a tool for plasmid work with strain NCTC11168. ..
- Schindler U, Menkens A, Beckmann H, Ecker J, Cashmore A. Heterodimerization between light-regulated and ubiquitously expressed Arabidopsis GBF bZIP proteins. EMBO J. 1992;11:1261-73 pubmed..Furthermore, we demonstrate that GBF1, GBF2 and GBF3 heterodimerize and these heterodimers also interact with the G-box, suggesting a potential mechanism for generating additional diversity from these GBF proteins. ..
- Katz R, Merkel G, Kulkosky J, Leis J, Skalka A. The avian retroviral IN protein is both necessary and sufficient for integrative recombination in vitro. Cell. 1990;63:87-95 pubmed..In this paper, using two independent assays, we demonstrate that IN, alone, is sufficient to carry out the second step: cleavage and joining to the target DNA. These results demonstrate that the retroviral IN protein is an integrase. ..
- Edwards R, Keller L, Schifferli D. Improved allelic exchange vectors and their use to analyze 987P fimbria gene expression. Gene. 1998;207:149-57 pubmed..The expression of fasA but not fasH is dependent upon the osmolarity of the growth medium in an HNS-dependent manner, but unlike some other fimbrial systems expression is not dependent on the exogenous iron concentration. ..
- Opella S, Marassi F, Gesell J, Valente A, Kim Y, Oblatt Montal M, et al. Structures of the M2 channel-lining segments from nicotinic acetylcholine and NMDA receptors by NMR spectroscopy. Nat Struct Biol. 1999;6:374-9 pubmed..A model built from these solid-state NMR data, and assuming a symmetric pentameric arrangement of M2 helices, results in a funnel-like architecture for the channel, with the wide opening on the N-terminal intracellular side. ..
- Taylor J, Takusagawa F, Markham G. The active site loop of S-adenosylmethionine synthetase modulates catalytic efficiency. Biochemistry. 2002;41:9358-69 pubmed..The observations point to how nature can fine-tune the activity of an enzyme by modifying substrate and product access to the active site rather than by altering the enzyme x substrate contacts or the catalytic machinery itself. ..
- Zhang C, Hou Y. Domain-domain communication for tRNA aminoacylation: the importance of covalent connectivity. Biochemistry. 2005;44:7240-9 pubmed..Importantly, this study also provides new insights into the existence of several natural "split" synthetases that are now identified from genomic sequencing projects. ..
- Eniola A, Krasik E, Smith L, Song G, Hammer D. I-domain of lymphocyte function-associated antigen-1 mediates rolling of polystyrene particles on ICAM-1 under flow. Biophys J. 2005;89:3577-88 pubmed..Understanding the biophysics of adhesion mediated by the I-domain of LFA-1 can elucidate the complex roles this integrin plays in leukocyte adhesion in inflammation. ..
- Hyle E, Bilker W, Gasink L, Lautenbach E. Impact of different methods for describing the extent of prior antibiotic exposure on the association between antibiotic use and antibiotic-resistant infection. Infect Control Hosp Epidemiol. 2007;28:647-54 pubmed..The use of different methods may substantially alter the identified antimicrobial risk factors, which has important implications for the resultant interventions regarding antimicrobial use. ..
- Christian T, Hou Y. Distinct determinants of tRNA recognition by the TrmD and Trm5 methyl transferases. J Mol Biol. 2007;373:623-32 pubmed..Our results also shed new light onto the significance of the m1G37 modification in the controversial quadruplet-pairing model of tRNA frameshift suppressors...
- Miyashiro T, Goulian M. High stimulus unmasks positive feedback in an autoregulated bacterial signaling circuit. Proc Natl Acad Sci U S A. 2008;105:17457-62 pubmed publisher..Our results demonstrate a simple and general mechanism for regulating the positive feedback associated with autoregulation within a bacterial signaling circuit to boost response range and maintain a relatively uniform and graded output. ..
- Meng W, Nicholson R, Nathania L, Pertzev A, Nicholson A. New approaches to understanding double-stranded RNA processing by ribonuclease III purification and assays of homodimeric and heterodimeric forms of RNase III from bacterial extremophiles and mesophiles. Methods Enzymol. 2008;447:119-29 pubmed publisher..maritima RNases III and also describes the preparation of artificial heterodimers of Escherichia coli RNase III, which are providing new insight on the subunit and domain interactions involved in dsRNA recognition and cleavage. ..
