Experts and Doctors on escherichia coli in Salt Lake City, Utah, United States

Summary

Locale: Salt Lake City, Utah, United States
Topic: escherichia coli

Top Publications

  1. Missiakas D, Georgopoulos C, Raina S. Identification and characterization of the Escherichia coli gene dsbB, whose product is involved in the formation of disulfide bonds in vivo. Proc Natl Acad Sci U S A. 1993;90:7084-8 pubmed
    ..The dsbB gene maps at 26.5 min on the genetic map of the E. coli chromosome, and its transcription is directed from two promoters, neither of which resembles the canonical E sigma 70-recognized promoter. ..
  2. Matveeva O, Felden B, Audlin S, Gesteland R, Atkins J. A rapid in vitro method for obtaining RNA accessibility patterns for complementary DNA probes: correlation with an intracellular pattern and known RNA structures. Nucleic Acids Res. 1997;25:5010-6 pubmed
    ..Also, four RNAs were probed to ascertain to what extent structure predicts accessibility: the P4-P6 domain of the Tetrahymena group I intron, yeast tRNAAsp, Escherichia coli tmRNA and a part of rat 18S rRNA. ..
  3. Litwin C, Johnson J. Identification, cloning, and expression of the CAMP-like factor autotransporter gene (cfa) of Bartonella henselae. Infect Immun. 2005;73:4205-13 pubmed
    ..In conclusion, we have characterized a novel secreted cohemolysin autotransporter protein of B. henselae. ..
  4. Jensen L, Posewitz M, Srinivasan C, Winge D. Mapping of the DNA binding domain of the copper-responsive transcription factor Mac1 from Saccharomyces cerevisiae. J Biol Chem. 1998;273:23805-11 pubmed
    ..The elements appear to function synergistically. Increasing the number of elements yields more than additive enhancements in CTR1 expression. ..
  5. Hahn F, Hurlburt A, Poulter C. Escherichia coli open reading frame 696 is idi, a nonessential gene encoding isopentenyl diphosphate isomerase. J Bacteriol. 1999;181:4499-504 pubmed
    ..The E. coli protein requires Mg(2+) or Mn(2+) for activity. The enzyme contains conserved cysteine and glutamate active-site residues found in other IPP isomerases. ..
  6. Ames P, Parkinson J. Conformational suppression of inter-receptor signaling defects. Proc Natl Acad Sci U S A. 2006;103:9292-7 pubmed
    ..These collaborative teams may be responsible for the high-gain signaling properties of bacterial chemoreceptors. ..
  7. Spence J, Georgopoulos C. Purification and properties of the Escherichia coli heat shock protein, HtpG. J Biol Chem. 1989;264:4398-403 pubmed
    ..The HtpG protein was found to be a phosphoprotein. Thus, HtpG is structurally similar to its eukaryotic homologue, hsp83, which is also a phosphoprotein and a dimer. ..
  8. Wu B, Ang D, Snavely M, Georgopoulos C. Isolation and characterization of point mutations in the Escherichia coli grpE heat shock gene. J Bacteriol. 1994;176:6965-73 pubmed
    ..coli and other bacterial and yeast GrpE homologs. The isolation of these new mutations is the first step toward a structure-function analysis of the GrpE protein. ..
  9. Christensen C, Gorsich S, Brown R, Jones L, Brown J, Shaw J, et al. Mitochondrial GFA2 is required for synergid cell death in Arabidopsis. Plant Cell. 2002;14:2215-32 pubmed
    ..GFA2 is targeted to mitochondria in Arabidopsis and partially complements a yeast mdj1 mutant, suggesting that GFA2 is the Arabidopsis ortholog of yeast Mdj1p. These data suggest a role for mitochondria in cell death in plants. ..

More Information

Publications161 found, 100 shown here

  1. Schmidt E, Nelson J, Rasko D, Sudek S, Eisen J, Haygood M, et al. Patellamide A and C biosynthesis by a microcin-like pathway in Prochloron didemni, the cyanobacterial symbiont of Lissoclinum patella. Proc Natl Acad Sci U S A. 2005;102:7315-20 pubmed
    ..In addition, a related cluster was identified in Trichodesmium erythraeum IMS101, an important bloom-forming cyanobacterium...
  2. Baird L, Lipinska B, Raina S, Georgopoulos C. Identification of the Escherichia coli sohB gene, a multicopy suppressor of the HtrA (DegP) null phenotype. J Bacteriol. 1991;173:5763-70 pubmed
    ..Therefore, it is possible that the sohB gene encodes a previously undiscovered periplasmic protease in E. coli that, when overexpressed, can partially compensate for the missing HtrA protein function...
  3. Braun T, Poulson S, Gully J, Empey J, Van Way S, Putnam A, et al. Function of proline residues of MotA in torque generation by the flagellar motor of Escherichia coli. J Bacteriol. 1999;181:3542-51 pubmed
    ..We propose a mechanism for torque generation, in which specific functions are suggested for the proline residues of MotA and Asp32 of MotB. ..
