E. coli DNA associated with isolated Hfq interacts with Hfq's distal surface and C-terminal domain
Tài liệu tham khảo
Valentin-Hansen, 2004, The bacterial Sm-like protein Hfq: a key player in RNA transactions, Mol. Microbiol., 51, 1525, 10.1111/j.1365-2958.2003.03935.x
Majdalani, 2005, Bacterial small RNA regulators, Crit. Rev. Biochem. Mol. Biol., 40, 93, 10.1080/10409230590918702
Brennan, 2007, Hfq structure, function and ligand binding, Curr. Opin. Microbiol., 10, 125, 10.1016/j.mib.2007.03.015
Jousselin, 2009, On the facultative requirement of the bacterial RNA chaperone, Hfq, Trends Microbiol., 17, 399, 10.1016/j.tim.2009.06.003
Papenfort, 2009, Multiple target regulation by small noncoding RNAs rewires gene expression at the post-transcriptional level, Res. Microbiol., 160, 278, 10.1016/j.resmic.2009.03.004
Waters, 2009, Regulatory RNAs in bacteria, Cell, 136, 615, 10.1016/j.cell.2009.01.043
Tsui, 1994, Characterization of broadly pleiotropic phenotypes caused by an hfq insertion mutation in Escherichia coli K-12, Mol. Microbiol., 13, 35, 10.1111/j.1365-2958.1994.tb00400.x
Ding, 2004, Hfq is essential for Vibrio cholerae virulence and downregulates sigma expression, Mol. Microbiol., 53, 345, 10.1111/j.1365-2958.2004.04142.x
Geng, 2009, Involvement of the post-transcriptional regulator Hfq in Yersinia pestis virulence, PLoS ONE, 4, e6213, 10.1371/journal.pone.0006213
Meibom, 2009, Hfq, a novel pleiotropic regulator of virulence-associated genes in Francisella tularensis, Infect. Immun., 77, 1866, 10.1128/IAI.01496-08
Sonnleitner, 2003, Reduced virulence of a hfq mutant of Pseudomonas aeruginosa O1, Microb. Pathog., 35, 217, 10.1016/S0882-4010(03)00149-9
Robertson, 1999, The Brucella abortus host factor I (HF-I) protein contributes to stress resistance during stationary phase and is a major determinant of virulence in mice, Mol. Microbiol., 34, 690, 10.1046/j.1365-2958.1999.01629.x
Kajitani, 1994, Regulation of the Escherichia coli hfq gene encoding the host factor for phage Q beta, J. Bacteriol., 176, 531, 10.1128/jb.176.2.531-534.1994
Azam, 1999, Twelve species of the nucleoid-associated protein from Escherichia coli, sequence recognition specificity and DNA binding affinity, J. Biol. Chem., 274, 33105, 10.1074/jbc.274.46.33105
Azam, 2000, Two types of localization of the DNA-binding proteins within the Escherichia coli nucleoid, Genes Cells, 5, 613, 10.1046/j.1365-2443.2000.00350.x
Diestra, 2009, Cellular electron microscopy imaging reveals the localization of the Hfq protein close to the bacterial membrane, PLoS ONE, 4, e8301, 10.1371/journal.pone.0008301
Takada, 1997, DNA binding properties of the hfq gene product of Escherichia coli, Biochem. Biophys. Res. Commun., 236, 576, 10.1006/bbrc.1997.7013
Sun, 2006, Escherichia coli Hfq binds A18 and DsrA domain II with similar 2:1 Hfq6/RNA stoichiometry using different surface sites, Biochemistry, 45, 4875, 10.1021/bi0523613
Hemsley, 1989, A simple method for site-directed mutagenesis using the polymerase chain reaction, Nucleic Acids Res., 17, 6545, 10.1093/nar/17.16.6545
Liu, 1995, An optical thermometer for direct measurement of cell temperature in the Beckman instruments XL-A analytical ultracentrifuge, Anal. Biochem., 224, 199, 10.1006/abio.1995.1030
Schuck, 2002, Size-distribution analysis of proteins by analytical ultracentrifugation: strategies and application to model systems, Biophys. J., 82, 1096, 10.1016/S0006-3495(02)75469-6
