Experts and Doctors on escherichia coli in New York, United States

Summary

Locale: New York, United States
Topic: escherichia coli

Top Publications

  1. Kaplan J, Dingwall A, Bryan R, Champer R, Shapiro L. Temporal regulation and overlap organization of two Caulobacter flagellar genes. J Mol Biol. 1989;205:71-83 pubmed
    ..The entire promoter region and an upstream consensus sequence that might be a regulatory element for the flaY gene lies within the carboxyl-terminal coding sequence of the flaE gene. ..
  2. Kuriyan J, Wong L, Russel M, Model P. Crystallization and preliminary x-ray characterization of thioredoxin reductase from Escherichia coli. J Biol Chem. 1989;264:12752-3 pubmed
    ..The space group is P6(3)22 (a = b = 123.8 A, c = 81.6 A), with one monomer of the enzyme (34.5 kDa) in the crystallographic asymmetric unit. The crystals are well ordered and diffract to beyond 2 A resolution. ..
  3. Vaughan K, Weber F, Einheber S, Fischman D. Molecular cloning of chicken myosin-binding protein (MyBP) H (86-kDa protein) reveals extensive homology with MyBP-C (C-protein) with conserved immunoglobulin C2 and fibronectin type III motifs. J Biol Chem. 1993;268:3670-6 pubmed
    ..This repeat structure is implicated in myosin binding for the MyBP family. Finally, genomic Southern blots indicate that a single gene encodes fast skeletal muscle MyBP-H. ..
  4. Li W, Lin P, Frydman J, Boal T, Cardillo T, Richard L, et al. Tcp20, a subunit of the eukaryotic TRiC chaperonin from humans and yeast. J Biol Chem. 1994;269:18616-22 pubmed
    ..The amino acid sequence similarities and the derived evolutionary relationships established that the human and yeast Tcp20 proteins represent members of a new family of subunits of TRiC chaperonins. ..
  5. Grundy F, Waters D, Allen S, Henkin T. Regulation of the Bacillus subtilis acetate kinase gene by CcpA. J Bacteriol. 1993;175:7348-55 pubmed
    ..Two sequences resembling the amyO operator site were identified upstream of the ackA promoter; removal of this region resulted in loss of glucose activation of ackA expression. ..
  6. Russo A, Tong L, Lee J, Jeffrey P, Pavletich N. Structural basis for inhibition of the cyclin-dependent kinase Cdk6 by the tumour suppressor p16INK4a. Nature. 1998;395:237-43 pubmed
    ..Tumour-derived mutations in INK4a and Cdk4 map to interface contacts, solidifying the role of CDK binding and inhibition in the tumour suppressor activity of p16INK4a. ..
  7. Mishra P, Park P, Drueckhammer D. Identification of yacE (coaE) as the structural gene for dephosphocoenzyme A kinase in Escherichia coli K-12. J Bacteriol. 2001;183:2774-8 pubmed
    ..The activities with adenosine, AMP, and adenosine phosphosulfate were 4 to 8% of the activity with dephospho-CoA. Homologues of the E. coli dephospho-CoA kinase were identified in a diverse range of organisms. ..
  8. Hall B. Predicting evolutionary potential. I. Predicting the evolution of a lactose-PTS system in Escherichia coli. Mol Biol Evol. 2001;18:1389-400 pubmed
    ..In contrast, biochemical data predict that the cryptic bglB gene, which also currently specifies a phospho-beta-glucosidase, is most likely to evolve into a phospho-beta-galactosidase. ..