  4. Novicki T, Daly J, Mottice S, Carroll K. Comparison of sorbitol MacConkey agar and a two-step method which utilizes enzyme-linked immunosorbent assay toxin testing and a chromogenic agar to detect and isolate enterohemorrhagic Escherichia coli. J Clin Microbiol. 2000;38:547-51 pubmed
    ..All but one were isolated during the months of May to September. The two-step method was found to be considerably more expensive than SMAC for both positive and negative samples. ..
  5. Hannah E, Johnson J, Angulo F, Haddadin B, Williamson J, Samore M. Molecular analysis of antimicrobial-susceptible and -resistant Escherichia coli from retail meats and human stool and clinical specimens in a rural community setting. Foodborne Pathog Dis. 2009;6:285-95 pubmed publisher
    ..coli represented ExPEC. The observed molecular similarity of certain meat and human-source E. coli isolates, including antimicrobial-resistant and potentially pathogenic strains, supports possible foodborne transmission. ..
  6. Ang D, Georgopoulos C. An ORFan no more: the bacteriophage T4 39.2 gene product, NwgI, modulates GroEL chaperone function. Genetics. 2012;190:989-1000 pubmed publisher
    ..2 deletion strain and showed that, unlike the isogenic wild-type parent, it is incapable of propagating on certain groEL mutant hosts. We propose a model of how Gp39.2 modulates GroES/GroEL function. ..
  7. Lloyd S, Tang H, Wang X, Billings S, Blair D. Torque generation in the flagellar motor of Escherichia coli: evidence of a direct role for FliG but not for FliM or FliN. J Bacteriol. 1996;178:223-31 pubmed
    ..We suggest that the carboxyl-terminal domain of FliG functions specifically in torque generation, forming the rotor portion of the site of energy transduction in the flagellar motor. ..
  8. Pope M, David S. DNA damage recognition and repair by the murine MutY homologue. DNA Repair (Amst). 2005;4:91-102 pubmed
    ..Though in many respects the catalytic behavior of mMYH is similar to E. coli MutY, the subtle differences may translate into differences in their in vivo functions. ..
  9. Hoffman L, Rechsteiner M. Molecular cloning and expression of subunit 9 of the 26S proteasome. FEBS Lett. 1997;404:179-84 pubmed
    ..In SDS-PAGE samples of the two complexes, the S9-specific antibodies bound a single 46 kDa subunit. Thus, a cDNA encoding a novel 26S protease subunit has been isolated, sequenced, and expressed. ..
  10. White Ziegler C, Blyn L, Braaten B, Low D. Identification of an Escherichia coli genetic locus involved in thermoregulation of the pap operon. J Bacteriol. 1990;172:1775-82 pubmed
    ..Analysis of phase transition rates of the class I mutants showed that the phase-off (Lac-)----phase-on (Lac+) transition rates were higher than those observed with the nonmutant E. coli strain. ..
  11. Larsen B, Gesteland R, Atkins J. Structural probing and mutagenic analysis of the stem-loop required for Escherichia coli dnaX ribosomal frameshifting: programmed efficiency of 50%. J Mol Biol. 1997;271:47-60 pubmed
    ..The calculated stabilities of the variant stem-loop structures correlate with frameshifting efficiency. The SD-interaction and the stem-loop element act independently to increase frameshifting in dnaX. ..
  12. Karow M, Fayet O, Georgopoulos C. The lethal phenotype caused by null mutations in the Escherichia coli htrB gene is suppressed by mutations in the accBC operon, encoding two subunits of acetyl coenzyme A carboxylase. J Bacteriol. 1992;174:7407-18 pubmed
    ..The suppressor mutations caused a decrease in the rate of phospholipid biosynthesis, restoring the balance between the biosynthesis of phospholipids and growth rate, thus enabling htrB bacteria to grow at high temperatures. ..
  13. Raina S, Georgopoulos C. A new Escherichia coli heat shock gene, htrC, whose product is essential for viability only at high temperatures. J Bacteriol. 1990;172:3417-26 pubmed
    ..In addition, the presence of an htrC mutation eliminates the UV sensitivity normally exhibited by lon mutant bacteria. ..
  14. Rettberg C, Prere M, Gesteland R, Atkins J, Fayet O. A three-way junction and constituent stem-loops as the stimulator for programmed -1 frameshifting in bacterial insertion sequence IS911. J Mol Biol. 1999;286:1365-78 pubmed
    ..Structural probing and thermal melting profiles indicate that the disrupted three-way junctions have altered structures. ..
