Genomes and Genes
Experts and Doctors on bacterial proteins in Detroit, Michigan, United States
Locale: Detroit, Michigan, United States
Topic: bacterial proteins
- Hanson B, Runft D, Streeter C, Kumar A, Carion T, Neely M. Functional analysis of the CpsA protein of Streptococcus agalactiae. J Bacteriol. 2012;194:1668-78 pubmed publisher..Taken together, these results suggest that CpsA is a modular protein influencing multiple regulatory functions that may include not only capsule synthesis but also cell wall associated factors...
- Salim N, Faner M, Philip J, Feig A. Requirement of upstream Hfq-binding (ARN)x elements in glmS and the Hfq C-terminal region for GlmS upregulation by sRNAs GlmZ and GlmY. Nucleic Acids Res. 2012;40:8021-32 pubmed publisher..This result shows that the C-terminal extension of Hfq may be required for some forms of non-canonical sRNA regulation involving ancillary components such as additional RNAs or proteins. ..
- Werth B, Sakoulas G, Rose W, POGLIANO J, Tewhey R, Rybak M. Ceftaroline increases membrane binding and enhances the activity of daptomycin against daptomycin-nonsusceptible vancomycin-intermediate Staphylococcus aureus in a pharmacokinetic/pharmacodynamic model. Antimicrob Agents Chemother. 2013;57:66-73 pubmed publisher..The combination of daptomycin plus ceftaroline appears to be potent, with rapid and sustained bactericidal activity against both daptomycin-susceptible and -nonsusceptible strains of MRSA. ..
- Silva G, Fatma S, Floyd A, Fischer F, Chuawong P, Cruz A, et al. A tRNA-independent mechanism for transamidosome assembly promotes aminoacyl-tRNA transamidation. J Biol Chem. 2013;288:3816-22 pubmed publisher..Hp0100 also enhances the capacity of AdT to convert Asp-tRNA(Asn) into Asn-tRNA(Asn) by ?35-fold. Our results demonstrate that bacteria have adopted multiple divergent methods for transamidosome assembly and function. ..
- Bhagwat A, Lieb M. Cooperation and competition in mismatch repair: very short-patch repair and methyl-directed mismatch repair in Escherichia coli. Mol Microbiol. 2002;44:1421-8 pubmed..We review here recent information about the biochemistry of both repair processes and describe the balancing act performed by cells to optimize the competing processes during different phases of the bacterial life cycle. ..
- Chen C, Chou M, Huang C, Majumder A, Wu H. A cis-spreading nucleoprotein filament is responsible for the gene silencing activity found in the promoter relay mechanism. J Biol Chem. 2005;280:5101-12 pubmed..The geometric requirement, which was revealed for this silencing activity, explains the decisive role of transcription-generated DNA supercoiling found in the promoter relay mechanism. ..
- Gatti D, Tarr G, Fee J, Ackerman S. Cloning and sequence analysis of the structural gene for the bc1-type Rieske iron-sulfur protein from Thermus thermophilus HB8. J Bioenerg Biomembr. 1998;30:223-33 pubmed..The role of individual residues in this domain of the Thermus protein is discussed vis-a-vis the three-dimensional structure of the bovine protein (Iwata et al., 1996 Structure 4, 567-579). ..
- Li Q, Kumar A, Gui J, Yu F. Staphylococcus aureus lipoproteins trigger human corneal epithelial innate response through toll-like receptor-2. Microb Pathog. 2008;44:426-34 pubmed publisher..Our findings suggest that saLP activates TLR2 and triggers innate immune response in the cornea to S. aureus infection via production of proinflammatory cytokines and defense molecules. ..
- Carlin A, Shi W, Dey S, Rosen B. The ars operon of Escherichia coli confers arsenical and antimonial resistance. J Bacteriol. 1995;177:981-6 pubmed..Expression of the ars genes was inducible by arsenite. By Southern hybridization, the operon was found in all strains of E. coli examined but not in Salmonella typhimurium, Pseudomonas aeruginosa, or Bacillus subtilis. ..
