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PMID: 12618438 Published · ppublish English Journal Article Review

Domain architectures of sigma54-dependent transcriptional activators.

Journal of bacteriology ·Vol. 185 ·No. 6 ·2003-03-00 ·Pages 1757-67

Studholme DJ, Dixon R

Abstract

暂无摘要

MeSH Terms
Bacteria/classification,genetics,metabolism Bacterial Proteins/chemistry,genetics,metabolism DNA-Binding Proteins DNA-Directed RNA Polymerases/metabolism Enhancer Elements, Genetic/genetics,physiology Gene Expression Regulation, Bacterial Phylogeny RNA Polymerase Sigma 54 Sigma Factor/metabolism Signal Transduction Trans-Activators/chemistry,genetics,metabolism Transcription, Genetic
Chemicals
Bacterial Proteins DNA-Binding Proteins Sigma Factor Trans-Activators DNA-Directed RNA Polymerases RNA Polymerase Sigma 54
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Studholme David J
Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, United Kingdom. [email protected]
Dixon Ray
References (72)
72 references, click to expand
  1. Ligand-induced self-association of the Escherichia coli regulatory protein TyrR.
    J Mol Biol. 1994 May 6;238(3):309-18 PMID: 8176727
  2. In a class of its own--the RNA polymerase sigma factor sigma 54 (sigma N).
    Mol Microbiol. 1993 Dec;10(5):903-9 PMID: 7934866
  3. The bacterial phosphotransferase system: new frontiers 30 years later.
    Mol Microbiol. 1994 Sep;13(5):755-64 PMID: 7815935
  4. Effector-mediated stimulation of ATPase activity by the sigma 54-dependent transcriptional activator FHLA from Escherichia coli.
    J Bacteriol. 1995 May;177(10):2798-803 PMID: 7751289
  5. PhhR, a divergently transcribed activator of the phenylalanine hydroxylase gene cluster of Pseudomonas aeruginosa.
    Mol Microbiol. 1996 Nov;22(3):497-507 PMID: 8939433
  6. The structure of a domain common to archaebacteria and the homocystinuria disease protein.
    Trends Biochem Sci. 1997 Jan;22(1):12-3 PMID: 9020585
  7. Modular multidomain phosphoryl transfer proteins of bacteria.
    Curr Opin Struct Biol. 1997 Jun;7(3):407-15 PMID: 9204284
  8. The flgE gene of Campylobacter coli is under the control of the alternative sigma factor sigma54.
    J Bacteriol. 1997 Aug;179(15):4647-53 PMID: 9244248
  9. The complete phosphotransferase system in Escherichia coli.
    J Mol Microbiol Biotechnol. 2001 Jul;3(3):329-46 PMID: 11361063
  10. Metabolic context and possible physiological themes of sigma(54)-dependent genes in Escherichia coli.
    Microbiol Mol Biol Rev. 2001 Sep;65(3):422-44, table of contents PMID: 11528004
  11. Genome sequence of Yersinia pestis, the causative agent of plague.
    Nature. 2001 Oct 4;413(6855):523-7 PMID: 11586360
  12. Expression of Borrelia burgdorferi OspC and DbpA is controlled by a RpoN-RpoS regulatory pathway.
    Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12724-9 PMID: 11675503
  13. A sigma(54)-dependent PTS permease of the mannose family is responsible for sensitivity of Listeria monocytogenes to mesentericin Y105.
    Microbiology. 2001 Dec;147(Pt 12):3263-9 PMID: 11739758
  14. Structural insights into the regulation of bacterial signalling proteins containing PRDs.
    Curr Opin Struct Biol. 2001 Dec;11(6):685-93 PMID: 11751049
  15. The Pfam protein families database.
    Nucleic Acids Res. 2002 Jan 1;30(1):276-80 PMID: 11752314
  16. AAA-ATPase p97/Cdc48p, a cytosolic chaperone required for endoplasmic reticulum-associated protein degradation.
    Mol Cell Biol. 2002 Jan;22(2):626-34 PMID: 11756557
  17. Role of GlnK in NifL-mediated regulation of NifA activity in Azotobacter vinelandii.
    J Bacteriol. 2002 Feb;184(3):812-20 PMID: 11790752
  18. Allelic exchange mutagenesis of rpoN encoding RNA-polymerase sigma54 subunit in Helicobacter pylori.
    J Infect Chemother. 2001 Sep;7(3):148-55 PMID: 11810576
  19. The complete genome sequence of the gastric pathogen Helicobacter pylori.
    Nature. 1997 Aug 7;388(6642):539-47 PMID: 9252185
  20. The complete genome sequence of Escherichia coli K-12.
    Science. 1997 Sep 5;277(5331):1453-62 PMID: 9278503
  21. PAS domain S-boxes in Archaea, Bacteria and sensors for oxygen and redox.
    Trends Biochem Sci. 1997 Sep;22(9):331-3 PMID: 9301332
  22. A conserved region in the sigma54-dependent activator DctD is involved in both binding to RNA polymerase and coupling ATP hydrolysis to activation.