  15. Durant P, Bajji A, Sundaram M, Kumar R, Davis D. Structural effects of hypermodified nucleosides in the Escherichia coli and human tRNALys anticodon loop: the effect of nucleosides s2U, mcm5U, mcm5s2U, mnm5s2U, t6A, and ms2t6A. Biochemistry. 2005;44:8078-89 pubmed
    ..Wobble modifications, t(6)A37, and magnesium each make unique contributions toward promoting canonical tRNA structure in the fundamentally dynamic tRNA(Lys)(UUU) anticodon. ..
  16. Lherbet C, Pojer F, Richard S, Noel J, Poulter C. Absence of substrate channeling between active sites in the Agrobacterium tumefaciens IspDF and IspE enzymes of the methyl erythritol phosphate pathway. Biochemistry. 2006;45:3548-53 pubmed publisher
    ..The time dependencies indicate that the enzyme-generated intermediates are not transferred from the IspD active site in IspDF to the active site of IspE or from the active site in IspE to the active site of the IspF module of IspDF...
  17. Bower J, Gordon Raagas H, Mulvey M. Conditioning of uropathogenic Escherichia coli for enhanced colonization of host. Infect Immun. 2009;77:2104-12 pubmed publisher
    ..These results suggest that UPEC interactions with polyamines or stresses such as reactive nitrogen intermediates can in effect reprogram the bacteria, enabling them to better colonize the host...
  18. Lezin G, Kosaka Y, Yost H, Kuehn M, Brunelli L. A one-step miniprep for the isolation of plasmid DNA and lambda phage particles. PLoS ONE. 2011;6:e23457 pubmed publisher
    ..This work demonstrates that one-step NID minipreps are a robust method to generate high quality plasmid DNA, and NID approaches can also isolate bacteriophage lambda particles, outperforming current standard alkali-based minipreps. ..
  19. Rivers A, Gietzen K, Vielhaber E, Virshup D. Regulation of casein kinase I epsilon and casein kinase I delta by an in vivo futile phosphorylation cycle. J Biol Chem. 1998;273:15980-4 pubmed
    ..Since CKI autophosphorylation decreases kinase activity, this dynamic autophosphorylation/dephosphorylation cycle provides a mechanism for kinase regulation in vivo. ..
  20. Chow K, Courcelle J. RecBCD and RecJ/RecQ initiate DNA degradation on distinct substrates in UV-irradiated Escherichia coli. Radiat Res. 2007;168:499-506 pubmed
    ..In addition, they demonstrate that RecBCD initiates degradation at a site(s) other than the arrested replication fork directly. ..
  21. Wiles T, Bower J, Redd M, Mulvey M. Use of zebrafish to probe the divergent virulence potentials and toxin requirements of extraintestinal pathogenic Escherichia coli. PLoS Pathog. 2009;5:e1000697 pubmed publisher
    ..coli strains. These results establish zebrafish as a valuable tool for the elucidation and functional analysis of both ExPEC virulence factors and host defense mechanisms. ..
  22. Delaney J, Georgopoulos C. Physical map locations of the trxB, htrD, cydC, and cydD genes of Escherichia coli. J Bacteriol. 1992;174:3824-5 pubmed
  23. Swindle J, Zylicz M, Georgopoulos C, Li J, Greenblatt J. Purification and properties of the NusB protein of Escherichia coli. J Biol Chem. 1988;263:10229-35 pubmed
    ..Since such a strain does not produce NusB protein detectable by immunoprecipitation with anti-NusB, normal amounts of NusB are not essential for the survival of E. coli at 42 degrees C. ..
  24. Deveraux Q, Jensen C, Rechsteiner M. Molecular cloning and expression of a 26 S protease subunit enriched in dileucine repeats. J Biol Chem. 1995;270:23726-9 pubmed
    ..Thus, the 26 S protease contains at least two distinct subunits with apparent molecular masses of 50 kDa. ..
  25. Christensen D, Poulter C. Enzymatic synthesis of isotopically labeled isoprenoid diphosphates. Bioorg Med Chem. 1994;2:631-7 pubmed
    ..Thes compounds were used as substrates for enzymatic synthesis of FPP selectivity labeled at the first or third isoprene residue or at all three. ..
  26. Karow M, Georgopoulos C. The essential Escherichia coli msbA gene, a multicopy suppressor of null mutations in the htrB gene, is related to the universally conserved family of ATP-dependent translocators. Mol Microbiol. 1993;7:69-79 pubmed
    ..Mutational analysis of msbA indicates that it may form an operon with a downstream gene, orfE, and that both of these genes are essential for bacterial viability under all growth conditions tested...
  27. Lawrence J, Roth J. Evolution of coenzyme B12 synthesis among enteric bacteria: evidence for loss and reacquisition of a multigene complex. Genetics. 1996;142:11-24 pubmed
    ..The Salmonella cob operon may represent a class of genes characterized by periodic loss and reacquisition by host genomes. This process may be an important aspect of bacterial population genetics and evolution. ..