- Ellis J, Carlin A, Steffes C, Wu J, Liu J, Rosen B. Topological analysis of the lysine-specific permease of Escherichia coli. Microbiology. 1995;141 ( Pt 8):1927-35 pubmed..From analysis of 30 gene fusions, a topological model of the LysP protein is proposed in which the protein has 12 membrane-spanning regions, with the N- and C-terminal in the cytosol. ..
- Ye J, Yang H, Rosen B, Bhattacharjee H. Crystal structure of the flavoprotein ArsH from Sinorhizobium meliloti. FEBS Lett. 2007;581:3996-4000 pubmed publisher..The N- and C-terminal extensions of ArsH are involved in interactions between subunits and tetramer formation. The structure may provide insight in how ArsH participates in arsenic detoxification...
- Atkinson M, Ninfa A. Characterization of Escherichia coli glnL mutations affecting nitrogen regulation. J Bacteriol. 1992;174:4538-48 pubmed..We hypothesize that mutants of the latter type result in a subtle perturbation of the NRII-PII interaction and suggest two possible mechanisms for their effects. ..
- Mokkapati S, Fernandez de Henestrosa A, Bhagwat A. Escherichia coli DNA glycosylase Mug: a growth-regulated enzyme required for mutation avoidance in stationary-phase cells. Mol Microbiol. 2001;41:1101-11 pubmed..Thus, Mug joins a very small coterie of DNA repair enzymes whose principal function is to avoid mutations in stationary-phase cells. ..
- Schindler B, Jacinto P, Kaatz G. Inhibition of drug efflux pumps in Staphylococcus aureus: current status of potentiating existing antibiotics. Future Microbiol. 2013;8:491-507 pubmed publisher..This review describes the current progress in EPI development for use against S. aureus...
- Massova I, Mobashery S. Kinship and diversification of bacterial penicillin-binding proteins and beta-lactamases. Antimicrob Agents Chemother. 1998;42:1-17 pubmed
- Kaatz G, Seo S, Ruble C. Efflux-mediated fluoroquinolone resistance in Staphylococcus aureus. Antimicrob Agents Chemother. 1993;37:1086-94 pubmed..Northern (RNA) and Southern hybridization studies showed that increased transcription, and not gene amplification, of norA1199 is the basis for fluoroquinolone resistance in SA-1199B...
- Robertson E, Aggison L, Nicholson A. Phosphorylation of elongation factor G and ribosomal protein S6 in bacteriophage T7-infected Escherichia coli. Mol Microbiol. 1994;11:1045-57 pubmed..Finally, several experimental variables are analysed which influence the production and pattern of phosphorylated proteins in both uninfected and T7-infected cells. ..
- Bujnicki J, Radlinska M. Is the HemK family of putative S-adenosylmethionine-dependent methyltransferases a "missing" zeta subfamily of adenine methyltransferases? A hypothesis. IUBMB Life. 1999;48:247-9 pubmed..We predict the structure and function of the putative catalytic domain of HemK proteins and speculate that the target-recognizing function may be conferred by the N-terminal variable region. ..
- Bondarenko V, Liu Y, Ninfa A, Studitsky V. Action of prokaryotic enhancer over a distance does not require continued presence of promoter-bound sigma54 subunit. Nucleic Acids Res. 2002;30:636-42 pubmed..These studies exclude the hypothesis that enhancer action during multiple-round transcription involves the memory of the initial activation event...
- Fang M, Wu H. A promoter relay mechanism for sequential gene activation. J Bacteriol. 1998;180:626-33 pubmed..This is the first example of several related genes communicating via a promoter relay mechanism for their coordinated expression. ..