    Mol Microbiol. 1997 Oct;26(2):373-86 PMID: 9383161
  23. PAS: a multifunctional domain family comes to light.
    Curr Biol. 1997 Nov 1;7(11):R674-7 PMID: 9382818
  24. The GAF domain: an evolutionary link between diverse phototransducing proteins.
    Trends Biochem Sci. 1997 Dec;22(12):458-9 PMID: 9433123
  25. In vivo studies on the positive control function of NifA: a conserved hydrophobic amino acid patch at the central domain involved in transcriptional activation.
    Mol Microbiol. 1998 Apr;28(1):55-67 PMID: 9593296
  26. Antagonistic effects of dual PTS-catalysed phosphorylation on the Bacillus subtilis transcriptional activator LevR.
    Mol Microbiol. 1998 Apr;28(2):293-303 PMID: 9622354
  27. A bacterial ATP-dependent, enhancer binding protein that activates the housekeeping RNA polymerase.
    Genes Dev. 1998 Jun 15;12(12):1884-93 PMID: 9637689
  28. Motility of Helicobacter pylori is coordinately regulated by the transcriptional activator FlgR, an NtrC homolog.
    J Bacteriol. 1999 Jan;181(2):593-9 PMID: 9882675
  29. Control of Herbaspirillum seropedicae NifA activity by ammonium ions and oxygen.
    J Bacteriol. 1999 Jan;181(2):681-4 PMID: 9882688
  30. Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori.
    Nature. 1999 Jan 14;397(6715):176-80 PMID: 9923682
  31. AAA+: A class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes.
    Genome Res. 1999 Jan;9(1):27-43 PMID: 9927482
  32. Identification of D-proline reductase from Clostridium sticklandii as a selenoenzyme and indications for a catalytically active pyruvoyl group derived from a cysteine residue by cleavage of a proprotein.
    J Biol Chem. 1999 Mar 26;274(13):8445-54 PMID: 10085076
  33. Role of bkdR, a transcriptional activator of the sigL-dependent isoleucine and valine degradation pathway in Bacillus subtilis.
    J Bacteriol. 1999 Apr;181(7):2059-66 PMID: 10094682
  34. Comparative genomes of Chlamydia pneumoniae and C. trachomatis.
    Nat Genet. 1999 Apr;21(4):385-9 PMID: 10192388
  35. Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches.
    J Mol Biol. 1999 Apr 16;287(5):1023-40 PMID: 10222208
  36. PAS domains: internal sensors of oxygen, redox potential, and light.
    Microbiol Mol Biol Rev. 1999 Jun;63(2):479-506 PMID: 10357859
  37. Solution structure of the DNA-binding domain of NtrC with three alanine substitutions.
    J Mol Biol. 1999 Oct 8;292(5):1095-110 PMID: 10512705
  38. Identification and mapping of sigma-54 promoters in Chlamydia trachomatis.
    J Bacteriol. 2000 Nov;182(21):6239-42 PMID: 11029448
  39. The bacterial enhancer-binding protein NtrC as a molecular machine.
    Cold Spring Harb Symp Quant Biol. 1998;63:157-66 PMID: 10384279
  40. Compilation and analysis of sigma(54)-dependent promoter sequences.
    Nucleic Acids Res. 1999 Nov 15;27(22):4305-13 PMID: 10536136
  41. Functionality of purified sigma(N) (sigma(54)) and a NifA-like protein from the hyperthermophile Aquifex aeolicus.
    J Bacteriol. 2000 Mar;182(6):1616-23 PMID: 10692367
  42. Two-component and phosphorelay signal transduction.
    Curr Opin Microbiol. 2000 Apr;3(2):165-70 PMID: 10745001
  43. The biology of enhancer-dependent transcriptional regulation in bacteria: insights from genome sequences.
    FEMS Microbiol Lett. 2000 May 1;186(1):1-9 PMID: 10779705
  44. The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor.
    J Bacteriol. 2000 Aug;182(15):4129-36 PMID: 10894718
  45. Two-component signal transduction.
    Annu Rev Biochem. 2000;69:183-215 PMID: 10966457
  46. Structure of the GAF domain, a ubiquitous signaling motif and a new class of cyclic GMP receptor.
    EMBO J. 2000 Oct 16;19(20):5288-99 PMID: 11032796
  47. Signal transduction to the Azotobacter vinelandii NIFL-NIFA regulatory system is influenced directly by interaction with 2-oxoglutarate and the PII regulatory protein.
    EMBO J. 2000 Nov 15;19(22):6041-50 PMID: 11080151
  48. Concerted inhibition of the transcriptional activation functions of the enhancer-binding protein NIFA by the anti-activator NIFL.
    Mol Microbiol. 2001 Jan;39(2):480-93 PMID: 11136467
  49. The psp locus of Yersinia enterocolitica is required for virulence and for growth in vitro when the Ysc type III secretion system is produced.
    Mol Microbiol. 2001 Jan;39(2):429-44 PMID: 11136463
