Experts and Doctors on bacterial proteins in Ithaca, New York, United States


Locale: Ithaca, New York, United States
Topic: bacterial proteins

Top Publications

  1. Barril J, Kim S, Batt C. Cloning and sequencing of the Lactococcus lactis subsp. lactis dnaK gene using a PCR-based approach. Gene. 1994;142:91-6 pubmed
    ..Alignment of the deduced aa sequence with those of other bacterial DnaK showed a high degree of homology and is most similar to the Bacillus megaterium DnaK. ..
  2. Charkowski A, Huang H, Collmer A. Altered localization of HrpZ in Pseudomonas syringae pv. syringae hrp mutants suggests that different components of the type III secretion pathway control protein translocation across the inner and outer membranes of gram-negative bacteria. J Bacteriol. 1997;179:3866-74 pubmed
  3. Wang C, Xi J, Begley T, Nicholson L. Solution structure of ThiS and implications for the evolutionary roots of ubiquitin. Nat Struct Biol. 2001;8:47-51 pubmed
    ..Comparison with surface features of ubiquitin and ubiquitin homologs SUMO-1, RUB-1 and NEDD8 suggest how Nature has utilized this single fold to incorporate similar chemistry into a broad array of highly specific biological processes. ..
  4. Helmann J. The extracytoplasmic function (ECF) sigma factors. Adv Microb Physiol. 2002;46:47-110 pubmed
  5. Park W, Jeon C, Madsen E. Interaction of NahR, a LysR-type transcriptional regulator, with the alpha subunit of RNA polymerase in the naphthalene degrading bacterium, Pseudomonas putida NCIB 9816-4. FEMS Microbiol Lett. 2002;213:159-65 pubmed
    ..Gene activation by NahR is consistent with the general transcriptional mechanism of class I transcription factors, which function by contacting alphaRNAP...
  6. Choi P, Grigoryants V, Abruña H, Scholes C, Shapleigh J. Regulation and function of cytochrome c' in Rhodobacter sphaeroides 2.4.3. J Bacteriol. 2005;187:4077-85 pubmed
    ..Taken together, these results suggest a model where Cyt c' in R. sphaeroides 2.4.3 may shuttle NO to the membrane, where it can be reduced. ..
  7. Roberts A, Chan Y, Wiedmann M. Definition of genetically distinct attenuation mechanisms in naturally virulence-attenuated Listeria monocytogenes by comparative cell culture and molecular characterization. Appl Environ Microbiol. 2005;71:3900-10 pubmed
    ..monocytogenes. ..
  8. Park S, Borbat P, Gonzalez Bonet G, Bhatnagar J, Pollard A, Freed J, et al. Reconstruction of the chemotaxis receptor-kinase assembly. Nat Struct Mol Biol. 2006;13:400-7 pubmed publisher
    ..Linking layers of ternary complexes with close-packed receptors generates a lattice with reasonable component ratios, cooperative interactions among receptors and accessible sites for modification enzymes...
  9. Garner M, James K, Callahan M, Wiedmann M, Boor K. Exposure to salt and organic acids increases the ability of Listeria monocytogenes to invade Caco-2 cells but decreases its ability to survive gastric stress. Appl Environ Microbiol. 2006;72:5384-95 pubmed
    ..These findings suggest that virulence-associated characteristics that determine the L. monocytogenes infectious dose are likely to be affected by food-specific properties (e.g., pH or the presence of salt or organic acid). ..

More Information

Publications196 found, 100 shown here

  1. Rahm B, Morris R, Richardson R. Temporal expression of respiratory genes in an enrichment culture containing Dehalococcoides ethenogenes. Appl Environ Microbiol. 2006;72:5486-91 pubmed
  2. den Bakker H, Bundrant B, Fortes E, Orsi R, Wiedmann M. A population genetics-based and phylogenetic approach to understanding the evolution of virulence in the genus Listeria. Appl Environ Microbiol. 2010;76:6085-100 pubmed publisher
    ..Overall, our data suggest that, for some pathogens, loss of virulence genes may represent a selective advantage, possibly by facilitating adaptation to a specific ecological niche. ..