- Ninfa E, Atkinson M, Kamberov E, Ninfa A. Mechanism of autophosphorylation of Escherichia coli nitrogen regulator II (NRII or NtrB): trans-phosphorylation between subunits. J Bacteriol. 1993;175:7024-32 pubmed..These results indicate that the autophosphorylation reaction occurs within the dimer by a trans, intersubunit mechanism in which one subunit binds ATP and phosphorylates the other subunit. ..
- Oden K, Gladysheva T, Rosen B. Arsenate reduction mediated by the plasmid-encoded ArsC protein is coupled to glutathione. Mol Microbiol. 1994;12:301-6 pubmed..Since ArsC-catalysed reduction of arsenate provides high level resistance, physical coupling of the ArsC reaction to efflux of the resulting arsenite is hypothesised. ..
- Kona F, Xu X, Martin P, Kuzmic P, Gatti D. Structural and mechanistic changes along an engineered path from metallo to nonmetallo 3-deoxy-D-manno-octulosonate 8-phosphate synthases. Biochemistry. 2007;46:4532-44 pubmed publisher..These differences may reflect an evolutionary adaptation of metallo and nonmetallo KDO8PS's to the cellular concentrations of these metabolites in their respective hosts...
- Wong M, Lin Y, Rosen B. The soft metal ion binding sites in the Staphylococcus aureus pI258 CadC Cd(II)/Pb(II)/Zn(II)-responsive repressor are formed between subunits of the homodimer. J Biol Chem. 2002;277:40930-6 pubmed..The results of this study strongly indicate that each of the two Cd(II) binding sites in the CadC homodimer is composed of Cys(7) and Cys(11) from one monomer and Cys(58) and Cys(60) from the other monomer. ..
- Lin Y, Yang J, Rosen B. ArsD: an As(III) metallochaperone for the ArsAB As(III)-translocating ATPase. J Bioenerg Biomembr. 2007;39:453-8 pubmed publisher..It is proposed that ArsD residues Cys12, Cys13 and Cys18, but not Cys112, Cys113, Cys119 or Cys120, are required for delivery of As(III) to and activation of the ArsAB pump...
- Kamberov E, Atkinson M, Chandran P, Ninfa A. Effect of mutations in Escherichia coli glnL (ntrB), encoding nitrogen regulator II (NRII or NtrB), on the phosphatase activity involved in bacterial nitrogen regulation. J Biol Chem. 1994;269:28294-9 pubmed..Thus, while the kinase and phosphatase activities of NRII could be genetically separated, some of the highly conserved residues in the C-terminal domain of NRII (Asp-287, Gly-289, Gly-291) are apparently important for both activities. ..
- Dittmer J, Withey J. Identification and characterization of the functional toxboxes in the Vibrio cholerae cholera toxin promoter. J Bacteriol. 2012;194:5255-63 pubmed publisher..Both toxboxes are essential for DNA binding and the full activation of ctxAB transcription...
- Yao R, Palchaudhuri S. Nucleotide sequence and transcriptional regulation of a positive regulatory gene of Shigella dysenteriae. Infect Immun. 1992;60:1163-9 pubmed..8-fold in the presence of IpaR protein. On the basis of our data, we suggest that an operon comprising ippI, ipaB, and ipaC is positively regulated by IpaR protein which has a trans effect on a DNA sequence upstream of the ippI promoter. ..
- Liu J, Rosen B. Ligand interactions of the ArsC arsenate reductase. J Biol Chem. 1997;272:21084-9 pubmed..Cys-12 thiolate was also required. Thus the intrinsic fluorescence of Trp-11 provides a useful probe to investigate the mechanism of this novel reductase. ..
- Chua T, Moore C, Perri M, Donabedian S, Masch W, Vager D, et al. Molecular epidemiology of methicillin-resistant Staphylococcus aureus bloodstream isolates in urban Detroit. J Clin Microbiol. 2008;46:2345-52 pubmed publisher..Infection control measures should focus not only on prevention of the spread of community strains in the hospital but also prevention of the spread of hospital strains associated with VRSA into the community. ..
