메뉴 건너뛰기




Volumn 308, Issue 1, 2010, Pages 84-93

The unique set of putative membrane-associated anti-σ factors in Clostridium thermocellum suggests a novel extracellular carbohydrate-sensing mechanism involved in gene regulation

Author keywords

Alternative factor; Anti factor; Carbohydrate binding module (CBM); Glycoside hydrolase (GH); I< sup> modulating factor RsgI

Indexed keywords

BACTERIAL PROTEIN; CARBOHYDRATE; CELLULOSE; PECTIN; POLYSACCHARIDE; LECTIN; MEMBRANE PROTEIN; PROTEIN BINDING; SIGMA FACTOR;

EID: 77953143732     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2010.01997.x     Document Type: Article
Times cited : (68)

References (44)
  • 3
    • 0000564050 scopus 로고    scopus 로고
    • The cellulosome: A cell-surface organelle for the adhesion to and degradation of cellulose
    • Fletcher, M. ed), pp. Wiley-Liss Inc., New York
    • Bayer EA, Morag E, Shoham Y, Tormo J Lamed R (1996) The cellulosome: a cell-surface organelle for the adhesion to and degradation of cellulose. Bacterial Adhesion: Molecular and Ecological Diversity (Fletcher M, ed), pp. 155 182. Wiley-Liss Inc., New York.
    • (1996) Bacterial Adhesion: Molecular and Ecological Diversity , pp. 155-182
    • Bayer, E.A.1    Morag, E.2    Shoham, Y.3    Tormo, J.4    Lamed, R.5
  • 5
    • 4143139469 scopus 로고    scopus 로고
    • The cellulosomes: Multi-enzyme machines for degradation of plant cell wall polysaccharides
    • Bayer EA, Belaich J-P, Shoham Y Lamed R (2004) The cellulosomes: Multi-enzyme machines for degradation of plant cell wall polysaccharides. Ann Rev Microbiol 58 : 521 554.
    • (2004) Ann Rev Microbiol , vol.58 , pp. 521-554
    • Bayer, E.A.1    Belaich, J.-P.2    Shoham, Y.3    Lamed, R.4
  • 8
    • 0038643330 scopus 로고    scopus 로고
    • Regulation of the cellulosomal CelS (cel48A) gene of Clostridium thermocellum is growth rate dependent
    • Dror TW, Morag E, Rolider A, Bayer EA, Lamed R Shoham Y (2003a) Regulation of the cellulosomal CelS (cel48A) gene of Clostridium thermocellum is growth rate dependent. J Bacteriol 185 : 3042 3048.
    • (2003) J Bacteriol , vol.185 , pp. 3042-3048
    • Dror, T.W.1    Morag, E.2    Rolider, A.3    Bayer, E.A.4    Lamed, R.5    Shoham, Y.6
  • 9
    • 0041387504 scopus 로고    scopus 로고
    • Regulation of expression of scaffoldin-related genes in Clostridium thermocellum
    • Dror TW, Rolider A, Bayer EA, Lamed R Shoham Y (2003b) Regulation of expression of scaffoldin-related genes in Clostridium thermocellum. J Bacteriol 185 : 5109 5116.
    • (2003) J Bacteriol , vol.185 , pp. 5109-5116
    • Dror, T.W.1    Rolider, A.2    Bayer, E.A.3    Lamed, R.4    Shoham, Y.5
  • 10
    • 15244343830 scopus 로고    scopus 로고
    • Regulation of major cellulosomal endoglucanases of Clostridium thermocellum differs from that of a prominent cellulosomal xylanase
    • Dror TW, Rolider A, Bayer EA, Lamed R Shoham Y (2005) Regulation of major cellulosomal endoglucanases of Clostridium thermocellum differs from that of a prominent cellulosomal xylanase. J Bacteriol 187 : 2261 2266.
    • (2005) J Bacteriol , vol.187 , pp. 2261-2266