  3. Tsai C, Chen C, Winans S. Most mutant OccR proteins that are defective in positive control hold operator DNA in a locked high-angle bend. J Bacteriol. 2011;193:5442-9 pubmed publisher
    ..One mutant, the L26A mutant, showed ligand-responsive DNA binding similar to that of wild-type OccR and therefore must be impaired in a subsequent step in activation. ..
  4. Sauders B, Overdevest J, Fortes E, Windham K, Schukken Y, Lembo A, et al. Diversity of Listeria species in urban and natural environments. Appl Environ Microbiol. 2012;78:4420-33 pubmed publisher
    ..monocytogenes. ..
  5. Hung C, Garner C, Slauch J, Dwyer Z, Lawhon S, Frye J, et al. The intestinal fatty acid propionate inhibits Salmonella invasion through the post-translational control of HilD. Mol Microbiol. 2013;87:1045-60 pubmed publisher
    ..These results suggest a mechanism of control of Salmonella virulence in which HilD is post-translationally modified using the high-energy intermediate propionyl-CoA. ..
  6. Lee W, VanderVen B, Fahey R, Russell D. Intracellular Mycobacterium tuberculosis exploits host-derived fatty acids to limit metabolic stress. J Biol Chem. 2013;288:6788-800 pubmed publisher
    ..The metabolism of these host lipids expands the acetyl-CoA pool and alleviates the pressure from propionyl-CoA. These data have major implications for our appreciation of central metabolism of Mtb during the course of infection. ..
  7. Sikowitz M, Cooper L, Begley T, Kaminski P, Ealick S. Reversal of the substrate specificity of CMP N-glycosidase to dCMP. Biochemistry. 2013;52:4037-47 pubmed publisher
    ..Further studies show that the phenylalanine is critical for the specificity of MilB and BcmB toward CMP, and mutation of this phenylalanine residue to tyrosine results in a 1000-fold reversal of substrate specificity from CMP to dCMP. ..
  8. Fenwick M, Almabruk K, Ealick S, Begley T, Philmus B. Biochemical Characterization and Structural Basis of Reactivity and Regioselectivity Differences between Burkholderia thailandensis and Burkholderia glumae 1,6-Didesmethyltoxoflavin N-Methyltransferase. Biochemistry. 2017;56:3934-3944 pubmed publisher
    ..Furthermore, in BthII1283, N1 is hydrogen bonded to a histidine residue whereas BgToxA does not supply an obvious basic residue for either N6 or N1 methylation...
  9. Rabin R, Stewart V. Either of two functionally redundant sensor proteins, NarX and NarQ, is sufficient for nitrate regulation in Escherichia coli K-12. Proc Natl Acad Sci U S A. 1992;89:8419-23 pubmed
    ..Analysis of narX* and narL missense alleles in narQ+ versus narQ::Tn10 backgrounds suggests that NarQ and NarX may have subtle functional differences. ..
  10. Li J, Stewart V. Localization of upstream sequence elements required for nitrate and anaerobic induction of fdn (formate dehydrogenase-N) operon expression in Escherichia coli K-12. J Bacteriol. 1992;174:4935-42 pubmed
    ..The other putative FNR protein binding site, centered at -97.5, was not involved in anaerobic induction. It might play a negative role in fdn operon expression during anaerobic growth in the absence of nitrate. ..
  11. Park J, Marr M, Roberts J. E. coli Transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation. Cell. 2002;109:757-67 pubmed
    ..Mfd may act through a translocase activity that rewinds upstream DNA, leading either to translocation or to release of RNA polymerase when the enzyme active site cannot continue elongation. ..