- Kodali G, Siddiqui S, Stanley R. Charge redistribution in oxidized and semiquinone E. coli DNA photolyase upon photoexcitation: stark spectroscopy reveals a rationale for the position of Trp382. J Am Chem Soc. 2009;131:4795-807 pubmed publisher..The ramifications of vectorial charge redistribution are discussed in the context of the wider class of flavoprotein blue light photoreceptors. ..
- Taylor J, Bock C, Takusagawa F, Markham G. Discovery of novel types of inhibitors of S-adenosylmethionine synthesis by virtual screening. J Med Chem. 2009;52:5967-73 pubmed publisher..These results validate in silico screening as a robust approach to the discovery of inhibitors of this chemotherapeutically relevant enzyme. ..
- Joshi S, Cooper M, Yost A, Paff M, Ercan U, Fridman G, et al. Nonthermal dielectric-barrier discharge plasma-induced inactivation involves oxidative DNA damage and membrane lipid peroxidation in Escherichia coli. Antimicrob Agents Chemother. 2011;55:1053-62 pubmed publisher..These findings indicate that this is a major mechanism involved in FE-DBD plasma-mediated inactivation of bacteria. ..
- Rijal K, Mutharasan R. A method for DNA-based detection of E. coli O157:H7 in a proteinous background using piezoelectric-excited cantilever sensors. Analyst. 2013;138:2943-50 pubmed publisher..In order to compare the results with antibody-based detection, samples with EC at 2500 cells per mL were exposed to antibody-immobilized PEMC sensors which gave reproducible responses confirming previous experiments with such samples. ..
- Weitzmann C, Cooperman B. Reconstitution of Escherichia coli 50S ribosomal subunits containing puromycin-modified L23: functional consequences. Biochemistry. 1990;29:3458-65 pubmed..amp; Stöffler-Meilicke, M. (1988) Eur. J. Biochem. 174, 431-435]. ..
- Satishchandran C, Markham G, Moore R, Boyle S. Locations of the speA, speB, speC, and metK genes on the physical map of Escherichia coli. J Bacteriol. 1990;172:4748 pubmed
- Barker C, Makris A, Patriotis C, Bear S, Tsichlis P. Identification of the gene encoding the mitochondrial elongation factor G in mammals. Nucleic Acids Res. 1993;21:2641-7 pubmed..The cloning and characterization of the mammalian mitochondrial elongation factor G will permit us to address its role in the regulation of normal mitochondrial function and in disease states attributed to mitochondrial dysfunction. ..
- Hou Y, Zhang X, Holland J, Davis D. An important 2'-OH group for an RNA-protein interaction. Nucleic Acids Res. 2001;29:976-85 pubmed
- Khanna P, Schuman Jorns M. N-methyltryptophan oxidase from Escherichia coli: reaction kinetics with N-methyl amino acid and carbinolamine substrates. Biochemistry. 2001;40:1451-9 pubmed..The basis for the apparent stability of the MTOX.oxygen complex (K(d) = 72 microM) is unknown. ..
- Kaji A, Kiel M, Hirokawa G, Muto A, Inokuchi Y, Kaji H. The fourth step of protein synthesis: disassembly of the posttermination complex is catalyzed by elongation factor G and ribosome recycling factor, a near-perfect mimic of tRNA. Cold Spring Harb Symp Quant Biol. 2001;66:515-29 pubmed
- Murray I, Giasson B, Quinn S, Koppaka V, Axelsen P, Ischiropoulos H, et al. Role of alpha-synuclein carboxy-terminus on fibril formation in vitro. Biochemistry. 2003;42:8530-40 pubmed..Thus, the carboxy-terminus of alpha-syn may regulate aggregation of full-length alpha-syn and determine the diameter of alpha-syn filaments. ..
- Jaffe E. The porphobilinogen synthase catalyzed reaction mechanism. Bioorg Chem. 2004;32:316-25 pubmed..The reaction appears to stall at a covalently bound almost-product intermediate that is poised for breakdown to product upon binding of a substrate molecule to an adjacent active site and a subsequent conformational change. ..