  9. Lima C. Analysis of the E. coli NifS CsdB protein at 2.0 A reveals the structural basis for perselenide and persulfide intermediate formation. J Mol Biol. 2002;315:1199-208 pubmed

More Information

Publications545 found, 100 shown here

  1. Min G, Stolz M, Zhou G, Liang F, Sebbel P, Stoffler D, et al. Localization of uroplakin Ia, the urothelial receptor for bacterial adhesin FimH, on the six inner domains of the 16 nm urothelial plaque particle. J Mol Biol. 2002;317:697-706 pubmed
  2. Wang L, Zhu H, Shuman S. Structure-guided Mutational Analysis of the Nucleotidyltransferase Domain of Escherichia coli DNA Ligase (LigA). J Biol Chem. 2009;284:8486-94 pubmed publisher
  3. Tanaka N, Smith P, Shuman S. Structure of the RNA 3'-phosphate cyclase-adenylate intermediate illuminates nucleotide specificity and covalent nucleotidyl transfer. Structure. 2010;18:449-57 pubmed publisher
    ..Two sulfates bound near the adenylate plausibly mimic the 3'-terminal and penultimate phosphates of RNA. The structure illuminates how the four alpha2/beta4 domains contribute to substrate binding and catalysis. ..
  4. Townley R, Bülow H. Genetic analysis of the heparan modification network in Caenorhabditis elegans. J Biol Chem. 2011;286:16824-31 pubmed publisher
    ..Our comprehensive genetic analysis forms the basis of understanding the HS modification network in metazoans. ..
  5. Picollo A, Xu Y, Johner N, Berneche S, Accardi A. Synergistic substrate binding determines the stoichiometry of transport of a prokaryotic H(+)/Cl(-) exchanger. Nat Struct Mol Biol. 2012;19:525-31, S1 pubmed publisher
    ..We propose that the thermodynamics of synergistic substrate binding, rather than the kinetics of conformational changes and ion binding, determine the stoichiometry of transport...
  6. Viladomiu M, Kivolowitz C, Abdulhamid A, Dogan B, Victorio D, Castellanos J, et al. IgA-coated E. coli enriched in Crohn's disease spondyloarthritis promote TH17-dependent inflammation. Sci Transl Med. 2017;9: pubmed publisher
  7. Mok M, Marians K. The Escherichia coli preprimosome and DNA B helicase can form replication forks that move at the same rate. J Biol Chem. 1987;262:16644-54 pubmed
    ..The single-stranded DNA binding protein was not required to maintain this high rate of movement in the case of leading strand DNA synthesis catalyzed by the DNA polymerase III holoenzyme and the DNA B helicase. ..
  8. Towers T, Staeva T, Freedman L. A two-hit mechanism for vitamin D3-mediated transcriptional repression of the granulocyte-macrophage colony-stimulating factor gene: vitamin D receptor competes for DNA binding with NFAT1 and stabilizes c-Jun. Mol Cell Biol. 1999;19:4191-9 pubmed
    ..These two events mediated by VDR effectively block the NFAT1-AP-1 activation complex, resulting in an attenuation of activated GM-CSF transcription. ..
  9. Shi W, Basso L, Santos D, Tyler P, Furneaux R, Blanchard J, et al. Structures of purine nucleoside phosphorylase from Mycobacterium tuberculosis in complexes with immucillin-H and its pieces. Biochemistry. 2001;40:8204-15 pubmed
    ..Loose packing of the pieces of ImmH in the catalytic site establishes that covalent connectivity in ImmH is required to achieve the tightly bound complex. ..
  10. Kicska G, Tyler P, Evans G, Furneaux R, Kim K, Schramm V. Transition state analogue inhibitors of purine nucleoside phosphorylase from Plasmodium falciparum. J Biol Chem. 2002;277:3219-25 pubmed
    ..These properties of P. falciparum PNP are consistent with a metabolic role in purine salvage and provide an explanation for the antibiotic effect of the immucillins on P. falciparum cultured in human erythrocytes. ..
  11. Zengel J, Lindahl L. Ribosomal protein L4 and transcription factor NusA have separable roles in mediating terminating of transcription within the leader of the S10 operon of Escherichia coli. Genes Dev. 1992;6:2655-62 pubmed
    ..Genetically separable regions of the S10 leader are required for NusA and L4 action: The attenuator hairpin is sufficient for NusA-dependent pausing, but upstream elements are necessary for L4 to prolong the pause. ..
