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Volumn 8, Issue , 2007, Pages

GntR family of regulators in Mycobacterium smegmatis: A sequence and structure based characterization

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; PROTEIN FADR; PROTEIN GNTR; PROTEIN HUTC; PROTEIN MOCR; PROTEIN YTRA; REGULATOR PROTEIN; UNCLASSIFIED DRUG; FADR PROTEIN, BACTERIA; REPRESSOR PROTEIN; TRANSCRIPTION FACTOR;

EID: 35748947762     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-8-289     Document Type: Article
Times cited : (43)

References (40)
  • 1
    • 0025905579 scopus 로고
    • A new family of bacterial regulatory proteins
    • Haydon DJ, Guest JR: A new family of bacterial regulatory proteins FEMS 1991, 63:291-295.
    • (1991) FEMS , vol.63 , pp. 291-295
    • Haydon, D.J.1    Guest, J.R.2
  • 2
    • 13444262384 scopus 로고    scopus 로고
    • Marchler-Bauer A, Anderson JB, Cherukuri PF, DeWeese-Scott C, Geer LY, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Marchler GH, Mullokandov M, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Yamashita RA, Yin JJ, Zhang D, Bryant SH CDD: A Conserved Domain Database for protein classification. Nucleic Acids Res 2005, 33:D192-196.
    • Marchler-Bauer A, Anderson JB, Cherukuri PF, DeWeese-Scott C, Geer LY, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Marchler GH, Mullokandov M, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Yamashita RA, Yin JJ, Zhang D, Bryant SH CDD: A Conserved Domain Database for protein classification. Nucleic Acids Res 2005, 33:D192-196.
  • 3
    • 3242674438 scopus 로고    scopus 로고
    • Extending the classification of bacterial tran scription factors beyond the helix-turn-helix motif as an alternative approach to discover new cis/trans relationships
    • Rigali S, Schlicht M, Hoskisson P, Nothaft H, Merzbacher M, Joris B, Titgemeyer F: Extending the classification of bacterial tran scription factors beyond the helix-turn-helix motif as an alternative approach to discover new cis/trans relationships. Nucleic Acids Res 2004, 32:3418-3426.
    • (2004) Nucleic Acids Res , vol.32 , pp. 3418-3426
    • Rigali, S.1    Schlicht, M.2    Hoskisson, P.3    Nothaft, H.4    Merzbacher, M.5    Joris, B.6    Titgemeyer, F.7
  • 4
    • 0041313851 scopus 로고    scopus 로고
    • PlmA, a new member of the GntR family, has plasmid maintenance functions in Anabaena sp. strain PCC 7120
    • Lee MH, Scherer M, Rigali S, Golden JW: PlmA, a new member of the GntR family, has plasmid maintenance functions in Anabaena sp. strain PCC 7120. J Bacteriol 2003, 185:4315-4325.
    • (2003) J Bacteriol , vol.185 , pp. 4315-4325
    • Lee, M.H.1    Scherer, M.2    Rigali, S.3    Golden, J.W.4
  • 5
    • 0037066712 scopus 로고    scopus 로고
    • Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies
    • Rigali S, Derouaux A, Giannotta F, Dusart J: Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies. J Biol Chem 2002, 277 12507-12515.
    • (2002) J Biol Chem , vol.277 , pp. 12507-12515
    • Rigali, S.1    Derouaux, A.2    Giannotta, F.3    Dusart, J.4
  • 6
    • 30744479238 scopus 로고    scopus 로고
    • Regulation of the Mycobacterium tuberculosis mce1 operon
    • Casali N, White AM, Riley LW: Regulation of the Mycobacterium tuberculosis mce1 operon. J Bacteriol 2006, 188:441-449.
    • (2006) J Bacteriol , vol.188 , pp. 441-449
    • Casali, N.1    White, A.M.2    Riley, L.W.3
  • 7
    • 34047264301 scopus 로고    scopus 로고
    • In silico analysis and characterization of GntR family of regulators from Mycobacterium tuberculosis
    • Vindal V, Ranjan S, Ranajan A: In silico analysis and characterization of GntR family of regulators from Mycobacterium tuberculosis. Tuberculosis 2007, 87:242-247.
    • (2007) Tuberculosis , vol.87 , pp. 242-247
    • Vindal, V.1    Ranjan, S.2    Ranajan, A.3
  • 8
    • 0033555555 scopus 로고    scopus 로고
    • Crossinduction of glc and ace operons of Escherichia coli attributable to pathway intersection. Characterization of the glc promoter
    • Pellicer MT, Fernandez C, Badia J, Aguilar J, Lin EC, Baldom L: Crossinduction of glc and ace operons of Escherichia coli attributable to pathway intersection. Characterization of the glc promoter. J Biol Chem 1999, 274:1745-1752.