- Zaoutis T, Goyal M, Chu J, Coffin S, Bell L, Nachamkin I, et al. Risk factors for and outcomes of bloodstream infection caused by extended-spectrum beta-lactamase-producing Escherichia coli and Klebsiella species in children. Pediatrics. 2005;115:942-9 pubmed..Future studies on identifying high-risk children and investigating the impact of curtailed third-generation cephalosporin use to limit additional emergence of ESBL-EK infections should be undertaken. ..
- Ishino T, Urbina C, Bhattacharya M, Panarello D, Chaiken I. Receptor epitope usage by an interleukin-5 mimetic peptide. J Biol Chem. 2005;280:22951-61 pubmed..The fact that AF17121 mimics the receptor binding capability of IL5 but antagonizes biological function evokes several models for how IL5 induces activation of the multisubunit receptor system. ..
- Lautenbach E, Tolomeo P, Mao X, Fishman N, Metlay J, Bilker W, et al. Duration of outpatient fecal colonization due to Escherichia coli Isolates with decreased susceptibility to fluoroquinolones: longitudinal study of patients recently discharged from the hospital. Antimicrob Agents Chemother. 2006;50:3939-43 pubmed..07) but was not associated with other resistance mechanisms, demographics, or antibiotic use. ..
- Hirokawa G, Kaji H, Kaji A. Inhibition of antiassociation activity of translation initiation factor 3 by paromomycin. Antimicrob Agents Chemother. 2007;51:175-80 pubmed..These results indicate that the stabilization of 70S ribosomes by paromomycin may in part be responsible for its inhibitory effects on translocation and ribosome recycling. ..
- Pimkin M, Markham G. The CBS subdomain of inosine 5'-monophosphate dehydrogenase regulates purine nucleotide turnover. Mol Microbiol. 2008;68:342-59 pubmed publisher..We conclude that the CBS subdomain of IMPDH may coordinate the activities of the enzymes of purine nucleotide metabolism and is essential for maintaining the normal ATP and GTP pool sizes in E. coli...
- Siryaporn A, Goulian M. Cross-talk suppression between the CpxA-CpxR and EnvZ-OmpR two-component systems in E. coli. Mol Microbiol. 2008;70:494-506 pubmed publisher..e. it masks the effects of mutations that would otherwise lead to increased cross-talk. The mechanisms that provide insulation against interference described here may be applicable to many other two-component systems. ..
- Lippa A, Goulian M. Feedback inhibition in the PhoQ/PhoP signaling system by a membrane peptide. PLoS Genet. 2009;5:e1000788 pubmed publisher..This new regulator may function as a point of control that integrates additional input signals to modulate the activity of this important signaling system. ..
- Nathania L, Nicholson A. Thermotoga maritima ribonuclease III. Characterization of thermostable biochemical behavior and analysis of conserved base pairs that function as reactivity epitopes for the Thermotoga 23S rRNA precursor. Biochemistry. 2010;49:7164-78 pubmed publisher..These results indicate the conservation, across a broad phylogenetic distance, of positive and negative determinants of reactivity of bacterial RNase III substrates...
- Nakamaru Ogiso E, Kao M, Chen H, Sinha S, Yagi T, Ohnishi T. The membrane subunit NuoL(ND5) is involved in the indirect proton pumping mechanism of Escherichia coli complex I. J Biol Chem. 2010;285:39070-8 pubmed publisher..The electron transfer activities were basically unaffected by EIPA in both control and mutants. Taken together, our data strongly indicate that the NuoL subunit is involved in the indirect coupling mechanism. ..
- Zelent B, Buettger C, Grimsby J, Sarabu R, Vanderkooi J, Wand A, et al. Thermal stability of glucokinase (GK) as influenced by the substrate glucose, an allosteric glucokinase activator drug (GKA) and the osmolytes glycerol and urea. Biochim Biophys Acta. 2012;1824:769-84 pubmed publisher..This study establishes the foundation for exploring numerous instability mutants among the more than 600 variant GKs causing diabetes in animals and humans...
- Narayanan M, Gabrieli D, Leung S, Elguindy M, Glaser C, Saju N, et al. Semiquinone and cluster N6 signals in His-tagged proton-translocating NADH:ubiquinone oxidoreductase (complex I) from Escherichia coli. J Biol Chem. 2013;288:14310-9 pubmed publisher..85 milliwatts. The semiquinone signal(s) decreased by 60% when with asimicin, a potent complex I inhibitor. The functional role of semiquinone and the EPR assignment of clusters N6a/N6b are discussed. ..