  12. Alani E, Lee J, Schofield M, Kijas A, Hsieh P, Yang W. Crystal structure and biochemical analysis of the MutS.ADP.beryllium fluoride complex suggests a conserved mechanism for ATP interactions in mismatch repair. J Biol Chem. 2003;278:16088-94 pubmed publisher
  13. Baek S, Shapleigh J. Expression of nitrite and nitric oxide reductases in free-living and plant-associated Agrobacterium tumefaciens C58 cells. Appl Environ Microbiol. 2005;71:4427-36 pubmed publisher
  14. Seon Park J, Russell J, Wilson D. Characterization of a family 45 glycosyl hydrolase from Fibrobacter succinogenes S85. Anaerobe. 2007;13:83-8 pubmed
    ..succinogenes has a novel mechanism of cellulose degradation...
  15. Salzberg L, Helmann J. An antibiotic-inducible cell wall-associated protein that protects Bacillus subtilis from autolysis. J Bacteriol. 2007;189:4671-80 pubmed publisher
    ..subtilis. These results support a model in which induction of YoeB in response to cell envelope stress decreases the activity of autolysins and thereby reduces the rate of antibiotic-dependent cell death...
  16. Gabriel S, Helmann J. Contributions of Zur-controlled ribosomal proteins to growth under zinc starvation conditions. J Bacteriol. 2009;191:6116-22 pubmed publisher
    ..These results support a direct and physiologically relevant role for YtiA in mobilizing zinc from ribosomes...
  17. Celik E, Fisher A, Guarino C, Mansell T, DeLisa M. A filamentous phage display system for N-linked glycoproteins. Protein Sci. 2010;19:2006-13 pubmed publisher
    ..coli cells. ..
  18. Janvilisri T, Scaria J, Teng C, McDonough S, Gleed R, Fubini S, et al. Temporal differential proteomes of Clostridium difficile in the pig ileal-ligated loop model. PLoS ONE. 2012;7:e45608 pubmed publisher
    ..difficile that demonstrates time-dependent protein expression changes under conditions that mimic in vivo infection and identifies potential candidates for diagnostic or therapeutic measures. ..
  19. Airola M, Sukomon N, Samanta D, Borbat P, Freed J, Watts K, et al. HAMP domain conformers that propagate opposite signals in bacterial chemoreceptors. PLoS Biol. 2013;11:e1001479 pubmed publisher
    ..Moreover, we have developed a rational means to manipulate HAMP structure and function that may prove useful in the engineering of bacterial taxis responses. ..
  20. Calvo J, Matthews R. The leucine-responsive regulatory protein, a global regulator of metabolism in Escherichia coli. Microbiol Rev. 1994;58:466-90 pubmed
  21. Fredrick K, Helmann J. Dual chemotaxis signaling pathways in Bacillus subtilis: a sigma D-dependent gene encodes a novel protein with both CheW and CheY homologous domains. J Bacteriol. 1994;176:2727-35 pubmed
    ..W. Hanlon, L. Márques-Magaña, P. B. Carpenter, M. J. Chamberlin, and G. W. Ordal, J. Biol. Chem. 267:12055-12060, 1992). ..
  22. Zhang S, Wilson D, Ganem B. Probing the catalytic mechanism of prephenate dehydratase by site-directed mutagenesis of the Escherichia coli P-protein dehydratase domain. Biochemistry. 2000;39:4722-8 pubmed
    ..2- and 3.5-fold, respectively), which was due to enhanced substrate binding. For the double mutant enzyme (E159A-E232A), k(cat)/K(m) was ca. 7-fold higher than for the WT enzyme, while its K(m) was 4.6-fold lower. ..
  23. Li X, Fleetwood A, Bayas C, Bilwes A, Ortega D, Falke J, et al. The 3.2 Å resolution structure of a receptor: CheA:CheW signaling complex defines overlapping binding sites and key residue interactions within bacterial chemosensory arrays. Biochemistry. 2013;52:3852-65 pubmed publisher
  24. Pohlman R, Genetti H, Winans S. Common ancestry between IncN conjugal transfer genes and macromolecular export systems of plant and animal pathogens. Mol Microbiol. 1994;14:655-68 pubmed
  25. Morello J, Collmer A. Pseudomonas syringae HrpP Is a type III secretion substrate specificity switch domain protein that is translocated into plant cells but functions atypically for a substrate-switching protein. J Bacteriol. 2009;191:3120-31 pubmed publisher
    ..HrpP may function somewhat differently than YscP because the P. syringae T3SS pilus likely varies in length due to differing plant cell walls...