    • (1999) J Biol Chem , vol.274 , pp. 1745-1752
    • Pellicer, M.T.1    Fernandez, C.2    Badia, J.3    Aguilar, J.4    Lin, E.C.5    Baldom, L.6
  • 9
    • 0028913511 scopus 로고
    • Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhRaceEF- lpd operon of Escherichia coli
    • Quail MA, Guest JR: Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhRaceEF- lpd operon of Escherichia coli. Mol Microbiol 1995, 15:519-529.
    • (1995) Mol Microbiol , vol.15 , pp. 519-529
    • Quail, M.A.1    Guest, J.R.2
  • 10
    • 0035046989 scopus 로고    scopus 로고
    • The gene yghK linked to the glc operon of Escherichia coli encodes a permease for glycolate that is structurally and functionally similar to L-lactate permease
    • Nunez MF, Pellicer MT, Badia J, Aguilar J, Baldoma L: The gene yghK linked to the glc operon of Escherichia coli encodes a permease for glycolate that is structurally and functionally similar to L-lactate permease. Microbiology 2001, 147:1069-1077.
    • (2001) Microbiology , vol.147 , pp. 1069-1077
    • Nunez, M.F.1    Pellicer, M.T.2    Badia, J.3    Aguilar, J.4    Baldoma, L.5
  • 11
    • 0034528752 scopus 로고    scopus 로고
    • Identification and characterization of a novel transcriptional regulator, MatR, for malonate metabolism in Rhizobium leguminosarum bv. trifolii
    • Lee HY, An JH, Kim YS: Identification and characterization of a novel transcriptional regulator, MatR, for malonate metabolism in Rhizobium leguminosarum bv. trifolii. Eur J Biochem 2000, 267 7224-7230.
    • (2000) Eur J Biochem , vol.267 , pp. 7224-7230
    • Lee, H.Y.1    An, J.H.2    Kim, Y.S.3
  • 12
    • 0025845723 scopus 로고
    • Analysis of the gluconate (gnt) operon of Bacillus subtilis
    • Reizer A, Deutscher J, Saier MH Jr, Reizer J: Analysis of the gluconate (gnt) operon of Bacillus subtilis. Mol Microbiol 1991, 5:1081-1089.
    • (1991) Mol Microbiol , vol.5 , pp. 1081-1089
    • Reizer, A.1    Deutscher, J.2    Saier Jr, M.H.3    Reizer, J.4
  • 13
    • 0032997283 scopus 로고    scopus 로고
    • Cloning and characterization of the genes encoding a cytochrome P450 (PipA) involved in piperidine and pyrrolidine utilization and its regulatory protein (PipR) in Mycobacterium smegmatis mc2155
    • Poupin P, Ducrocq V, Hallier-Soulier S, Truffaut N: Cloning and characterization of the genes encoding a cytochrome P450 (PipA) involved in piperidine and pyrrolidine utilization and its regulatory protein (PipR) in Mycobacterium smegmatis mc2155. J Bacteriol 1999, 181:3419-3426.
    • (1999) J Bacteriol , vol.181 , pp. 3419-3426
    • Poupin, P.1    Ducrocq, V.2    Hallier-Soulier, S.3    Truffaut, N.4
  • 14
    • 0038664315 scopus 로고    scopus 로고
    • HutC/FarR-like bacterial transcription factors of the GntR family contain a small moleculebinding domain of the chorismate lyase fold
    • Aravind L, Anantharaman V: HutC/FarR-like bacterial transcription factors of the GntR family contain a small moleculebinding domain of the chorismate lyase fold. FEMS Microbiol Lett 2003, 222 17-23.
    • (2003) FEMS Microbiol Lett , vol.222 , pp. 17-23
    • Aravind, L.1    Anantharaman, V.2
  • 15
    • 0025006457 scopus 로고
    • Nucleotide sequence of the gene encoding the repressor for the histidine utilization genes of Pseudomonas putida
    • Allison SL, Phillips AT: Nucleotide sequence of the gene encoding the repressor for the histidine utilization genes of Pseudomonas putida. J Bacteriol 1990, 172:5470-5476.
    • (1990) J Bacteriol , vol.172 , pp. 5470-5476
    • Allison, S.L.1    Phillips, A.T.2
  • 16
    • 0028073849 scopus 로고
    • Identification of a fatty acyl responsive regulator (FarR) in Escherichia coli
    • Quail MA, Dempsey CE, Guest JR: Identification of a fatty acyl responsive regulator (FarR) in Escherichia coli. FEBS Lett 1994, 356:183-187.