- Hu W, Walters B, Kan Z, Mayne L, Rosen L, Marqusee S, et al. Stepwise protein folding at near amino acid resolution by hydrogen exchange and mass spectrometry. Proc Natl Acad Sci U S A. 2013;110:7684-9 pubmed publisher..The principle of cooperativity determines the central role of native-like foldon units. An interaction principle termed "sequential stabilization" based on native-like interfoldon interactions orders the pathway. ..
- Rane A, Jonnalagadda S, Li Z. On-column refolding of bone morphogenetic protein-2 using cation exchange resin. Protein Expr Purif. 2013;90:135-40 pubmed publisher..This simple and rapid method can also be applied in refolding and purification of other BMP-2 like dimer proteins. ..
- Draghi J, Plotkin J. Selection biases the prevalence and type of epistasis along adaptive trajectories. Evolution. 2013;67:3120-31 pubmed publisher..These results show that when the order of substitutions is not known, standard methods of analysis may suggest that epistasis retards adaptation when in fact it accelerates it. ..
- ..A historical perspective that illustrates the role these two repressor molecules played and their contribution to our understanding of gene regulation is presented. ..
- Wissner R, Batjargal S, Fadzen C, Petersson E. Labeling proteins with fluorophore/thioamide Förster resonant energy transfer pairs by combining unnatural amino acid mutagenesis and native chemical ligation. J Am Chem Soc. 2013;135:6529-40 pubmed publisher..We demonstrate the utility of this approach by studying the binding of peptides to the protein calmodulin and by determining the orientation of the N- and C-termini in the amyloidogenic protein ?-synuclein. ..
- Goodman O, Krupnick J, Gurevich V, Benovic J, Keen J. Arrestin/clathrin interaction. Localization of the arrestin binding locus to the clathrin terminal domain. J Biol Chem. 1997;272:15017-22 pubmed..The terminal domain is oriented toward the plasma membrane in coated pits, and its binding of both arrestins and AP-2 suggests that this domain is the anchor responsible for adaptor-receptor recruitment to the coated pit. ..
- Parente M, Chung L, Ryynänen J, Woodley D, Wynn K, Bauer E, et al. Human type VII collagen: cDNA cloning and chromosomal mapping of the gene. Proc Natl Acad Sci U S A. 1991;88:6931-5 pubmed
- Kim K, Lawrence S, Park J, Pitts L, Vann W, Betenbaugh M, et al. Expression of a functional Drosophila melanogaster N-acetylneuraminic acid (Neu5Ac) phosphate synthase gene: evidence for endogenous sialic acid biosynthetic ability in insects. Glycobiology. 2002;12:73-83 pubmed..Homology searches of the Drosophila genome identified putative orthologues of other genes required for sialylation of glycoconjugates. ..
- Shimizu I, Kaji A. Identification of the promoter region of the ribosome-releasing factor cistron (frr). J Bacteriol. 1991;173:5181-7 pubmed..However, the RRF promoter was not affected by the intracellular cyclic AMP level despite the presence of a cyclic AMP receptor protein binding site downstream of the RRF promoter. ..
- Markham G, Satishchandran C. Identification of the reactive sulfhydryl groups of S-adenosylmethionine synthetase. J Biol Chem. 1988;263:8666-70 pubmed..Upon modification the strength of dimer-dimer interactions is diminished by at least 9 kcal/mol. ..
- Anandan S, Uram J. Genetic selection scheme for isolation of signal transduction pathway mutants. Appl Environ Microbiol. 2004;70:967-72 pubmed..The selection scheme presented here extends the molecular tools available for the genetic dissection of signal transduction pathways. ..
- Bylund J, Haines M, Walsh K, Bouloc P, D Ari R, Higgins M. Buoyant density studies of several mecillinam-resistant and division mutants of Escherichia coli. J Bacteriol. 1991;173:5396-402 pubmed
- Liao C, Gaffney T, Bradley S, Wong L. Cloning of a pectate lyase gene from Xanthomonas campestris pv. malvacearum and comparison of its sequence relationship with pel genes of soft-rot Erwinia and Pseudomonas. Mol Plant Microbe Interact. 1996;9:14-21 pubmed..Homologous pel sequences were detected in various pathovars or strains of X. campestris. All of these xanthomonads produced an alkaline Pel and were capable of causing soft-rot in potato tuber slices and green pepper fruits. ..