  26. Porter A, Campbell B, Kolvenbach B, Corvini P, Benndorf D, Rivera Cancel G, et al. Identification of the flavin monooxygenase responsible for ipso substitution of alkyl and alkoxyphenols in Sphingomonas sp. TTNP3 and Sphingobium xenophagum Bayram. Appl Microbiol Biotechnol. 2012;94:261-72 pubmed publisher
  27. Williams S, Stewart V. Nitrate- and nitrite-sensing protein NarX of Escherichia coli K-12: mutational analysis of the amino-terminal tail and first transmembrane segment. J Bacteriol. 1997;179:721-9 pubmed
    ..We conclude that the amino terminus of the NarX protein is important for the differential response to nitrate and nitrite. ..
  28. Toba F, Thompson M, Campbell B, Junker L, Rueggeberg K, Hay A. Role of DLP12 lysis genes in Escherichia coli biofilm formation. Microbiology. 2011;157:1640-50 pubmed publisher
    ..These observations provide evidence that the S, R and Rz/Rz(1) gene homologues encoded by DLP12 are not merely genetic junk, but rather play an important, though undefined, role in cell wall maintenance. ..
  29. Forster B, Zemansky J, Portnoy D, MARQUIS H. Posttranslocation chaperone PrsA2 regulates the maturation and secretion of Listeria monocytogenes proprotein virulence factors. J Bacteriol. 2011;193:5961-70 pubmed publisher
    ..Moreover, the ability of these proproteins to respond to a decrease in pH during intracellular growth depends on their localization at the membrane-cell wall interface. ..
  30. Cilia M, Tamborindeguy C, Fish T, Howe K, Thannhauser T, Gray S. Genetics coupled to quantitative intact proteomics links heritable aphid and endosymbiont protein expression to circulative polerovirus transmission. J Virol. 2011;85:2148-66 pubmed publisher
  31. Rzomp K, Moorhead A, Scidmore M. The GTPase Rab4 interacts with Chlamydia trachomatis inclusion membrane protein CT229. Infect Immun. 2006;74:5362-73 pubmed
    ..Taken together, these data suggest that CT229 interacts with and recruits Rab4A to the inclusion membrane and therefore may play a role in regulating the intracellular trafficking or fusogenicity of the chlamydial inclusion. ..
  32. Lee J, Soonsanga S, Helmann J. A complex thiolate switch regulates the Bacillus subtilis organic peroxide sensor OhrR. Proc Natl Acad Sci U S A. 2007;104:8743-8 pubmed
    ..subtilis identifies three distinct S-thiolated species, including mixed disulfides with a novel 398-Da thiol, cysteine, and CoASH. Evidence for in vivo formation of the sulfenamide derivative is also presented. ..
  33. Willins D, Ryan C, Platko J, Calvo J. Characterization of Lrp, and Escherichia coli regulatory protein that mediates a global response to leucine. J Biol Chem. 1991;266:10768-74 pubmed
    ..Lrp has some amino acid sequence similarity to AsnC, a protein that regulates asnA expression (Kolling, R., and Lother, H. (1985) J. Bacteriol. 164, 310-315). ..
  34. Que Q, Helmann J. Manganese homeostasis in Bacillus subtilis is regulated by MntR, a bifunctional regulator related to the diphtheria toxin repressor family of proteins. Mol Microbiol. 2000;35:1454-68 pubmed
    ..Biochemical studies demonstrate that MntR binding to the mntH control region requires Mn(II), while interaction with the mntABCD control region does not depend on Mn(II)...
  35. Glasscock C, Lucks J, DeLisa M. Engineered Protein Machines: Emergent Tools for Synthetic Biology. Cell Chem Biol. 2016;23:45-56 pubmed publisher
    ..In this Review, we highlight the progress made in understanding, engineering, and repurposing bacterial protein machines for use in synthetic biology and biotechnology. ..