  12. Klugman K, Gotschlich E, Blake M. Sequence of the structural gene (rmpM) for the class 4 outer membrane protein of Neisseria meningitidis, homology of the protein to gonococcal protein III and Escherichia coli OmpA, and construction of meningococcal strains that lack class 4 protein. Infect Immun. 1989;57:2066-71 pubmed
    ..In order to investigate the role of the class 4 protein in the pathogenesis of meningococcal infection, we have used an erythromycin resistance gene in developing two meningococcal strains that lack class 4 protein...
  13. Priebe S, Hadi S, Greenberg B, Lacks S. Nucleotide sequence of the hexA gene for DNA mismatch repair in Streptococcus pneumoniae and homology of hexA to mutS of Escherichia coli and Salmonella typhimurium. J Bacteriol. 1988;170:190-6 pubmed
    ..This homology indicates that the Hex and Mut systems of mismatch repair evolved from an ancestor common to the gram-positive streptococci and the gram-negative enterobacteria. It is the first direct evidence linking the two systems...
  14. Stebbins C, Borukhov S, Orlova M, Polyakov A, Goldfarb A, Darst S. Crystal structure of the GreA transcript cleavage factor from Escherichia coli. Nature. 1995;373:636-40 pubmed
    ..The structure exhibits an unusual asymmetric charge distribution which indicates the manner in which GreA interacts with the RNA polymerase elongation complex. ..
  15. Hiasa H, Marians K. Primase couples leading- and lagging-strand DNA synthesis from oriC. J Biol Chem. 1994;269:6058-63 pubmed
    ..On the other hand, high concentrations of primase resulted in successful capture of the helicase leading to the formation at oriC of coupled replication forks capable of coordinated leading- and lagging-strand synthesis. ..
  16. Tu J, Vallier L, Carlson M. Molecular and genetic analysis of the SNF7 gene in Saccharomyces cerevisiae. Genetics. 1993;135:17-23 pubmed
    ..We also mapped SNF7 to the right arm of chromosome XII near the centromere. ..
  17. Hilbert T, Chaung W, Boorstein R, Cunningham R, Teebor G. Cloning and expression of the cDNA encoding the human homologue of the DNA repair enzyme, Escherichia coli endonuclease III. J Biol Chem. 1997;272:6733-40 pubmed
  18. DiGabriele A, Lax I, Chen D, Svahn C, Jaye M, Schlessinger J, et al. Structure of a heparin-linked biologically active dimer of fibroblast growth factor. Nature. 1998;393:812-7 pubmed
    ..The dimerization of heparin-linked acidic FGF observed here is an elegant mechanism for the modulation of signalling through combinatorial homodimerization and heterodimerization of the 12 known members of the FGF family. ..
  19. Liu J, Xu L, Sandler S, Marians K. Replication fork assembly at recombination intermediates is required for bacterial growth. Proc Natl Acad Sci U S A. 1999;96:3552-5 pubmed
    ..These findings underscore the essentiality of replication fork restart at recombination intermediates under normal growth conditions in bacteria. ..
  20. Wei J, Liu C, Leyh T. The role of enzyme isomerization in the native catalytic cycle of the ATP sulfurylase-GTPase system. Biochemistry. 2000;39:4704-10 pubmed
    ..These findings are incorporated into a model of the energy-coupling mechanism. ..
  21. Yang I, Hossain M, Miller H, Khullar S, Johnson F, Grollman A, et al. Responses to the major acrolein-derived deoxyguanosine adduct in Escherichia coli. J Biol Chem. 2001;276:9071-6 pubmed
    ..Nucleotide excision repair, recombination repair, and highly accurate translesion synthesis combine to protect E. coli from the potential genotoxicity of this DNA adduct. ..
  22. Stelzl U, Zengel J, Tovbina M, Walker M, Nierhaus K, Lindahl L, et al. RNA-structural mimicry in Escherichia coli ribosomal protein L4-dependent regulation of the S10 operon. J Biol Chem. 2003;278:28237-45 pubmed
    ..In vitro binding of L4 induces structural changes of the S10 leader RNA, providing a first clue for how protein L4 may provoke transcription termination. ..