- Zhang C, Liu C, Christian T, Gamper H, Rozenski J, Pan D, et al. Pyrrolo-C as a molecular probe for monitoring conformations of the tRNA 3' end. RNA. 2008;14:2245-53 pubmed publisher..These results highlight the potential of PyC to probe the dynamics of the tRNA CCA end in reactions ranging from aminoacylation to those on the ribosome. ..
- Thakur M, Zhang K, Paudyal B, Devakumar D, Covarrubias M, Chen C, et al. Targeting apoptosis for optical imaging of infection. Mol Imaging Biol. 2012;14:163-71 pubmed publisher..This observation together with the excellent results and the continued development of versatile imaging devices could make optical imaging a simple, specific, and rapid modality for imaging infection. ..
- Seo H, Abedin S, Kamp D, Wilson D, Nierhaus K, Cooperman B. EF-G-dependent GTPase on the ribosome. conformational change and fusidic acid inhibition. Biochemistry. 2006;45:2504-14 pubmed..GTPase, permitting a number of GTPase turnovers prior to complete inhibition while inducing a closer approach of EF-G to the GAC than is seen during normal turnover. ..
- Rattanaumpawan P, Nachamkin I, Bilker W, Roy J, Metlay J, Zaoutis T, et al. High fluoroquinolone MIC is associated with fluoroquinolone treatment failure in urinary tract infections caused by fluoroquinolone susceptible Escherichia coli. Ann Clin Microbiol Antimicrob. 2017;16:25 pubmed publisher..This negative impact may be more intensified in other serious infections. Future studies in other clinical situations should be conducted to fill the gap of knowledge. ..
- Burnett B, Li F, Pittman R. The polyglutamine neurodegenerative protein ataxin-3 binds polyubiquitylated proteins and has ubiquitin protease activity. Hum Mol Genet. 2003;12:3195-205 pubmed..This raises the possibility that pathological AT3, which tends to misfold and aggregate, may be exposed to aggregate-prone misfolded/denatured proteins as part of its normal function. ..
- Bucki R, Pastore J. Bacterial endotoxin as inhibitor of the enzymatic activity of human thrombin. Eur J Haematol. 2006;76:510-5 pubmed..When added to platelet-rich plasma, after activation with collagen, LPS-inhibited thrombin activity. LPS-mediated inhibition of thrombin activity may contribute to the hemostasis dysfunctions observed during endotoxemia. ..
- Fu Y, Wand A. Partial alignment and measurement of residual dipolar couplings of proteins under high hydrostatic pressure. J Biomol NMR. 2013;56:353-7 pubmed publisher..However, DMPC/DHPC bicelles and collagen gel are found to be unsuitable. Evidence is presented to demonstrate that pressure-induced structural changes can be identified using the residual dipolar coupling. ..
- Haney C, Wissner R, Warner J, Wang Y, Ferrie J, J Covell D, et al. Comparison of strategies for non-perturbing labeling of Î±-synuclein to study amyloidogenesis. Org Biomol Chem. 2016;14:1584-92 pubmed publisher..The labeled Î±S can then be used to monitor conformational changes during fibril formation or cellular uptake of Î±S fibrils in models of disease propagation. ..
- Kong A, Ma M, Tao D, Yang L. Molecular cloning of two cDNAs encoding the mouse bilirubin/phenol family of UDP-glucuronosyltransferases (mUGTBr/p). Pharm Res. 1993;10:461-5 pubmed
- Behringer R, Crotty D, Tennyson V, Brinster R, Palmiter R, Wolgemuth D. Sequences 5' of the homeobox of the Hox-1.4 gene direct tissue-specific expression of lacZ during mouse development. Development. 1993;117:823-33 pubmed..These deletion experiments defined at least one cis-acting control element necessary for the expression of the Hox-1.4 gene to a 2 kb region located 2 to 4 kb 5' of the embryonic transcription start site. ..