  28. Soderberg T, Poulter C. Escherichia coli dimethylallyl diphosphate:tRNA dimethylallyltransferase: essential elements for recognition of tRNA substrates within the anticodon stem-loop. Biochemistry. 2000;39:6546-53 pubmed
  29. Moore J, Mathis J, Poulter C. Escherichia coli dimethylallyl diphosphate:tRNA dimethylallyltransferase: pre-steady-state kinetic studies. Biochim Biophys Acta. 2000;1479:166-74 pubmed
    ..The Michaelis constant for tRNA and the equilibrium dissociation constant for DMAPP calculated from the individual rate constants determined here are consistent with values obtained from a steady-state kinetic analysis. ..
  30. Brown P, Terrazas M, Paul K, Blair D. Mutational analysis of the flagellar protein FliG: sites of interaction with FliM and implications for organization of the switch complex. J Bacteriol. 2007;189:305-12 pubmed
    ..We propose a model for the organization of FliG and FliM subunits that accounts for the FliG-FliM interactions identified here and for the different copy numbers of FliG and FliM in the flagellum. ..
  31. Paul K, Brunstetter D, Titen S, Blair D. A molecular mechanism of direction switching in the flagellar motor of Escherichia coli. Proc Natl Acad Sci U S A. 2011;108:17171-6 pubmed publisher
    ..In a recently proposed hypothesis for the motor mechanism, such a reorientation of FliG(C) would reverse the direction of motor rotation. ..
  32. Khot P, Fisher M. Novel approach for differentiating Shigella species and Escherichia coli by matrix-assisted laser desorption ionization-time of flight mass spectrometry. J Clin Microbiol. 2013;51:3711-6 pubmed publisher
    ..coli and Shigella clinical isolates correctly to the species level. Only 3% of tested isolates were misidentified. This novel MALDI-TOF MS approach allows laboratories to streamline the identification of E. coli and Shigella species. ..
  33. Delaney J, Ang D, Georgopoulos C. Isolation and characterization of the Escherichia coli htrD gene, whose product is required for growth at high temperatures. J Bacteriol. 1992;174:1240-7 pubmed
    ..coli. ..
  34. White Ziegler C, Low D. Thermoregulation of the pap operon: evidence for the involvement of RimJ, the N-terminal acetylase of ribosomal protein S5. J Bacteriol. 1992;174:7003-12 pubmed
    ..Disruption of the g20.3 gene by insertion and deletion mutagenesis did not affect thermoregulation of the pap operon, suggesting that, although g20.3 lies within the same operon as rimJ, it does not play a role in thermoregulation. ..
  35. Karow M, Raina S, Georgopoulos C, Fayet O. Complex phenotypes of null mutations in the htr genes, whose products are essential for Escherichia coli growth at elevated temperatures. Res Microbiol. 1991;142:289-94 pubmed
    ..The htrM gene is identical to the rfaD gene, whose product is required for the biosynthesis of the lipopolysaccharide precursor ADP-L-glycero-D-mannoheptose (Pegues et al., J. Bact., 1990, 172, 4652-4660). ..
  36. Braaten B, Blyn L, Skinner B, Low D. Evidence for a methylation-blocking factor (mbf) locus involved in pap pilus expression and phase variation in Escherichia coli. J Bacteriol. 1991;173:1789-800 pubmed
    ..The identification of the mbf locus, required for pap transcription, supports the hypothesis that pap phase variation is controlled by a mechanism involving alternation between different methylation states. ..
  37. Silver R, Edwin S, Trautman M, Simmons D, Branch D, Dudley D, et al. Bacterial lipopolysaccharide-mediated fetal death. Production of a newly recognized form of inducible cyclooxygenase (COX-2) in murine decidua in response to lipopolysaccharide. J Clin Invest. 1995;95:725-31 pubmed
    ..Since LPS-mediated fetal death is markedly diminished by pretreatment with indomethacin, COX-2-mediated eicosanoid production is likely a key pathophysiologic event in LPS-mediated fetal death. ..
  38. Larsen B, Wills N, Gesteland R, Atkins J. rRNA-mRNA base pairing stimulates a programmed -1 ribosomal frameshift. J Bacteriol. 1994;176:6842-51 pubmed
    ..Shine-Dalgarno interactions by elongating ribosomes are likely to be used in stimulating -1 frameshifting in the decoding of a variety of genes. ..
  39. Raina S, Missiakas D, Baird L, Kumar S, Georgopoulos C. Identification and transcriptional analysis of the Escherichia coli htrE operon which is homologous to pap and related pilin operons. J Bacteriol. 1993;175:5009-21 pubmed
  40. Litwin C, Rayback T, Skinner J. Role of catechol siderophore synthesis in Vibrio vulnificus virulence. Infect Immun. 1996;64:2834-8 pubmed
    ..The deduced amino acid sequence of venB is 41% identical to the enzyme isochorismatase of Escherichia coli (EntB), an enzyme involved in the biosynthesis of the catechol siderophore enterobactin...