  23. Mee M, Collins J, Church G, Wang H. Syntrophic exchange in synthetic microbial communities. Proc Natl Acad Sci U S A. 2014;111:E2149-56 pubmed publisher
    ..This work sets the foundation for future endeavors to resolve key questions in microbial ecology and evolution, and presents a platform to develop better and more robust engineered synthetic communities for industrial biotechnology. ..
  24. Kuriyan J, Krishna T, Wong L, Guenther B, Pahler A, Williams C, et al. Convergent evolution of similar function in two structurally divergent enzymes. Nature. 1991;352:172-4 pubmed
    ..This suggests that these enzymes diverged from an ancestral nucleotide-binding protein and acquired their disulphide reductase activities independently. ..
  25. Mueller J, Taber H. Structure and expression of the cytochrome aa3 regulatory gene ctaA of Bacillus subtilis. J Bacteriol. 1989;171:4979-86 pubmed
    ..The transcriptional start site, identified by high-resolution S1 nuclease protection experiments, was preceded by a single sigma A-dependent promoter sequence. ..
  26. Merino G, Shuman H. Unliganded maltose-binding protein triggers lactose transport in an Escherichia coli mutant with an alteration in the maltose transport system. J Bacteriol. 1997;179:7687-94 pubmed
    ..The requirement for MBP confirms that unliganded MBP interacts with the inner membrane MalFGK2 complex and that MBP plays a crucial role in triggering the transport process...
  27. Cross F, Archambault V, Miller M, Klovstad M. Testing a mathematical model of the yeast cell cycle. Mol Biol Cell. 2002;13:52-70 pubmed
    ..Thus, the model is a strong but incomplete attempt at a realistic representation of cell cycle control. Constraints of the sort developed here will be important in development of a truly predictive model. ..
  28. Mootz H, Muir T. Protein splicing triggered by a small molecule. J Am Chem Soc. 2002;124:9044-5 pubmed
    ..This approach is expected to be independent of the nature of the two exteins and so should provide a general vehicle for controlling protein function using small molecules. ..
  29. Campbell E, Tupy J, Gruber T, Wang S, Sharp M, Gross C, et al. Crystal structure of Escherichia coli sigmaE with the cytoplasmic domain of its anti-sigma RseA. Mol Cell. 2003;11:1067-78 pubmed
    ..In combination with a model of the sigma(E) holoenzyme and biochemical data, the structure reveals that RseA functions by sterically occluding the two primary binding determinants on sigma(E) for core RNA polymerase. ..
  30. Vilar J, Guet C, Leibler S. Modeling network dynamics: the lac operon, a case study. J Cell Biol. 2003;161:471-6 pubmed
    ..We integrate three different levels of description (molecular, cellular, and that of cell population) into a single model, which seems to capture many experimental aspects of the system. ..
  31. Huang Y, Lemieux M, Song J, Auer M, Wang D. Structure and mechanism of the glycerol-3-phosphate transporter from Escherichia coli. Science. 2003;301:616-20 pubmed
    ..Upon substrate binding, the protein adopts a more compact conformation. We propose that GlpT operates by a single-binding site, alternating-access mechanism through a rocker-switch type of movement. ..
  32. Lemieux M, Huang Y, Wang D. Glycerol-3-phosphate transporter of Escherichia coli: structure, function and regulation. Res Microbiol. 2004;155:623-9 pubmed
    ..Furthermore, GlpT may serve as a structural and mechanistic paradigm for other secondary active membrane transporters. ..
  33. Deaconescu A, Chambers A, Smith A, Nickels B, Hochschild A, Savery N, et al. Structural basis for bacterial transcription-coupled DNA repair. Cell. 2006;124:507-20 pubmed
    ..These data, along with a structural model for the interaction of TRCF with the transcription elongation complex, provide mechanistic insights into TRCF function. ..
  34. Sporer A, Kahl L, Price Whelan A, Dietrich L. Redox-Based Regulation of Bacterial Development and Behavior. Annu Rev Biochem. 2017;86:777-797 pubmed publisher
  35. Xanthoudakis S, Miao G, Wang F, Pan Y, Curran T. Redox activation of Fos-Jun DNA binding activity is mediated by a DNA repair enzyme. EMBO J. 1992;11:3323-35 pubmed
    ..This study suggests a novel link between transcription factor regulation, oxidative signalling and DNA repair processes in higher eukaryotes. ..