- Raghunathan A, Samuel L, Tibbetts R. Evaluation of a real-time PCR assay for the detection of the Klebsiella pneumoniae carbapenemase genes in microbiological samples in comparison with the modified Hodge test. Am J Clin Pathol. 2011;135:566-71 pubmed publisher..The PCR assay is a sensitive, specific, and rapid test for detecting bla(KPC) genes. It could help optimize patient care by reducing the time taken to institute appropriate antimicrobial therapy and so help improve patient outcomes...
- Tisa L, Rosen B. Molecular characterization of an anion pump. The ArsB protein is the membrane anchor for the ArsA protein. J Biol Chem. 1990;265:190-4 pubmed
- Feng J, Atkinson M, McCleary W, Stock J, Wanner B, Ninfa A. Role of phosphorylated metabolic intermediates in the regulation of glutamine synthetase synthesis in Escherichia coli. J Bacteriol. 1992;174:6061-70 pubmed
- Shi W, Wu J, Rosen B. Identification of a putative metal binding site in a new family of metalloregulatory proteins. J Biol Chem. 1994;269:19826-9 pubmed..We propose that cysteines Cys-32 and Cys-34 in the ArsR protein comprise part of a metal binding motif found in members of the ArsR family of metalloregulatory proteins. ..
- Ahuja A, Purcarea C, Ebert R, Sadecki S, Guy H, Evans D. Aquifex aeolicus dihydroorotase: association with aspartate transcarbamoylase switches on catalytic activity. J Biol Chem. 2004;279:53136-44 pubmed publisher..At pH 7.4, the equilibrium ratio of carbamoyl aspartate to dihydroorotate is 17 and complex formation may drive the reaction in the biosynthetic direction...
- Shi W, Dong J, Scott R, Ksenzenko M, Rosen B. The role of arsenic-thiol interactions in metalloregulation of the ars operon. J Biol Chem. 1996;271:9291-7 pubmed
- Rensing C, Sun Y, Mitra B, Rosen B. Pb(II)-translocating P-type ATPases. J Biol Chem. 1998;273:32614-7 pubmed..Second, both CadA and ZntA confer resistance to Pb(II). Third, transport of 65Zn(II) in everted membrane vesicles of E. coli catalyzed by either of these two P-type ATPase superfamily members is inhibited by Pb(II). ..
- Fang M, Majumder A, Tsai K, Wu H. ppGpp-dependent leuO expression in bacteria under stress. Biochem Biophys Res Commun. 2000;276:64-70 pubmed publisher..The stationary phase-associated leuO expression is ppGpp dependent and rpoS (sigma(s) factor) independent...
- Jani C, Eoh H, Lee J, Hamasha K, Sahana M, Han J, et al. Regulation of polar peptidoglycan biosynthesis by Wag31 phosphorylation in mycobacteria. BMC Microbiol. 2010;10:327 pubmed publisher..The Wag31Mtb phosphorylation is a novel molecular mechanism by which Wag31Mtb regulates peptidoglycan synthesis and thus, optimal growth in mycobacteria. ..
- Rensing C, Fan B, Sharma R, Mitra B, Rosen B. CopA: An Escherichia coli Cu(I)-translocating P-type ATPase. Proc Natl Acad Sci U S A. 2000;97:652-6 pubmed..The results indicate that CopA is a Cu(I)-translocating efflux pump that is similar to the copper pumps related to Menkes and Wilson diseases and provides a useful prokaryotic model for these human diseases. ..
- Bhagwat A, Sohail A, Lieb M. A new gene involved in mismatch correction in Escherichia coli. Gene. 1988;74:155-6 pubmed
- Atkinson M, Ninfa A. Mutational analysis of the bacterial signal-transducing protein kinase/phosphatase nitrogen regulator II (NRII or NtrB). J Bacteriol. 1993;175:7016-23 pubmed..Thus, we have identified both point and deletion mutations that convert NRII into a negative regulator of glnA and the Ntr regulon irrespective of the nitrogen status of the cell. ..