  41. Zhou J, Blair D. Residues of the cytoplasmic domain of MotA essential for torque generation in the bacterial flagellar motor. J Mol Biol. 1997;273:428-39 pubmed
    ..Possible roles for these residues in torque generation are discussed. ..
  42. Bibikova M, Wu B, Chi E, Kim K, Trautman J, Carroll D. Characterization of FEN-1 from Xenopus laevis. cDNA cloning and role in DNA metabolism. J Biol Chem. 1998;273:34222-9 pubmed
    ..These observations support a critical role for xFEN-1 in DNA replication, but indicate that another enzyme must be responsible for the exonuclease function required for homologous recombination in Xenopus oocytes. ..
  43. Voth W, Richards J, Shaw J, Stillman D. Yeast vectors for integration at the HO locus. Nucleic Acids Res. 2001;29:E59-9 pubmed
    ..We also describe several new bacterial polylinker vectors derived from pUC21 (ampicillin resistance) and pUK21 (kanamycin resistance). ..
  44. Lowder B, Duyvesteyn M, Blair D. FliG subunit arrangement in the flagellar rotor probed by targeted cross-linking. J Bacteriol. 2005;187:5640-7 pubmed
    ..On the basis of the cross-linking results and the data available from mutational and electron microscopic studies, we propose a model for the organization of FliG subunits in the flagellum. ..
  45. Tang M, Odejinmi S, Allette Y, Vankayalapati H, Lai K. Identification of novel small molecule inhibitors of 4-diphosphocytidyl-2-C-methyl-D-erythritol (CDP-ME) kinase of Gram-negative bacteria. Bioorg Med Chem. 2011;19:5886-95 pubmed publisher
  46. Tianero M, Donia M, Young T, Schultz P, Schmidt E. Ribosomal route to small-molecule diversity. J Am Chem Soc. 2012;134:418-25 pubmed publisher
    ..These studies reveal the potential of RPs for the rational synthesis of complex, new small molecules over multiple-step biosynthetic pathways using simple genetic engineering. ..
  47. Kim E, Panushka J, Meyer T, Ide N, Carlisle R, Baker S, et al. Biogenesis of the Flagellar Switch Complex in Escherichia coli: Formation of Sub-Complexes Independently of the Basal-Body MS-Ring. J Mol Biol. 2017;429:2353-2359 pubmed publisher
    ..FliM does not multimerize efficiently by itself but does so in the presence of FliG. Thus, pre-assemblies of the switch-complex proteins can form in the cytosol and might function as intermediates in assembly. ..
  48. Harmon S, Updike W, Jia X, Summers D, Ehrenfeld E. Polyprotein processing in cis and in trans by hepatitis A virus 3C protease cloned and expressed in Escherichia coli. J Virol. 1992;66:5242-7 pubmed
    ..Extracts of bacteria expressing proteins from 3A* to 3D also cleaved a radiolabelled hepatitis A virus substrate containing VP1*2ABC* sequences in trans. ..
  49. Braaten B, Platko J, van der Woude M, Simons B, de Graaf F, Calvo J, et al. Leucine-responsive regulatory protein controls the expression of both the pap and fan pili operons in Escherichia coli. Proc Natl Acad Sci U S A. 1992;89:4250-4 pubmed
    ..However, pap gene expression was unresponsive to leucine, which distinguishes pap from other lrp-regulated genes whose expression is modulated by leucine. ..
  50. Nye J, Petersen J, Gunther C, Jonsen M, Graves B. Interaction of murine ets-1 with GGA-binding sites establishes the ETS domain as a new DNA-binding motif. Genes Dev. 1992;6:975-90 pubmed
    ..Compared to other well-characterized classes of DNA-binding proteins, Ets-1 produces a unique pattern of DNA contacts. These studies demonstrate that the ETS domain proteins bind DNA in a novel manner. ..
  51. Kofoid E, Parkinson J. Tandem translation starts in the cheA locus of Escherichia coli. J Bacteriol. 1991;173:2116-9 pubmed
    ..Both starts are flanked by inverted repeats that may play a role in regulating the relative expression rates of the CheA proteins through alternative mRNA secondary structures. ..
  52. Sell S, Eisen C, Ang D, Zylicz M, Georgopoulos C. Isolation and characterization of dnaJ null mutants of Escherichia coli. J Bacteriol. 1990;172:4827-35 pubmed
    ..However, the accumulation of extragenic suppressors is necessary for rapid bacterial growth at higher temperatures. ..
  53. Lipinska B, Zylicz M, Georgopoulos C. The HtrA (DegP) protein, essential for Escherichia coli survival at high temperatures, is an endopeptidase. J Bacteriol. 1990;172:1791-7 pubmed
    ..The HtrA protein was shown to be a specific endopeptidase which was inhibited by diisopropylfluorophosphate, suggesting that HtrA is a serine protease. ..