  36. Hall B, Xu L. Nucleotide sequence, function, activation, and evolution of the cryptic asc operon of Escherichia coli K12. Mol Biol Evol. 1992;9:688-706 pubmed
    ..The duplications that gave rise to these paralogous genes are estimated to have occurred approximately 320 Mya, a time that predates the divergence of E. coli and Salmonella typhimurium. ..
  37. Nurse P, Zavitz K, Marians K. Inactivation of the Escherichia coli priA DNA replication protein induces the SOS response. J Bacteriol. 1991;173:6686-93 pubmed
    ..These results are discussed in the context of existing models for SOS induction and possible roles for the PriA protein at the replication fork in vivo. ..
  38. Schad P, Iglewski B. Nucleotide sequence and expression in Escherichia coli of the Pseudomonas aeruginosa lasA gene. J Bacteriol. 1988;170:2784-9 pubmed
    ..The lasA protein was localized in the outer membrane fraction of E. coli. This lasA protein produced in E. coli activated the extracellular elastase produced by the P. aeruginosa mutant, PAO-E64. ..
  39. Shuman H, Panagiotidis C. Tinkering with transporters: periplasmic binding protein-dependent maltose transport in E. coli. J Bioenerg Biomembr. 1993;25:613-20 pubmed
  40. Cirillo J, Weisbrod T, Pascopella L, Bloom B, Jacobs W. Isolation and characterization of the aspartokinase and aspartate semialdehyde dehydrogenase operon from mycobacteria. Mol Microbiol. 1994;11:629-39 pubmed
    ..Primer extension analysis revealed that the only transcriptional start in this region is found 5' of the ask gene. This observation indicates that the mycobacterial ask and asd genes are in an operon...
  41. Shan X, Xue Z, Melese T. Yeast NPI46 encodes a novel prolyl cis-trans isomerase that is located in the nucleolus. J Cell Biol. 1994;126:853-62 pubmed
    ..By indirect immunofluorescence we have shown that NPI46 is a nucleolar protein. NPI46 is not essential for cell viability. ..
  42. Liu C, Martin E, Leyh T. GTPase activation of ATP sulfurylase: the mechanism. Biochemistry. 1994;33:2042-7 pubmed
    ..Product inhibition studies indicate that PPi release occurs prior to the addition of sulfate and APS formation. These results are used to construct a proposed mechanism for the GTP-activated synthesis of APS. ..
  43. Peng H, Marians K. Escherichia coli topoisomerase IV. Purification, characterization, subunit structure, and subunit interactions. J Biol Chem. 1993;268:24481-90 pubmed
    ..The inactivity of the truncated forms of ParC and ParE could be attributed to their failure to form the heterotetramer. ..
  44. Ferré D Amaré A, Prendergast G, Ziff E, Burley S. Recognition by Max of its cognate DNA through a dimeric b/HLH/Z domain. Nature. 1993;363:38-45 pubmed
    ..The two alpha-helical segments are composed of the basic region plus helix 1 and helix 2 plus the leucine repeat, respectively. As in GCN4, the leucine repeat forms a parallel coiled coil. ..
  45. Tong Y, Liu Chen X, Ercikan Abali E, Capiaux G, Zhao S, Banerjee D, et al. Isolation and characterization of thymitaq (AG337) and 5-fluoro-2-deoxyuridylate-resistant mutants of human thymidylate synthase from ethyl methanesulfonate-exposed human sarcoma HT1080 cells. J Biol Chem. 1998;273:11611-8 pubmed
    ..We postulate that the D49G or G52S mutation leads to the structural perturbation of the highly conserved Arg50 loop, decreasing the binding of thymidylate synthase to the inhibitors, Thymitaq and fluorodeoxyuridylate. ..