  36. Morar M, Hoskins A, Stubbe J, Ealick S. Formylglycinamide ribonucleotide amidotransferase from Thermotoga maritima: structural insights into complex formation. Biochemistry. 2008;47:7816-30 pubmed publisher
    ..The flexibility of the PurS dimer is proposed to play a role in the activation of the complex and the formation of the ammonia channel. A potential path for the ammonia channel is identified...
  37. Bale S, Rajashankar K, Perry K, Begley T, Ealick S. HMP binding protein ThiY and HMP-P synthase THI5 are structural homologues. Biochemistry. 2010;49:8929-36 pubmed publisher
    ..A homology model of Saccharomyces cerevisiae THI5 was generated on the basis of the structure of ThiY. Many features of the thiamin pyrimidine binding site are shared between ThiY and THI5, suggesting a common ancestor. ..
  38. Ma Z, Faulkner M, Helmann J. Origins of specificity and cross-talk in metal ion sensing by Bacillus subtilis Fur. Mol Microbiol. 2012;86:1144-55 pubmed publisher
    ..Since PerR repression of fur is enhanced by Mn(II), and antagonized by Fe(II), PerR may co-regulate Fe(II) homeostasis by modulating BsFur levels in response to the Mn(II)/Fe(II) ratio...
  39. French J, Ealick S. Structural and mechanistic studies on Klebsiella pneumoniae 2-Oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase. J Biol Chem. 2010;285:35446-54 pubmed publisher
    ..Our structural and biochemical studies also provide further insights into the mechanism of catalysis of OHCU decarboxylation. ..
  40. Rinaldi F, Doyle L, Stoddard B, Bogdanove A. The effect of increasing numbers of repeats on TAL effector DNA binding specificity. Nucleic Acids Res. 2017;45:6960-6970 pubmed publisher
    ..This range encompasses the mean and median length of native TALEs, suggesting that these proteins as a group have evolved for maximum specificity...
  41. Mansell T, Linderman S, Fisher A, DeLisa M. A rapid protein folding assay for the bacterial periplasm. Protein Sci. 2010;19:1079-90 pubmed publisher
  42. Nam K, Huang Q, Ke A. Nucleic acid binding surface and dimer interface revealed by CRISPR-associated CasB protein structures. FEBS Lett. 2012;586:3956-61 pubmed publisher
  43. McGann P, Wiedmann M, Boor K. The alternative sigma factor sigma B and the virulence gene regulator PrfA both regulate transcription of Listeria monocytogenes internalins. Appl Environ Microbiol. 2007;73:2919-30 pubmed
    ..Interplay between sigma(B) and PrfA also appears to be critical for regulating transcription of some virulence genes, including inlA, inlB, and prfA. ..
  44. Cao J, Shelton A, Earle E. Sequential transformation to pyramid two Bt genes in vegetable Indian mustard (Brassica juncea L.) and its potential for control of diamondback moth larvae. Plant Cell Rep. 2008;27:479-87 pubmed
  45. Mukherjee T, Hilmey D, Begley T. PLP catabolism: identification of the 2-(Acetamidomethylene)succinate hydrolase gene in Mesorhizobium loti MAFF303099. Biochemistry. 2008;47:6233-41 pubmed publisher
    ..The k cat and K M for this reaction were 0.6 s (-1) and 143 microM, respectively. The enzyme was shown to utilize the E isomer of 2-(acetamidomethylene)succinate. ..
  46. Fisher A, Haitjema C, Guarino C, Celik E, Endicott C, Reading C, et al. Production of secretory and extracellular N-linked glycoproteins in Escherichia coli. Appl Environ Microbiol. 2011;77:871-81 pubmed publisher
    ..coli. Moreover, this simple glycosylation tag strategy expands the glycoengineering toolbox and opens the door to bacterial synthesis of a wide array of recombinant glycoprotein conjugates. ..
  47. Odagaki Y, Hayashi A, Okada K, Hirotsu K, Kabashima T, Ito K, et al. The crystal structure of pyroglutamyl peptidase I from Bacillus amyloliquefaciens reveals a new structure for a cysteine protease. Structure. 1999;7:399-411 pubmed
    ..Thus, PGP-I belongs to a new family of cysteine proteases. ..