  54. Lipinska B, King J, Ang D, Georgopoulos C. Sequence analysis and transcriptional regulation of the Escherichia coli grpE gene, encoding a heat shock protein. Nucleic Acids Res. 1988;16:7545-62 pubmed
    ..A, 82, 2679-2683]. We have shown by S1 mapping and RNA sequencing that this is indeed the promoter for the grpE mRNA. It appears that all discernable transcription initiates only from this promoter, even under non-heat shock conditions. ..
  55. Lipinska B, Sharma S, Georgopoulos C. Sequence analysis and regulation of the htrA gene of Escherichia coli: a sigma 32-independent mechanism of heat-inducible transcription. Nucleic Acids Res. 1988;16:10053-67 pubmed
    ..The P3 promoter is especially active at high temperatures and is recognized by a recently identified transcriptional factor, sigma E. ..
  56. van der Woude M, Kaltenbach L, Low D. Leucine-responsive regulatory protein plays dual roles as both an activator and a repressor of the Escherichia coli pap fimbrial operon. Mol Microbiol. 1995;17:303-12 pubmed
    ..Because pap phase variation occurs in the absence of H-NS, it is not clear what role this regulatory protein plays in pap gene regulation. ..
  57. Christensen A, Massiah M, Turner B, Sundquist W, Summers M. Three-dimensional structure of the HTLV-II matrix protein and comparative analysis of matrix proteins from the different classes of pathogenic human retroviruses. J Mol Biol. 1996;264:1117-31 pubmed
    ..Clear structural similarities between the HTLV-II and HIV-1 matrix proteins suggest that the topology and exposed cationic membrane binding surface are likely to be conserved features of retroviral matrix proteins. ..
  58. Eto D, Sundsbak J, Mulvey M. Actin-gated intracellular growth and resurgence of uropathogenic Escherichia coli. Cell Microbiol. 2006;8:704-17 pubmed
  59. Thulasiram H, Poulter C. Farnesyl diphosphate synthase: the art of compromise between substrate selectivity and stereoselectivity. J Am Chem Soc. 2006;128:15819-23 pubmed
  60. Mowery P, Ostler J, Parkinson J. Different signaling roles of two conserved residues in the cytoplasmic hairpin tip of Tsr, the Escherichia coli serine chemoreceptor. J Bacteriol. 2008;190:8065-74 pubmed publisher
    ..These findings demonstrate that the receptor determinants for CheA and CheW binding probably lie outside the hairpin tip of the receptor signaling domain. ..
  61. Fisher M, Stamper P, Hujer K, Love Z, Croft A, Cohen S, et al. Performance of the Phoenix bacterial identification system compared with disc diffusion methods for identifying extended-spectrum beta-lactamase, AmpC and KPC producers. J Med Microbiol. 2009;58:774-8 pubmed publisher
    ..Overall, these results indicate that laboratories should use the Phoenix ESBL results only as an initial screen followed by confirmation with an alternative method. ..
  62. Zhou Q, Ames P, Parkinson J. Mutational analyses of HAMP helices suggest a dynamic bundle model of input-output signalling in chemoreceptors. Mol Microbiol. 2009;73:801-14 pubmed publisher
    ..This study shows how transmembrane signalling and HAMP input-output control could occur without the helix rotations central to the gearbox model. ..
  63. Blango M, Mulvey M. Persistence of uropathogenic Escherichia coli in the face of multiple antibiotics. Antimicrob Agents Chemother. 2010;54:1855-63 pubmed publisher
  64. Paul K, Nieto V, Carlquist W, Blair D, Harshey R. The c-di-GMP binding protein YcgR controls flagellar motor direction and speed to affect chemotaxis by a "backstop brake" mechanism. Mol Cell. 2010;38:128-39 pubmed publisher
    ..Inhibition of motility and chemotaxis may represent a strategy to prepare for sedentary existence by disfavoring migration away from a substrate on which a biofilm is to be formed. ..
  65. Sarkar M, Paul K, Blair D. Chemotaxis signaling protein CheY binds to the rotor protein FliN to control the direction of flagellar rotation in Escherichia coli. Proc Natl Acad Sci U S A. 2010;107:9370-5 pubmed publisher
    ..Using a recently developed structural model for the FliN/FliM(C) array, and the CheY(P)-binding site here identified on FliN, we propose a mechanism by which CheY(P) binding could induce the conformational switch to CW rotation. ..
  66. Gurvich O, Nasvall S, Baranov P, Bjork G, Atkins J. Two groups of phenylalanine biosynthetic operon leader peptides genes: a high level of apparently incidental frameshifting in decoding Escherichia coli pheL. Nucleic Acids Res. 2011;39:3079-92 pubmed publisher
    ..This finding of incidental, rather than utilized, frameshifting is cautionary for other studies of programmed frameshifting. ..