  46. Charney A, Egnor R, Alexander Chacko J, Zaharia V, Mann E, Giannella R. Effect of E. coli heat-stable enterotoxin on colonic transport in guanylyl cyclase C receptor-deficient mice. Am J Physiol Gastrointest Liver Physiol. 2001;280:G216-21 pubmed
    ..We conclude that the GCC receptor is necessary in the mouse proximal colon for a secretory response to mucosal STa...
  47. Wei J, Tang Q, Varlamova O, Roche C, Lee R, Leyh T. Cysteine biosynthetic enzymes are the pieces of a metabolic energy pump. Biochemistry. 2002;41:8493-8 pubmed
    ..These findings integrate cysteine metabolism and broaden our understanding of the ways in which higher order allostery is used to effect free energy transfer. ..
  48. Faraldo Gómez J, Roux B. Electrostatics of ion stabilization in a ClC chloride channel homologue from Escherichia coli. J Mol Biol. 2004;339:981-1000 pubmed
    ..Finally, it is shown that, in contrast to K-channels, and in analogy to the SBP/PBP sulfate/phosphate-binding proteins, the contribution of helix macrodipoles to chloride binding in EcClC is only marginal. ..
  49. Gebauer D, Li J, Jogl G, Shen Y, Myszka D, Tong L. Crystal structure of the PH-BEACH domains of human LRBA/BGL. Biochemistry. 2004;43:14873-80 pubmed
    ..The structure suggests intimate association between the PH and the BEACH domains, and surface plasmon resonance studies confirm that the two domains of the protein FAN have high affinity for each other, with a K(d) of 120 nM. ..
  50. Gao Z, Shao Y, Jiang X. Essential roles of the Bcl-2 family of proteins in caspase-2-induced apoptosis. J Biol Chem. 2005;280:38271-5 pubmed
    ..Collectively, these results indicate that proteolytic activation of Bid and the subsequent induction of the mitochondrial apoptotic pathway through Bax/Bak is essential for apoptosis triggered by caspase-2. ..
  51. Baker P, Chan Y, Hertel M, Montclare J. Characterization and identification of the protein partners of Fn3 domain in FnTm2. Protein Expr Purif. 2012;81:42-48 pubmed publisher
    ..Of the proteins recognized, myelin basic protein (MBP) was identified as a bona fide partner; it was further characterized for binding to Fn3 in vitro via fluorescence spectroscopy and confirmed via isothermal calorimetry (ITC). ..
  52. Yao N, Schroeder J, Yurieva O, Simmons L, O Donnell M. Cost of rNTP/dNTP pool imbalance at the replication fork. Proc Natl Acad Sci U S A. 2013;110:12942-7 pubmed publisher
    ..Here we demonstrate that Bacillus subtilis incorporates rNMPs in vivo, that RNase HII plays a role in their removal, and the RNase HII gene deletion enhances mutagenesis, suggesting a possible role of incorporated rNMPs in MMR...
  53. Huang S, Lee A, Tsoi R, Wu F, Zhang Y, Leong K, et al. Coupling spatial segregation with synthetic circuits to control bacterial survival. Mol Syst Biol. 2016;12:859 pubmed publisher
    ..We demonstrate that this design concept is modular and readily generalizable. Our work lays the foundation for engineering integrated and programmable control of hybrid biological-material systems for diverse applications. ..
  54. Li N, Batzer A, Daly R, Yajnik V, Skolnik E, Chardin P, et al. Guanine-nucleotide-releasing factor hSos1 binds to Grb2 and links receptor tyrosine kinases to Ras signalling. Nature. 1993;363:85-8 pubmed
    ..Moreover, a synthetic 10-amino-acid peptide containing the sequence PPVPPR specifically blocks the interaction. These results indicate that the Grb2/hSos1 complex couples activated EGF receptor to Ras signalling. ..
  55. Zhang G, Darst S. Structure of the Escherichia coli RNA polymerase alpha subunit amino-terminal domain. Science. 1998;281:262-6 pubmed
  56. Shiloh M, MacMicking J, Nicholson S, Brause J, Potter S, Marino M, et al. Phenotype of mice and macrophages deficient in both phagocyte oxidase and inducible nitric oxide synthase. Immunity. 1999;10:29-38 pubmed
    ..Their killing of S. typhimurium, E. coli, and attenuated Listeria was markedly diminished but demonstrable, establishing the existence of a mechanism of macrophage antibacterial activity independent of phox and NOS2. ..