Philo, 2006, Improved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques, Anal. Biochem., 354, 238, 10.1016/j.ab.2006.04.053
Stafford, 2004, Analysis of heterologous interacting systems by sedimentation velocity: curve fitting algorithms for estimation of sedimentation coefficients, equilibrium and kinetic constants, Biophys. Chem., 108, 231, 10.1016/j.bpc.2003.10.028
Laue, 1992
Grothues, 1993, PCR amplification of megabase DNA with tagged random primers, Nucleic Acids Res., 21, 1321, 10.1093/nar/21.5.1321
Diekmann, 1992, Analyzing DNA curvature in polyacrylamide gels, Methods Enzymol., 212, 30, 10.1016/0076-6879(92)12004-A
Updegrove, 2008, Effect of Hfq on RprA-rpoS mRNA pairing: Hfq-RNA binding and the influence of the 5' rpoS mRNA leader region, Biochemistry, 47, 11184, 10.1021/bi800479p
Brukner, 1995, Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides, EMBO J., 14, 1812, 10.1002/j.1460-2075.1995.tb07169.x
Gabrielian, 1996, Correlation of intrinsic DNA curvature with DNA property periodicity, FEBS Lett., 393, 65, 10.1016/0014-5793(96)00855-1
Thompson, 2007, The Gibbs centroid sampler, Nucleic Acids Res., 35, W232, 10.1093/nar/gkm265
Carmichael, 1975, The host factor required for RNA phage Qbeta RNA replication in vitro. Intracellular location, quantitation, and purification by polyadenylate-cellulose chromatography, J. Biol. Chem., 250, 3607, 10.1016/S0021-9258(19)41440-3
Arluison, 2002, Structural Modelling of the Sm-like Protein Hfq from Escherichia coli, J. Mol. Biol., 320, 705, 10.1016/S0022-2836(02)00548-X
Mikulecky, 2004, Escherichia coli Hfq has distinct interaction surfaces for DsrA, rpoS and poly(A) RNAs, Nat. Struct. Mol. Biol., 11, 1206, 10.1038/nsmb858
Munteanu, 1998, Rod models of DNA: sequence-dependent anisotropic elastic modelling of local bending phenomena, Trends Biochem. Sci., 23, 341, 10.1016/S0968-0004(98)01265-1
Vlahovicek, 2003, DNA analysis servers: plot.it, bend.it, model.it and IS, Nucleic Acids Res., 31, 3686, 10.1093/nar/gkg559
Gabrielian, 1997, Distribution of sequence-dependent curvature in genomic DNA sequences, FEBS Lett., 406, 69, 10.1016/S0014-5793(97)00236-6
Durfee, 2008, The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse, J. Bacteriol., 190, 2597, 10.1128/JB.01695-07
Mura, 2003, The oligomerization and ligand-binding properties of Sm-like archaeal proteins, Protein Sci., 12, 832, 10.1110/ps.0224703
Sauter, 2003, Sm-like proteins in Eubacteria: the crystal structure of the Hfq protein from Escherichia coli, Nucleic Acids Res., 31, 4091, 10.1093/nar/gkg480
Arluison, 2007, Sm-like protein Hfq: location of the ATP-binding site and the effect of ATP on Hfq–RNA complexes, Protein Sci., 16, 1830, 10.1110/ps.072883707
Brescia, 2003, Identification of the Hfq-binding site on DsrA RNA: Hfq binds without altering DsrA secondary structure, Rna, 9, 33, 10.1261/rna.2570803
Vecerek, 2008, The C-terminal domain of Escherichia coli Hfq is required for regulation, Nucleic Acids Res., 36, 133, 10.1093/nar/gkm985
Arluison, 2004, The C-terminal domain of Escherichia coli Hfq increases the stability of the hexamer, Eur. J. Biochem., 271, 1258, 10.1111/j.1432-1033.2004.04026.x
Bolshoy, 2000, Ecologic genomics of DNA: upstream bending in prokaryotic promoters, Genome Res., 10, 1185, 10.1101/gr.10.8.1185
J. Le Derout, I.V. Boni, P. Regnier, E. Hajnsdorf, Hfq affects mRNA levels independently of degradation, BMC Mol Biol 11 17.