- Xu C, Shi W, Rosen B. The chromosomal arsR gene of Escherichia coli encodes a trans-acting metalloregulatory protein. J Biol Chem. 1996;271:2427-32 pubmed..In addition, the chromosomally-encoded repressor can regulate expression of the ars operon of plasmid R773, and the R773 repressor can cross-regulate expression from the chromosomal operon. ..
- Purcarea C, Fernando R, Evans H, Evans D. The sole serine/threonine protein kinase and its cognate phosphatase from Aquifex aeolicus targets pyrimidine biosynthesis. Mol Cell Biochem. 2008;311:199-213 pubmed publisher..The Thr/Ser kinase, its cognate phosphatase and a protein substrate may be elements of a simple signaling pathway, perhaps the most primitive example of this mode of regulation described thus far. ..
- Rosen B. The plasmid-encoded arsenical resistance pump: an anion-translocating ATPase. Res Microbiol. 1990;141:336-41 pubmed..This two-subunit enzyme produces resistance to arsenite and antimonite. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ..
- Walter W, Kireeva M, Studitsky V, Kashlev M. Bacterial polymerase and yeast polymerase II use similar mechanisms for transcription through nucleosomes. J Biol Chem. 2003;278:36148-56 pubmed..Furthermore, the data argue that the general elongation properties of polymerases may determine the mechanism used for transcription through the nucleosome. ..
- Wu R, Wang X, Womble D, Rownd R. Suppression of replication-deficient mutants of IncFII plasmid NR1 can occur by two different mechanisms that increase expression of the repA1 gene. J Bacteriol. 1993;175:3161-73 pubmed..Plasmids that lacked either circuit were less stable than wild-type plasmids. ..
- Pati S, DiSilvestre D, Brusilow W. Regulation of the Escherichia coli uncH gene by mRNA secondary structure and translational coupling. Mol Microbiol. 1992;6:3559-66 pubmed
- Qin J, Fu H, Ye J, Bencze K, Stemmler T, Rawlings D, et al. Convergent evolution of a new arsenic binding site in the ArsR/SmtB family of metalloregulators. J Biol Chem. 2007;282:34346-55 pubmed..These results suggest that the As(III)-S(3) binding sites in AfArsR and R773 ArsR arose independently at spatially distinct locations in their three-dimensional structures. ..
- Monticello R, Angov E, Brusilow W. Effects of inducing expression of cloned genes for the F0 proton channel of the Escherichia coli F1F0 ATPase. J Bacteriol. 1992;174:3370-6 pubmed..Such induction did result in growth inhibition, but there was no correlation between growth inhibition and either increased membrane proton permeability or the presence of functional, reconstitutable F0. ..
- Rensing C, Mitra B, Rosen B. The zntA gene of Escherichia coli encodes a Zn(II)-translocating P-type ATPase. Proc Natl Acad Sci U S A. 1997;94:14326-31 pubmed..Membrane vesicles from the zntA::kan strain did not accumulate those metal ions. Both the sensitive phenotype and transport defect of the mutant were complemented by expression of zntA on a plasmid. ..
- Yang J, Rawat S, Stemmler T, Rosen B. Arsenic binding and transfer by the ArsD As(III) metallochaperone. Biochemistry. 2010;49:3658-66 pubmed publisher..Neither MgADP nor MgATP-gamma-S could replace MgATP. These results suggest that transfer occurs with a conformation of ArsA that transiently forms during the catalytic cycle. ..
- Jiang T, Min Y, Liu W, Womble D, Rownd R. Insertion and deletion mutations in the repA4 region of the IncFII plasmid NR1 cause unstable inheritance. J Bacteriol. 1993;175:5350-8 pubmed..Therefore, it appears that the overall integrity of the repA4 region is more important for stable maintenance of plasmid NR1 than are any of the individual known features found in this region. ..