  57. Xing F, Martzen M, Phizicky E. A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA. RNA. 2002;8:370-81 pubmed
    ..Yeast extract from a dus1-A strain is completely defective in modification of yeast pre-tRNAPhe, and RNA isolated from dus1-delta and dus2-delta strains is significantly depleted in dihydrouridine content. ..
  58. Dutzler R, Campbell E, MacKinnon R. Gating the selectivity filter in ClC chloride channels. Science. 2003;300:108-12 pubmed
    ..Mutations of this glutamate residue in Torpedo ray ClC channels alter gating in electrophysiological assays. These findings reveal a form of gating in which the glutamate carboxyl group closes the pore by mimicking a Cl- ion. ..
  59. Opalka N, Chlenov M, Chacon P, Rice W, Wriggers W, Darst S. Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase. Cell. 2003;114:335-45 pubmed
    ..Mutational studies confirm that these positions are critical for Gre factor function. ..
  60. Heller R, Marians K. The disposition of nascent strands at stalled replication forks dictates the pathway of replisome loading during restart. Mol Cell. 2005;17:733-43 pubmed
    ..These observations suggest that the type of initial damage on the DNA template and how the inactivated fork is processed ultimately influence the choice of enzymatic restart pathway. ..
  61. Kikuchi E, Menendez S, Ozu C, Ohori M, Cordon Cardo C, Logg C, et al. Delivery of replication-competent retrovirus expressing Escherichia coli purine nucleoside phosphorylase increases the metabolism of the prodrug, fludarabine phosphate and suppresses the growth of bladder tumor xenografts. Cancer Gene Ther. 2007;14:279-86 pubmed
  62. Lu X, Zhou R, Sharma I, Li X, Kumar G, Swaminathan S, et al. Stable analogues of OSB-AMP: potent inhibitors of MenE, the o-succinylbenzoate-CoA synthetase from bacterial menaquinone biosynthesis. Chembiochem. 2012;13:129-36 pubmed publisher
    ..A pH-dependent interconversion of the free keto acid and lactol forms of the inhibitors is also described, along with implications for inhibitor design. ..
  63. Billerbeck S, Calles B, Müller C, De Lorenzo V, Panke S. Towards functional orthogonalisation of protein complexes: individualisation of GroEL monomers leads to distinct quasihomogeneous single rings. Chembiochem. 2013;14:2310-21 pubmed publisher
    ..At least in the case of GroEL, individualisation of monomers thus leads to individualisation of homomultimeric protein complexes, effectively providing the prerequisites for evolving an orthogonal intracellular GroEL folding machine. ..
  64. Chen J, Wassarman K, Feng S, Leon K, Feklistov A, Winkelman J, et al. 6S RNA Mimics B-Form DNA to Regulate Escherichia coli RNA Polymerase. Mol Cell. 2017;68:388-397.e6 pubmed publisher
    ..Our results help explain the specificity of Eco 6S RNA for Eσ70 and show how an ncRNA can mimic B-form DNA to directly regulate transcription by the DNA-dependent RNAP. ..
  65. Shaknovich R, Shue G, Kohtz D. Conformational activation of a basic helix-loop-helix protein (MyoD1) by the C-terminal region of murine HSP90 (HSP84). Mol Cell Biol. 1992;12:5059-68 pubmed
    ..HSP90 is an abundant, ubiquitous, and highly conserved protein present in most eukaryotic cells. These results provide direct evidence that HSP90 can affect the conformational structure of a DNA-binding protein. ..
  66. Sullivan S, Ward D, Gottesman M. Effect of Escherichia coli nusG function on lambda N-mediated transcription antitermination. J Bacteriol. 1992;174:1339-44 pubmed
    ..These results suggest that NusG may act as a component of the N antitermination complex. In addition, the data imply a role for NusG in Rho-dependent termination. ..