    • (1994) FEBS Lett , vol.356 , pp. 183-187
    • Quail, M.A.1    Dempsey, C.E.2    Guest, J.R.3
  • 17
    • 0034530267 scopus 로고    scopus 로고
    • The trehalose operon of Pseudomonas fluorescens ATCC 17400
    • Matthijs S, Koedam N, Cornelis P, De Greve H: The trehalose operon of Pseudomonas fluorescens ATCC 17400. Res Microbiol 2000, 151 845-851.
    • (2000) Res Microbiol , vol.151 , pp. 845-851
    • Matthijs, S.1    Koedam, N.2    Cornelis, P.3    De Greve, H.4
  • 18
    • 0025217032 scopus 로고
    • Molecular biology of carbon-phosphorus bond cleavage. Cloning and sequencing of the phn (psiD) genes involved in alkylphosphonate uptake and C-P lyase activity in Escherichia coli B
    • Chen CM, Ye QZ, Zhu ZM, Wanner BL, Walsh CT: Molecular biology of carbon-phosphorus bond cleavage. Cloning and sequencing of the phn (psiD) genes involved in alkylphosphonate uptake and C-P lyase activity in Escherichia coli B. J Biol Chem 1990, 265:4461-4471.
    • (1990) J Biol Chem , vol.265 , pp. 4461-4471
    • Chen, C.M.1    Ye, Q.Z.2    Zhu, Z.M.3    Wanner, B.L.4    Walsh, C.T.5
  • 19
    • 0025911849 scopus 로고
    • Thermostable aspartate aminotransferase from a thermophilic Bacillus species. Gene cloning, sequence determination, and preliminary xray characterization
    • Sung MH, Tanizawa K, Tanaka H, Kuramitsu S, Kagamiyama H, Hirotsu K, Okamoto A, Higuchi T, Soda K: Thermostable aspartate aminotransferase from a thermophilic Bacillus species. Gene cloning, sequence determination, and preliminary xray characterization. J Biol Chem 1991, 266:2567-2572.
    • (1991) J Biol Chem , vol.266 , pp. 2567-2572
    • Sung, M.H.1    Tanizawa, K.2    Tanaka, H.3    Kuramitsu, S.4    Kagamiyama, H.5    Hirotsu, K.6    Okamoto, A.7    Higuchi, T.8    Soda, K.9
  • 20
    • 0034858416 scopus 로고    scopus 로고
    • The pdx genetic marker adjacent to the chloramphenicol biosynthesis gene cluster in Streptomyces venezuelae ISP5230: Functional characterization
    • Magarvey N, He J, Aidoo KA, Vining LC: The pdx genetic marker adjacent to the chloramphenicol biosynthesis gene cluster in Streptomyces venezuelae ISP5230: Functional characterization. Microbiology 2001, 147:2103-2112.
    • (2001) Microbiology , vol.147 , pp. 2103-2112
    • Magarvey, N.1    He, J.2    Aidoo, K.A.3    Vining, L.C.4
  • 21
    • 0033797251 scopus 로고    scopus 로고
    • An operon for a putative ATPbinding cassette transport system involved in acetoin utilization of Bacillus subtilis
    • Yoshida KI, Fujita Y, Ehrlich SD: An operon for a putative ATPbinding cassette transport system involved in acetoin utilization of Bacillus subtilis. J Bacteriol 2000, 182:5454-5461.
    • (2000) J Bacteriol , vol.182 , pp. 5454-5461
    • Yoshida, K.I.1    Fujita, Y.2    Ehrlich, S.D.3
  • 22
    • 3242879355 scopus 로고    scopus 로고
    • PredictRegulon: A web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes
    • Yellaboina S,ASeshadri J, Kumar MS, Ranjan A: PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes. Nucleic Acids Res 2004, 32 W318-320.
    • (2004) Nucleic Acids Res , vol.32
    • Yellaboina, S.1    ASeshadri, J.2    Kumar, M.S.3    Ranjan, A.4
  • 23
    • 33646198530 scopus 로고    scopus 로고
    • Comparative analysis of iron regulated genes in mycobacteria
    • Yellaboina S, Ranjan S, Vindal V, Ranjan A: Comparative analysis of iron regulated genes in mycobacteria. FEBS Lett 2006, 580 2567-2576.
    • (2006) FEBS Lett , vol.580 , pp. 2567-2576
    • Yellaboina, S.1    Ranjan, S.2    Vindal, V.3    Ranjan, A.4
  • 24
    • 33747816484 scopus 로고    scopus 로고
    • iCR: A web tool to identify conserved targets of a regulatory protein across the multiple related prokaryotic species
    • RaAjan S, Seshadri J, Vindal V, Yellaboina S, Ranjan A: iCR: a web tool to identify conserved targets of a regulatory protein across the multiple related prokaryotic species. Nucleic Acids Res 2006, 34:W584-587.