- Shi J, Vlamis Gardikas A, Aslund F, Holmgren A, Rosen B. Reactivity of glutaredoxins 1, 2, and 3 from Escherichia coli shows that glutaredoxin 2 is the primary hydrogen donor to ArsC-catalyzed arsenate reduction. J Biol Chem. 1999;274:36039-42 pubmed..This suggests that, during the catalytic cycle, ArsC forms a mixed disulfide with GSH before being reduced by glutaredoxin to regenerate the active ArsC reductase. ..
- Ludlam A, Brunzelle J, Pribyl T, Xu X, Gatti D, Ackerman S. Chaperones of F1-ATPase. J Biol Chem. 2009;284:17138-46 pubmed publisher..However, Atp11p and Atp12p do not resemble alpha or beta, and it is instead the F(1) gamma subunit that initiates the release of the chaperones from alpha and beta and their further assembly into the mature complex. ..
- Ninfa A, Bennett R. Identification of the site of autophosphorylation of the bacterial protein kinase/phosphatase NRII. J Biol Chem. 1991;266:6888-93 pubmed..A minor site of phosphorylation, accounting for about 2% of the phosphate in NRII-P, was found in a peptide that corresponds to residues 158-169...
- Holland Staley C, Lee K, Clark D, Cunningham P. Aerobic activity of Escherichia coli alcohol dehydrogenase is determined by a single amino acid. J Bacteriol. 2000;182:6049-54 pubmed..These findings suggest that adhE expression is also regulated posttranslationally and that strict regulation of alcohol dehydrogenase activity in E. coli is physiologically significant. ..
- Kang C, Nyayapathy S, Lee J, Suh J, Husson R. Wag31, a homologue of the cell division protein DivIVA, regulates growth, morphology and polar cell wall synthesis in mycobacteria. Microbiology. 2008;154:725-35 pubmed publisher..Taken together, these results indicate that Wag31 regulates cell shape and cell wall synthesis in M. tuberculosis through a molecular mechanism by which the activity of Wag31 can be modulated in response to environmental signals. ..
- Yang H, Cheng J, Finan T, Rosen B, Bhattacharjee H. Novel pathway for arsenic detoxification in the legume symbiont Sinorhizobium meliloti. J Bacteriol. 2005;187:6991-7 pubmed publisher..Thus, AqpS confers arsenate resistance together with ArsC-catalyzed reduction. This is the first report of an aquaglyceroporin with a physiological function in arsenic resistance...
- Allen J, Neely M. CpsY influences Streptococcus iniae cell wall adaptations important for neutrophil intracellular survival. Infect Immun. 2012;80:1707-15 pubmed publisher..Furthermore, S. iniae continues to be a powerful model for investigation of bacterial adaptations during systemic streptococcal infection...
- G rard H, Krausse Opatz B, Wang Z, Rudy D, Rao J, Zeidler H, et al. Expression of Chlamydia trachomatis genes encoding products required for DNA synthesis and cell division during active versus persistent infection. Mol Microbiol. 2001;41:731-41 pubmed..These data explain, at least in part, the observed attenuation of new EB production during chlamydial persistence...
- Freitag N, Jacobs K. Examination of Listeria monocytogenes intracellular gene expression by using the green fluorescent protein of Aequorea victoria. Infect Immun. 1999;67:1844-52 pubmed..These results emphasize the ability of L. monocytogenes to sense the different host cell compartment environments encountered during the course of infection and to regulate virulence gene expression in response. ..
- Zhang R, Chopp M, Roberts C, Wei M, Wang X, Liu X, et al. Sildenafil enhances neurogenesis and oligodendrogenesis in ischemic brain of middle-aged mouse. PLoS ONE. 2012;7:e48141 pubmed publisher..These data indicate that Sildenafil amplifies nestin expressing neural stem cells and their neuronal and oligodendrocyte progeny in the ischemic brain of the middle-aged mouse. ..