  67. Wu C, Zechner E, Reems J, McHenry C, Marians K. Coordinated leading- and lagging-strand synthesis at the Escherichia coli DNA replication fork. V. Primase action regulates the cycle of Okazaki fragment synthesis. J Biol Chem. 1992;267:4074-83 pubmed
  68. Barany F, Gelfand D. Cloning, overexpression and nucleotide sequence of a thermostable DNA ligase-encoding gene. Gene. 1991;109:1-11 pubmed
    ..Adenylated and deadenylated forms of the purified enzyme were distinguished by apparent molecular weights of 81 kDa and 78 kDa, respectively, after separation via sodium dodecyl sulfate-polyacrylamide-gel electrophoresis. ..
  69. Gampel A, Tzagoloff A. Homology of aspartyl- and lysyl-tRNA synthetases. Proc Natl Acad Sci U S A. 1989;86:6023-7 pubmed
    ..coli and the unidentified reading frame to be the structural gene of the heat-inducible lysyl-tRNA synthetase. ..
  70. Gotschlich E, Seiff M, Blake M, Koomey M. Porin protein of Neisseria gonorrhoeae: cloning and gene structure. Proc Natl Acad Sci U S A. 1987;84:8135-9 pubmed
    ..Hybridization analysis suggests that there is a single structural gene for PI and that it is homologous to the gene found in a PIA-bearing strain of gonococcus...
  71. Okagaki T, Weber F, Fischman D, Vaughan K, Mikawa T, Reinach F. The major myosin-binding domain of skeletal muscle MyBP-C (C protein) resides in the COOH-terminal, immunoglobulin C2 motif. J Cell Biol. 1993;123:619-26 pubmed
  72. Yaseen N, Blobel G. Cloning and characterization of human karyopherin beta3. Proc Natl Acad Sci U S A. 1997;94:4451-6 pubmed
    ..Furthermore, it interacted with two ribosomal proteins in an overlay assay. We suggest that karyopherin beta3 is a nuclear transport factor that may mediate the import of some ribosomal proteins into the nucleus. ..
  73. Celis R, Leadlay P, Roy I, Hansen A. Phosphorylation of the periplasmic binding protein in two transport systems for arginine incorporation in Escherichia coli K-12 is unrelated to the function of the transport system. J Bacteriol. 1998;180:4828-33 pubmed
    ..coli K-12, the phosphorylation of the periplasmic binding protein is not related to the function of the transport system. ..
  74. Silver R, Prior K, Nsahlai C, Wright L. ABC transporters and the export of capsular polysaccharides from gram-negative bacteria. Res Microbiol. 2001;152:357-64 pubmed
    ..Components of the cluster form a multimeric protein complex consisting of both biosynthetic and export machinery. We compare the Kps exporter with capsule export systems from other members of the CPSE family...
  75. Liu Z, Deshazer H, Rice A, Chen K, Zhou C, Kallenbach N. Multivalent antimicrobial peptides from a reactive polymer scaffold. J Med Chem. 2006;49:3436-9 pubmed
    ..Thus, multivalency or polyvalency may offer a route to enhance the activity of antimicrobial peptides...
  76. Mancia F, Brenner Morton S, Siegel R, Assur Z, Sun Y, Schieren I, et al. Production and characterization of monoclonal antibodies sensitive to conformation in the 5HT2c serotonin receptor. Proc Natl Acad Sci U S A. 2007;104:4303-8 pubmed
    ..Five of the nine mAbs have cytoplasmic epitopes, and two of these are sensitive to the ligand state of the receptor. These properties should be useful both for structural analysis and in probes of function. ..
  77. Brady S, Bauer J, Clarke Pearson M, Daniels R. Natural products from isnA-containing biosynthetic gene clusters recovered from the genomes of cultured and uncultured bacteria. J Am Chem Soc. 2007;129:12102-3 pubmed
  78. Hekstra D, Leibler S. Contingency and statistical laws in replicate microbial closed ecosystems. Cell. 2012;149:1164-73 pubmed publisher
    ..These fluctuations follow simple power laws consistent with a geometric random walk. Thus, variability in ecological dynamics can be studied with CES replicates and described by simple statistical laws. ..
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