  48. Baek S, Rajashekara G, Splitter G, Shapleigh J. Denitrification genes regulate Brucella virulence in mice. J Bacteriol. 2004;186:6025-31 pubmed
    ..neotomae containing nirK, nirV, and nnrA and those infected with wild-type B. neotomae. The wild-type strain killed all the infected mice, whereas most of the mice infected with B. neotomae containing nirK, nirV, and nnrA survived. ..
  49. Lee J, Helmann J. Functional specialization within the Fur family of metalloregulators. Biometals. 2007;20:485-99 pubmed
    ..Despite numerous studies, the mechanism of metal ion sensing by Fur family proteins is still controversial. Other family members use metal catalyzed oxidation reactions to sense peroxide-stress (PerR) or the availability of heme (Irr). ..
  50. Kvitko B, Park D, Vel squez A, Wei C, Russell A, Martin G, et al. Deletions in the repertoire of Pseudomonas syringae pv. tomato DC3000 type III secretion effector genes reveal functional overlap among effectors. PLoS Pathog. 2009;5:e1000388 pubmed publisher
  51. Wilson D. The first evidence that a single cellulase can be essential for cellulose degradation in a cellulolytic microorganism. Mol Microbiol. 2009;74:1287-8 pubmed publisher
    ..It will be interesting to learn the detailed mechanism that C. phytofermentans uses to degrade cellulose. ..
  52. Hsu F, Zhu W, Brennan L, Tao L, Luo Z, Mao Y. Structural basis for substrate recognition by a unique Legionella phosphoinositide phosphatase. Proc Natl Acad Sci U S A. 2012;109:13567-72 pubmed publisher
    ..Thus, our findings unveil a unique Legionella PI phosphatase essential for the establishment of lipid identity of bacterial phagosomes. ..
  53. Rowe A, Mansfeldt C, Heavner G, Richardson R. Methanospirillum respiratory mRNA biomarkers correlate with hydrogenotrophic methanogenesis rate during growth and competition for hydrogen in an organochlorine-respiring mixed culture. Environ Sci Technol. 2013;47:372-81 pubmed publisher
    ..However, the differences in overall biomarker abundances suggest that the strength of any particular mRNA biomarker relies upon empirically established quantitative trends under a range of pertinent conditions...
  54. Fisher A, DeLisa M. A little help from my friends: quality control of presecretory proteins in bacteria. J Bacteriol. 2004;186:7467-73 pubmed
  55. Perez K, Yeam I, Jahn M, Kang B. Megaprimer-mediated domain swapping for construction of chimeric viruses. J Virol Methods. 2006;135:254-62 pubmed
    ..This approach will provide a valuable tool for determining which domains of a viral genome are essential for infectivity, avirulence, or otherwise determine biologically significant properties of plant viruses. ..
  56. McCulloch K, Mukherjee T, Begley T, Ealick S. Structure determination and characterization of the vitamin B6 degradative enzyme (E)-2-(acetamidomethylene)succinate hydrolase. Biochemistry. 2010;49:1226-35 pubmed publisher
    ..The structure also provides insight into the mechanism of hydrolysis of E-2AMS and identifies several potential catalytically important residues. ..
  57. Conrad K, Bilwes A, Crane B. Light-induced subunit dissociation by a light-oxygen-voltage domain photoreceptor from Rhodobacter sphaeroides. Biochemistry. 2013;52:378-91 pubmed publisher
    ..This light-induced switch in oligomeric state may prove to be useful for engineering molecular associations in controlled cellular settings. ..
  58. Airola M, Huh D, Sukomon N, Widom J, Sircar R, Borbat P, et al. Architecture of the soluble receptor Aer2 indicates an in-line mechanism for PAS and HAMP domain signaling. J Mol Biol. 2013;425:886-901 pubmed publisher
    ..We propose an in-line model for Aer2 signaling, where ligand binding induces alterations in PAS domain structure and subunit association that is relayed through the poly-HAMP junction to downstream domains. ..