    • (2006) Nucleic Acids Res , vol.34
    • RaAjan, S.1    Seshadri, J.2    Vindal, V.3    Yellaboina, S.4    Ranjan, A.5
  • 25
    • 33947433645 scopus 로고    scopus 로고
    • MycoperonDB: A database of computationally identified operons and transcriptional units in Mycobacteria
    • Ranjan S, Aundu RK, Ranjan A: MycoperonDB: a database of computationally identified operons and transcriptional units in Mycobacteria. BMC Bioinformatics 2006, 7(Suppl 5):S9.
    • (2006) BMC Bioinformatics , vol.7 , Issue.SUPPL. 5
    • Ranjan, S.1    Aundu, R.K.2    Ranjan, A.3
  • 26
    • 0037035412 scopus 로고    scopus 로고
    • Identification and characterization of the Bacillus subtilis D-glucarate/galactarate utilization operon ycbCDEFGHJ
    • Hosoya S, Yamane K, Takeuchi M, Sato T: Identification and characterization of the Bacillus subtilis D-glucarate/galactarate utilization operon ycbCDEFGHJ. FEMS Microbiol Lett 2002, 210 193-199.
    • (2002) FEMS Microbiol Lett , vol.210 , pp. 193-199
    • Hosoya, S.1    Yamane, K.2    Takeuchi, M.3    Sato, T.4
  • 27
    • 0036062693 scopus 로고    scopus 로고
    • GabR, a member of a novel protein family, regulates the utilization of gamma-aminobutyrate in Bacillus subtilis
    • Belitsky BR, Sonenshein AL: GabR, a member of a novel protein family, regulates the utilization of gamma-aminobutyrate in Bacillus subtilis Mol Microbiol 2002, 45:569-83.
    • (2002) Mol Microbiol , vol.45 , pp. 569-583
    • Belitsky, B.R.1    Sonenshein, A.L.2
  • 29
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • Eddy SR: Profile hidden Markov models. Bioinformatics 1998, 14:755-763.
    • (1998) Bioinformatics , vol.14 , pp. 755-763
    • Eddy, S.R.1
  • 30
    • 68949208441 scopus 로고    scopus 로고
    • National Center for Biotechnology Information(NCBI) FTP site [ftp://ftp.ncbi.nih.gov/genomes/Bacteria/]
    • FTP site
  • 33
    • 0034595501 scopus 로고    scopus 로고
    • Enhanced genome annotation using structural profiles in the program 3D-PSSM
    • Kelley LA, MacCallum RM, Sternberg MJ: Enhanced genome annotation using structural profiles in the program 3D-PSSM. J Mol Biol 2000, 299:499-520.
    • (2000) J Mol Biol , vol.299 , pp. 499-520
    • Kelley, L.A.1    MacCallum, R.M.2    Sternberg, M.J.3
  • 34
    • 0024297354 scopus 로고
    • Multiple sequence alignment with hierarchical clustering
    • Corpet F: Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res 1988, 16:10881-10890.
    • (1988) Nucleic Acids Res , vol.16 , pp. 10881-10890
    • Corpet, F.1
  • 35
    • 68949219445 scopus 로고    scopus 로고
    • Young CL, Barker WC, Tomaselli CM, Dayhoff MO: From Atlas of Protein Sequence and Structure 5. Issue Suppl 3 Edited by: Dayhoff MO. National Biochemical Foundation, Silver Spring, MD; 1979:73-93.
    • Young CL, Barker WC, Tomaselli CM, Dayhoff MO: From Atlas of Protein Sequence and Structure Volume 5. Issue Suppl 3 Edited by: Dayhoff MO. National Biochemical Foundation, Silver Spring, MD; 1979:73-93.
  • 36
    • 0014211361 scopus 로고
    • Construction of phylogenetic trees
    • Fitch WM, Margoliash E: Construction of phylogenetic trees. Science 1967, 155:279-284.
    • (1967) Science , vol.155 , pp. 279-284
    • Fitch, W.M.1    Margoliash, E.2
  • 37
    • 0030203863 scopus 로고    scopus 로고
    • TreeView: An application to display phylogenetic trees on personal computers
    • Page RDA TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 1996, 12:357-358.
    • (1996) Comput Appl Biosci , vol.12 , pp. 357-358
    • Page, R.D.A.1
  • 38
    • 0000122573 scopus 로고
    • PHYLIP-Phylogeny Interface Package
    • Felsenstein J: PHYLIP-Phylogeny Interface Package. Cladistics 1989, 5:164-166.
    • (1989) Cladistics , vol.5 , pp. 164-166
    • Felsenstein, J.1


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