  67. Pham H, Parkinson J. Phenol sensing by Escherichia coli chemoreceptors: a nonclassical mechanism. J Bacteriol. 2011;193:6597-604 pubmed publisher
    ..The structurally sensitive target for phenol is probably the TM bundle, but other behaviors could target other receptor elements. ..
  68. Wiles T, Norton J, Russell C, Dalley B, Fischer K, Mulvey M. Combining quantitative genetic footprinting and trait enrichment analysis to identify fitness determinants of a bacterial pathogen. PLoS Genet. 2013;9:e1003716 pubmed publisher
    ..Together, the approaches and observations reported herein provide a resource for future pathogenomics-based research and highlight the diversity of factors required by a single ExPEC isolate to survive within varying host environments. ..
  69. Piñas G, Frank V, Vaknin A, Parkinson J. The source of high signal cooperativity in bacterial chemosensory arrays. Proc Natl Acad Sci U S A. 2016;113:3335-40 pubmed publisher
    ..This work confirms the critical role of interface 2 in organizing the chemosensory array, in directing the clustered array to the cell poles, and in producing its highly cooperative signaling properties. ..
  70. Currie S, Lau D, Doane J, Whitby F, Okon M, McIntosh L, et al. Structured and disordered regions cooperatively mediate DNA-binding autoinhibition of ETS factors ETV1, ETV4 and ETV5. Nucleic Acids Res. 2017;45:2223-2241 pubmed publisher
    ..These distinguishing inhibitory elements provide a platform through which cellular triggers, such as protein-protein interactions or post-translational modifications, may specifically regulate the function of these oncogenic proteins. ..
  71. Wall D, Delaney J, Fayet O, Lipinska B, Yamamoto T, Georgopoulos C. arc-dependent thermal regulation and extragenic suppression of the Escherichia coli cytochrome d operon. J Bacteriol. 1992;174:6554-62 pubmed
    ..Consistent with this interpretation, the presence of the cyo gene on a multicopy plasmid suppressed the Ts- and hydrogen peroxide-sensitive phenotypes of cyd mutants. ..
  72. Dubiel W, Ferrell K, Pratt G, Rechsteiner M. Subunit 4 of the 26 S protease is a member of a novel eukaryotic ATPase family. J Biol Chem. 1992;267:22699-702 pubmed
    ..Subunit 4 also shows weak similarity to ClpA, the ATP-binding subunit of the Escherichia coli protease, Clp. ..
  73. Chang S, Ng D, Baird L, Georgopoulos C. Analysis of an Escherichia coli dnaB temperature-sensitive insertion mutation and its cold-sensitive extragenic suppressor. J Biol Chem. 1991;266:3654-60 pubmed
    ..One of these extragenic suppressors was mapped at 54 min on the E. coli genetic map and localized to the suhB gene, whose product may affect the expression of a number of genes at the translational level. ..
  74. Chun S, Parkinson J. Bacterial motility: membrane topology of the Escherichia coli MotB protein. Science. 1988;239:276-8 pubmed
    ..Protease treatment of MotB in spheroplasts confirmed this view. The simple transmembrane organization of MotB is difficult to reconcile with a role as a proton conductor. ..
  75. Wu B, Wawrzynow A, Zylicz M, Georgopoulos C. Structure-function analysis of the Escherichia coli GrpE heat shock protein. EMBO J. 1996;15:4806-16 pubmed
    ..Our results also demonstrate that both the N-terminal and C-terminal regions are important for GrpE function in lambda DNA replication and its co-chaperone activity with DnaK. ..
  76. Porello S, Cannon M, David S. A substrate recognition role for the [4Fe-4S]2+ cluster of the DNA repair glycosylase MutY. Biochemistry. 1998;37:6465-75 pubmed
    ..More importantly, these results provide evidence that the presence of the [4Fe-4S]2+ cluster is critical for the specific recognition of substrate DNA necessary for the adenine glycosylase activity of MutY. ..
  77. Kofoid E, Rappleye C, Stojiljkovic I, Roth J. The 17-gene ethanolamine (eut) operon of Salmonella typhimurium encodes five homologues of carboxysome shell proteins. J Bacteriol. 1999;181:5317-29 pubmed
    ..The presence of these homologues in the eut operon of Salmonella suggests that CO2 fixation may be a feature of ethanolamine catabolism in Salmonella...
  78. Leyes A, Baker J, Poulter C. Biosynthesis of isoprenoids in Escherichia coli: stereochemistry of the reaction catalyzed by farnesyl diphosphate synthase. Org Lett. 1999;1:1071-3 pubmed
  79. Williams S, David S. A single engineered point mutation in the adenine glycosylase MutY confers bifunctional glycosylase/AP lyase activity. Biochemistry. 2000;39:10098-109 pubmed
  80. Heaton D, George G, Garrison G, Winge D. The mitochondrial copper metallochaperone Cox17 exists as an oligomeric, polycopper complex. Biochemistry. 2001;40:743-51 pubmed
    ..Thus, the oligomeric state of Cox17 may be important to its physiological function. ..