  59. Wang Q, Wu J, Friedberg D, Plakto J, Calvo J. Regulation of the Escherichia coli lrp gene. J Bacteriol. 1994;176:1831-9 pubmed
    ..These results demonstrate that autogenous regulation of lrp involves Lrp acting directly to cause repression of lrp transcription. ..
  60. Rojas C, Ham J, Deng W, Doyle J, Collmer A. HecA, a member of a class of adhesins produced by diverse pathogenic bacteria, contributes to the attachment, aggregation, epidermal cell killing, and virulence phenotypes of Erwinia chrysanthemi EC16 on Nicotiana clevelandii seedlings. Proc Natl Acad Sci U S A. 2002;99:13142-7 pubmed
    ..Our data suggest that filamentous hemagglutinin-like adhesins are broadly important virulence factors in both plant and animal pathogens. ..
  61. Ołdziej S, Czaplewski C, Liwo A, Chinchio M, Nanias M, Vila J, et al. Physics-based protein-structure prediction using a hierarchical protocol based on the UNRES force field: assessment in two blind tests. Proc Natl Acad Sci U S A. 2005;102:7547-52 pubmed
    ..These and other examples described in this work demonstrate significant progress in physics-based protein-structure prediction. ..
  62. Ramos A, Morello J, Ravindran S, Deng W, Huang H, Collmer A. Identification of Pseudomonas syringae pv. syringae 61 type III secretion system Hrp proteins that can travel the type III pathway and contribute to the translocation of effector proteins into plant cells. J Bacteriol. 2007;189:5773-8 pubmed publisher
    ..T3SS components HrpB, HrpD, HrpF, and HrpP were shown to be pathway substrates and to contribute to elicitation of the plant hypersensitive response and to translocation and secretion of the model effector AvrPto1...
  63. Grodio J, Dhondt K, O Connell P, Schat K. Detection and quantification of Mycoplasma gallisepticum genome load in conjunctival samples of experimentally infected house finches (Carpodacus mexicanus) using real-time polymerase chain reaction. Avian Pathol. 2008;37:385-91 pubmed publisher
    ..gallisepticum and the bird that did not develop conjunctivitis had very low numbers of M. gallisepticum. Thus, it appears that development of conjunctivitis may correlate with M. gallisepticum load...
  64. Cai S, Kabuki D, Kuaye A, Cargioli T, Chung M, Nielsen R, et al. Rational design of DNA sequence-based strategies for subtyping Listeria monocytogenes. J Clin Microbiol. 2002;40:3319-25 pubmed
    ..Our specific results also show that inclusion of virulence gene target sequences in a DNA sequence-based subtyping scheme for L. monocytogenes is necessary to achieve maximum subtype differentiation. ..
  65. Thomas S, Russell J. The effect of cellobiose, glucose, and cellulose on the survival of Fibrobacter succinogenes A3C cultures grown under ammonia limitation. Curr Microbiol. 2004;48:219-23 pubmed
    ..From these results, it appears that excess soluble carbohydrates can promote the death of F. succinogenes, but cellulose does not...
  66. Zein F, Zhang Y, Kang Y, Burns K, Begley T, Ealick S. Structural insights into the mechanism of the PLP synthase holoenzyme from Thermotoga maritima. Biochemistry. 2006;45:14609-20 pubmed publisher
    ..This channel is similar to one found in imidazole glycerol phosphate synthase; however, when the beta-barrels of the two complexes are superimposed, the glutaminase domains are rotated by about 180 degrees with respect to each other...
  67. Fenwick M, Philmus B, Begley T, Ealick S. Toxoflavin lyase requires a novel 1-His-2-carboxylate facial triad. Biochemistry. 2011;50:1091-100 pubmed publisher
    ..This anionic species is predicted to be the electron source responsible for reductive activation of oxygen to produce a peroxytoxoflavin intermediate. ..