  50. Protein-protein interactions in the complex between the enhancer binding protein NIFA and the sensor NIFL from Azotobacter vinelandii.
    J Bacteriol. 2001 Feb;183(4):1359-68 PMID: 11157949
  51. Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12.
    DNA Res. 2001 Feb 28;8(1):11-22 PMID: 11258796
  52. Transcriptional regulation at a distance in bacteria.
    Curr Opin Microbiol. 2001 Apr;4(2):138-44 PMID: 11282468
  53. Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains.
    J Mol Biol. 2001 Apr 13;307(5):1271-92 PMID: 11292341
  54. Role of Escherichia coli nitrogen regulatory genes in the nitrogen response of the Azotobacter vinelandii NifL-NifA complex.
    J Bacteriol. 2001 May;183(10):3076-82 PMID: 11325935
  55. Flavorubredoxin, an inducible catalyst for nitric oxide reduction and detoxification in Escherichia coli.
    J Biol Chem. 2002 Mar 8;277(10):8172-7 PMID: 11751865
  56. Genome sequence and analysis of the oral bacterium Fusobacterium nucleatum strain ATCC 25586.
    J Bacteriol. 2002 Apr;184(7):2005-18 PMID: 11889109
  57. Deciphering the action of aromatic effectors on the prokaryotic enhancer-binding protein XylR: a structural model of its N-terminal domain.
    Environ Microbiol. 2002 Jan;4(1):29-41 PMID: 11966823
  58. Direct interaction of the NifL regulatory protein with the GlnK signal transducer enables the Azotobacter vinelandii NifL-NifA regulatory system to respond to conditions replete for nitrogen.
    J Biol Chem. 2002 May 3;277(18):15472-81 PMID: 11856746
  59. The central domain of Escherichia coli TyrR is responsible for hexamerization associated with tyrosine-mediated repression of gene expression.
    J Biol Chem. 2002 Jun 28;277(26):23186-92 PMID: 11923293
  60. Mechanism of action of the Escherichia coli phage shock protein PspA in repression of the AAA family transcription factor PspF.
    J Mol Biol. 2002 Jun 28;320(1):23-37 PMID: 12079332
  61. Enhancer-dependent transcription in Salmonella enterica Typhimurium: new members of the sigmaN regulon inferred from protein sequence homology and predicted promoter sites.
    J Mol Microbiol Biotechnol. 2002 Jul;4(4):367-74 PMID: 12125817
  62. Genome sequence of Yersinia pestis KIM.
    J Bacteriol. 2002 Aug;184(16):4601-11 PMID: 12142430
  63. The NorR protein of Escherichia coli activates expression of the flavorubredoxin gene norV in response to reactive nitrogen species.
    J Bacteriol. 2002 Aug;184(16):4640-3 PMID: 12142437
  64. Mechanochemical ATPases and transcriptional activation.
    Mol Microbiol. 2002 Aug;45(4):895-903 PMID: 12180911
  65. FleQ, the major flagellar gene regulator in Pseudomonas aeruginosa, binds to enhancer sites located either upstream or atypically downstream of the RpoN binding site.
    J Bacteriol. 2002 Oct;184(19):5251-60 PMID: 12218010
  66. Secondary structure and DNA binding by the C-terminal domain of the transcriptional activator NifA from Klebsiella pneumoniae.
    Nucleic Acids Res. 2002 Sep 15;30(18):3972-80 PMID: 12235381
  67. Genome sequence of Shigella flexneri 2a: insights into pathogenicity through comparison with genomes of Escherichia coli K12 and O157.
    Nucleic Acids Res. 2002 Oct 15;30(20):4432-41 PMID: 12384590
  68. Genetic regulation of the glyoxylate shunt in Escherichia coli K-12.
    J Bacteriol. 1982 Jan;149(1):173-80 PMID: 7033207
  69. Identification of a noncatalytic cGMP-binding domain conserved in both the cGMP-stimulated and photoreceptor cyclic nucleotide phosphodiesterases.
    Proc Natl Acad Sci U S A. 1990 Jan;87(1):288-92 PMID: 2153290
  70. TyrR protein of Escherichia coli and its role as repressor and activator.
    Mol Microbiol. 1991 Jul;5(7):1585-92 PMID: 1943694
  71. The sigma 54 bacterial enhancer-binding protein family: mechanism of action and phylogenetic relationship of their functional domains.
    J Bacteriol. 1993 Oct;175(19):6067-74 PMID: 8407777
  72. Phosphoenolpyruvate:carbohydrate phosphotransferase systems of bacteria.
    Microbiol Rev. 1993 Sep;57(3):543-94 PMID: 8246840
Article Info
Journal
Journal of bacteriology
Abbr.
J Bacteriol
ISSN
0021-9193
Published
2003-03-00
Pages
1757-67
Language
English
Region
United States
NLM ID
2985120R
PMCID
PMC150144
Subset
IM
Grants
Biotechnology and Biological Sciences Research Council · BBS/E/J/00000016 · United Kingdom
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