  81. Baranov P, Gesteland R, Atkins J. Release factor 2 frameshifting sites in different bacteria. EMBO Rep. 2002;3:373-7 pubmed
    ..Internal translation initiation occurs at the shift site, but any functional role is obscure. ..
  82. Pope M, Porello S, David S. Escherichia coli apurinic-apyrimidinic endonucleases enhance the turnover of the adenine glycosylase MutY with G:A substrates. J Biol Chem. 2002;277:22605-15 pubmed
    ..These results constitute the first evidence of an interaction between the MutY-product DNA complex and Endo IV or Exo III. Furthermore, they suggest a role for the C-terminal domain of MutY in mediating this interaction. ..
  83. Brown B, Wang Z, Brown K, Cricco J, Hegg E. Heme O synthase and heme A synthase from Bacillus subtilis and Rhodobacter sphaeroides interact in Escherichia coli. Biochemistry. 2004;43:13541-8 pubmed publisher
    ..Because of the strong sequence similarity and evolutionary relationship between R. sphaeroides and mitochondria, our data suggest that this complex may form in eukaryotes as well...
  84. Wu Z, Wouters J, Poulter C. Isopentenyl diphosphate isomerase. Mechanism-based inhibition by diene analogues of isopentenyl diphosphate and dimethylallyl diphosphate. J Am Chem Soc. 2005;127:17433-8 pubmed
    ..In both adducts C5 of the inhibitor is joined to the sulfur of C67. In these structures the methyl group formed upon protonation of the diene moiety in 4-OPP is located near E116, implicating that residue in the protonation step. ..
  85. Sharma N, Pan J, Poulter C. Type II isopentenyl diphosphate isomerase: probing the mechanism with alkyne/allene diphosphate substrate analogues. Biochemistry. 2010;49:6228-33 pubmed publisher
    ..The experimental and computational results are consistent with a protonation-deprotonation mechanism for the enzyme-catalyzed isomerization of IPP and DMAPP. ..
  86. Pontes M, Smith K, De Vooght L, Van den Abbeele J, Dale C. Attenuation of the sensing capabilities of PhoQ in transition to obligate insect-bacterial association. PLoS Genet. 2011;7:e1002349 pubmed publisher
    ..The loss of PhoQ's sensory capability is predicted to represent a novel adaptation to the static symbiotic lifestyle, allowing S. glossinidius to constitutively express genes that facilitate resistance to host derived AMPs. ..
  87. Kraemer B, Campbell R, Schwertz H, Franks Z, Vieira de Abreu A, Gründler K, et al. Bacteria differentially induce degradation of Bcl-xL, a survival protein, by human platelets. Blood. 2012;120:5014-20 pubmed publisher
  88. Nishiyama S, Garz n A, Parkinson J. Mutational analysis of the P1 phosphorylation domain in Escherichia coli CheA, the signaling kinase for chemotaxis. J Bacteriol. 2014;196:257-64 pubmed publisher
    ..However, once phosphorylated, the mutant P1 domains transferred phosphate to CheY at the wild-type rate. Thus, these P1 mutants appear to define interaction determinants for P1-P4 docking during the CheA autophosphorylation reaction...
  89. Wambaugh M, Shakya V, Lewis A, Mulvey M, Brown J. High-throughput identification and rational design of synergistic small-molecule pairs for combating and bypassing antibiotic resistance. PLoS Biol. 2017;15:e2001644 pubmed publisher
  90. Bennett M, Trivedi S, Iyer A, Hale J, Leung D. Human mucosal-associated invariant T (MAIT) cells possess capacity for B cell help. J Leukoc Biol. 2017;102:1261-1269 pubmed publisher
    ..This study thus provides the first direct evidence of a newly identified role of MAIT cells in providing help to B cells. ..
  91. Hickerson R, Watkins Sims C, Burrows C, Atkins J, Gesteland R, Felden B. A nickel complex cleaves uridine in folded RNA structures: application to E. coli tmRNA and related engineered molecules. J Mol Biol. 1998;279:577-87 pubmed
    ..Although additional studies are required to better characterize the reaction, this paper reports a novel specificity for a chemical probe which may be useful for investigating structural motifs involving G-U pairs in folded RNAs. ..
  92. Ames P, Parkinson J. Phenotypic suppression methods for analyzing intra- and inter-molecular signaling interactions of chemoreceptors. Methods Enzymol. 2007;423:436-57 pubmed
    ..The suppression patterns exhibit allele-specificity with respect to the compensatory residue positions and amino acid side chains, a hallmark of stereospecific protein-protein interactions. ..