  68. Tan S, Sukumar N, Abramovitch R, Parish T, Russell D. Mycobacterium tuberculosis responds to chloride and pH as synergistic cues to the immune status of its host cell. PLoS Pathog. 2013;9:e1003282 pubmed publisher
    ..Our study establishes Cl? and pH as linked environmental cues for Mtb, and illustrates the utility of reporter bacterial strains for the study of Mtb-host interactions in vivo. ..
  69. Toulabi L, Wu X, Cheng Y, Mao Y. Identification and structural characterization of a Legionella phosphoinositide phosphatase. J Biol Chem. 2013;288:24518-27 pubmed publisher
    ..Together, our identification of a unique family of Legionella PI phosphatases highlights a common scheme of exploiting host PI lipids in many intracellular bacterial pathogen infections. ..
  70. Xiao Y, Luo M, Hayes R, Kim J, Ng S, Ding F, et al. Structure Basis for Directional R-loop Formation and Substrate Handover Mechanisms in Type I CRISPR-Cas System. Cell. 2017;170:48-60.e11 pubmed publisher
    ..The combination of both negative and positive checkpoints ensures stringent yet efficient target degradation in type I CRISPR-Cas systems. ..
  71. Marr M, Roberts J. Function of transcription cleavage factors GreA and GreB at a regulatory pause site. Mol Cell. 2000;6:1275-85 pubmed
    ..Furthermore, GreA and GreB are required to mediate efficient function of the lambda gene Q antiterminator at this site. Thus, cleavage factors are necessary for the natural progression of RNA polymerase in vivo. ..
  72. Cao M, Bernat B, Wang Z, Armstrong R, Helmann J. FosB, a cysteine-dependent fosfomycin resistance protein under the control of sigma(W), an extracytoplasmic-function sigma factor in Bacillus subtilis. J Bacteriol. 2001;183:2380-3 pubmed
    ..FosB is a metallothiol transferase related to the FosA class of Mn(2+)-dependent glutathione transferases but with a preference for Mg(2+) and L-cysteine as cofactors. ..
  73. Pappas K, Winans S. The RepA and RepB autorepressors and TraR play opposing roles in the regulation of a Ti plasmid repABC operon. Mol Microbiol. 2003;49:441-55 pubmed
    ..These findings demonstrate that both autoinduction and autorepression play critical and opposing roles in regulating repABC expression and hence in the replication, stability and copy number of the Ti plasmid. ..
  74. Eiamphungporn W, Soonsanga S, Lee J, Helmann J. Oxidation of a single active site suffices for the functional inactivation of the dimeric Bacillus subtilis OhrR repressor in vitro. Nucleic Acids Res. 2009;37:1174-81 pubmed publisher
  75. Chen C, Wang L, Winans S. Characterization of the supervirulent virG gene of the Agrobacterium tumefaciens plasmid pTiBo542. Mol Gen Genet. 1991;230:302-9 pubmed
  76. Lyi S, Jafri S, Winans S. Mannopinic acid and agropinic acid catabolism region of the octopine-type Ti plasmid pTi15955. Mol Microbiol. 1999;31:339-47 pubmed
    ..The remaining operon encoded the MoaR protein, a negative regulator of itself and of the other three operons...
  77. Lehmann C, Begley T, Ealick S. Structure of the Escherichia coli ThiS-ThiF complex, a key component of the sulfur transfer system in thiamin biosynthesis. Biochemistry. 2006;45:11-9 pubmed
    ..The ThiF-ThiS structure clarifies the mechanism of the sulfur transfer chemistry involved in thiazole biosynthesis. ..
  78. Lin Y, McDonough S, Sharma Y, Chang Y. The terminal immunoglobulin-like repeats of LigA and LigB of Leptospira enhance their binding to gelatin binding domain of fibronectin and host cells. PLoS ONE. 2010;5:e11301 pubmed publisher
    ..This is the first report about the interaction of gelatin binding domain of Fn and Lig proteins and provides an example of Lig-gelatin binding domain binding mediating bacterial-host interaction. ..
  79. Gaballa A, Helmann J. Bacillus subtilis Fur represses one of two paralogous haem-degrading monooxygenases. Microbiology. 2011;157:3221-31 pubmed publisher
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