- Lipman R, Bailey S, Jarrett J, Matthews R, Jorns M. Stereospecificity of folate binding to DNA photolyase from Escherichia coli. Biochemistry. 1995;34:11217-20 pubmed..Both methods showed that the reconstituted enzyme contained nearly equimolar amounts of [6R]- and [6S]-5,10-CH(+)-H4folate. ..
- Jarrett J, Wan J. Thermal inactivation of reduced ferredoxin (flavodoxin):NADP+ oxidoreductase from Escherichia coli. FEBS Lett. 2002;529:237-42 pubmed..Understanding factors that minimize inactivation is critical for utilizing FNR as an accessory protein for S-adenosyl-L-methionine-dependent radical enzymes and manipulating FNR as an electron source for biotechnology applications. ..
- Weinstein E, Yano T, Li L, Avarbock D, Avarbock A, Helm D, et al. Inhibitors of type II NADH:menaquinone oxidoreductase represent a class of antitubercular drugs. Proc Natl Acad Sci U S A. 2005;102:4548-53 pubmed..Several phenothiazines analogs are highly tuberculocidal in vitro, suppress Mtb growth in a mouse model of acute infection, and represent lead compounds that may give rise to a class of selective antibiotics. ..
- Alnemri E, Fernandes Alnemri T, Litwack G. Cloning and expression of four novel isoforms of human interleukin-1 beta converting enzyme with different apoptotic activities. J Biol Chem. 1995;270:4312-7 pubmed..Therefore, by acting as a dominant inhibitor of ICE activity, ICE epsilon may regulate ICE activation in vivo. ..
- Keilbaugh S, Shin M, Banchereau R, McVay L, Boyko N, Artis D, et al. Activation of RegIIIbeta/gamma and interferon gamma expression in the intestinal tract of SCID mice: an innate response to bacterial colonisation of the gut. Gut. 2005;54:623-9 pubmed..These innate immune responses may play a role in the pathogenesis of colitis in SCID adoptive transfer models in mice and possibly in patients with IBD. ..
- Hirokawa G, Iwakura N, Kaji A, Kaji H. The role of GTP in transient splitting of 70S ribosomes by RRF (ribosome recycling factor) and EF-G (elongation factor G). Nucleic Acids Res. 2008;36:6676-87 pubmed publisher..6 microM 70S ribosomes (12 times higher than the 70S ribosomes for routine assay) were split. Spermidine (2 mM) completely inhibited anti-association activity of IF3, and the RRF/EF-G/GTP-dependent splitting of 70S ribosomes. ..
- Sathish N, Yuan Y. Functional characterization of Kaposi's sarcoma-associated herpesvirus small capsid protein by bacterial artificial chromosome-based mutagenesis. Virology. 2010;407:306-18 pubmed publisher..These observations collectively suggested the pivotal role of ORF65 in the KSHV capsid assembly processes...
- Monia B, Ecker D, Jonnalagadda S, Marsh J, Gotlib L, Butt T, et al. Gene synthesis, expression, and processing of human ubiquitin carboxyl extension proteins. J Biol Chem. 1989;264:4093-103 pubmed
- Biswas E, Biswas S. The C-terminal nucleotide binding domain of the human retinal ABCR protein is an adenosine triphosphatase. Biochemistry. 2000;39:15879-86 pubmed..6 nmol min(-1) mg(-1)), indicating a significant alteration of the ATPase function. It also provided a molecular basis of Stargardt disease involving this mutation...
- Srinivasula S, Hegde R, Saleh A, Datta P, Shiozaki E, Chai J, et al. A conserved XIAP-interaction motif in caspase-9 and Smac/DIABLO regulates caspase activity and apoptosis. Nature. 2001;410:112-6 pubmed..Our studies reveal a mechanism in which binding to the BIR3 domain by two conserved peptides, one from Smac and the other one from caspase-9, has opposing effects on caspase activity and apoptosis. ..
- Zhang C, Perona J, Hou Y. Amino acid discrimination by a highly differentiated metal center of an aminoacyl-tRNA synthetase. Biochemistry. 2003;42:10931-7 pubmed..Most mutants are less attenuated in tRNA aminoacylation than in adenylate synthesis, suggesting that tRNA binding drives a conformational change to help assemble the active site. ..
- Daber R, Stayrook S, Rosenberg A, Lewis M. Structural analysis of lac repressor bound to allosteric effectors. J Mol Biol. 2007;370:609-19 pubmed..The altered hydrogen bonding can account in part for the different structural conformations of the repressor, and is vital for the allosteric transition. ..
- Lasaro M, Salinger N, Zhang J, Wang Y, Zhong Z, Goulian M, et al. F1C fimbriae play an important role in biofilm formation and intestinal colonization by the Escherichia coli commensal strain Nissle 1917. Appl Environ Microbiol. 2009;75:246-51 pubmed publisher..Further study of the requirements for robust biofilm formation may improve the therapeutic efficacy of Nissle 1917. ..
- Reczkowski R, Markham G. Structural and functional roles of cysteine 90 and cysteine 240 in S-adenosylmethionine synthetase. J Biol Chem. 1995;270:18484-90 pubmed..Remarkably all of the mutants are much more thermally stable than the wild type enzyme. ..
- Han J, Nachamkin I, Tolomeo P, Mao X, Bilker W, Lautenbach E. Risk factors for efflux pump overexpression in fluoroquinolone-resistant Escherichia coli. J Infect Dis. 2012;206:1597-603 pubmed publisher..Further studies are needed to elucidate the relationship between antimicrobial use and specific resistance mechanisms. ..
- Wesolowski J, Caldwell V, Paumet F. A novel function for SNAP29 (synaptosomal-associated protein of 29 kDa) in mast cell phagocytosis. PLoS ONE. 2012;7:e49886 pubmed publisher..To our knowledge, these data are the first to demonstrate a novel function of SNAP29 in mast cell phagocytosis and have implications in protection against bacterial infection. ..
- Chen C, Zhang H, Broitman S, Reiche M, Farrell I, Cooperman B, et al. Dynamics of translation by single ribosomes through mRNA secondary structures. Nat Struct Mol Biol. 2013;20:582-8 pubmed publisher..Thus, somewhat unexpectedly, unfolding of mRNA secondary structures is more closely coupled to E-site tRNA dissociation than to tRNA translocation...
- Ohannesian D, Oh J, Hou Y. Mutational analysis of a leucine heptad repeat motif in a class I aminoacyl-tRNA synthetase. Biochemistry. 1996;35:14405-12 pubmed..Thus, although Leu316 is located in the C-terminal domain of the cysteine enzyme, it may modulate the capacity of the N-terminal domain for amino acid activation and tRNA aminoacylation through a domain-domain interaction. ..
- Bylebyl G, Belichenko I, Johnson E. The SUMO isopeptidase Ulp2 prevents accumulation of SUMO chains in yeast. J Biol Chem. 2003;278:44113-20 pubmed..Our data suggest that SUMO can form chains in vivo in yeast but demonstrate conclusively that chain formation is not required for the essential functions of SUMO in S. cerevisiae. ..
- Hou Y, Gu S, Zhou H, Ingerman L. Metal-ion-dependent catalysis and specificity of CCA-adding enzymes: a comparison of two classes. Biochemistry. 2005;44:12849-59 pubmed..These results provide critical insights into the catalytic mechanism of CCA synthesis to allow the two classes to be related to each other, and to members of the larger family of DNA and RNA polymerases. ..
- Lautenbach E, Fishman N, Metlay J, Mao X, Bilker W, Tolomeo P, et al. Phenotypic and genotypic characterization of fecal Escherichia coli isolates with decreased susceptibility to fluoroquinolones: results from a large hospital-based surveillance initiative. J Infect Dis. 2006;194:79-85 pubmed..Resistance to nalidixic acid may be useful in the identification of E. coli with early resistance mutations. ..
- Jones B, Yeung A. Repair of 4,5',8-trimethylpsoralen monoadducts and cross-links by the Escherichia coli UvrABC endonuclease. Proc Natl Acad Sci U S A. 1988;85:8410-4 pubmed..The incisions are not equally efficient. These data suggest that the structure of a psoralen cross-link, as seen by a repair enzyme, varies with the DNA sequence. ..
- Steele R, Opella S. Structures of the reduced and mercury-bound forms of MerP, the periplasmic protein from the bacterial mercury detoxification system. Biochemistry. 1997;36:6885-95 pubmed..The structure of the mercury-bound form of merP shows that Hg(II) is bicoordinate with the Cys side chain ligands, and this is confirmed by the chemical shift frequency of the 199Hg resonance. ..