    • Dror, T.W.1    Rolider, A.2    Bayer, E.A.3    Lamed, R.4    Shoham, Y.5
  • 13
    • 34948817185 scopus 로고    scopus 로고
    • Global view of the Clostridium thermocellum cellulosome revealed by quantitative proteomic analysis
    • Gold ND Martin VJ (2007) Global view of the Clostridium thermocellum cellulosome revealed by quantitative proteomic analysis. J Bacteriol 189 : 6787 6795.
    • (2007) J Bacteriol , vol.189 , pp. 6787-6795
    • Gold, N.D.1    Martin, V.J.2
  • 14
    • 0035798406 scopus 로고    scopus 로고
    • Assignment of homology to genome sequences using a library of hidden markov models that represent all proteins of known structure
    • Gough J, Karplus K, Hughey R Chothia C (2001) Assignment of homology to genome sequences using a library of hidden markov models that represent all proteins of known structure. J Mol Biol 313 : 903 919.
    • (2001) J Mol Biol , vol.313 , pp. 903-919
    • Gough, J.1    Karplus, K.2    Hughey, R.3    Chothia, C.4
  • 15
    • 0035985580 scopus 로고    scopus 로고
    • The extracytoplasmic function (ECF) sigma factors
    • Helmann JD (2002) The extracytoplasmic function (ECF) sigma factors. Adv Microb Physiol 46 : 47 110.
    • (2002) Adv Microb Physiol , vol.46 , pp. 47-110
    • Helmann, J.D.1
  • 17
    • 0000207681 scopus 로고
    • TMbase - A database of membrane spanning proteins segments
    • Hofmann K Stoffel W (1993) TMbase - a database of membrane spanning proteins segments. Biol Chem H-S 374 : 166.
    • (1993) Biol Chem H-S , vol.374 , pp. 166
    • Hofmann, K.1    Stoffel, W.2
  • 18
    • 58149203231 scopus 로고    scopus 로고
    • InterPro: The integrative protein signature database
    • Hunter S, Apweiler R, Attwood TK et al 2009) InterPro: the integrative protein signature database. Nucleic Acids Res 37 : D211 D215.
    • (2009) Nucleic Acids Res , vol.37
    • Hunter, S.1    Apweiler, R.2    Attwood, T.K.3
  • 19
    • 33644860814 scopus 로고    scopus 로고
    • Novel architecture of family-9 glycoside hydrolases identified in cellulosomal enzymes of Acetivibrio cellulolyticus and Clostridium thermocellum
    • Jindou S, Xu Q, Kenig R, Shulman M, Shoham Y, Bayer EA Lamed R (2006) Novel architecture of family-9 glycoside hydrolases identified in cellulosomal enzymes of Acetivibrio cellulolyticus and Clostridium thermocellum. FEMS Microbiol Lett 254 : 308 316.
    • (2006) FEMS Microbiol Lett , vol.254 , pp. 308-316
    • Jindou, S.1    Xu, Q.2    Kenig, R.3    Shulman, M.4    Shoham, Y.5    Bayer, E.A.6    Lamed, R.7
  • 20
    • 36849077668 scopus 로고    scopus 로고
    • Crystallization and preliminary diffraction studies of CBM3b of cellobiohydrolase 9A from Clostridium thermocellum
    • Jindou S, Petkun S, Shimon L, Bayer EA, Lamed R Frolow F (2007) Crystallization and preliminary diffraction studies of CBM3b of cellobiohydrolase 9A from Clostridium thermocellum. Acta Crystallogr F 63 : 1044 1047.
    • (2007) Acta Crystallogr F , vol.63 , pp. 1044-1047
    • Jindou, S.1    Petkun, S.2    Shimon, L.3    Bayer, E.A.4    Lamed, R.5    Frolow, F.6
  • 21
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes
    • Krogh A, Larsson B, von Heijne G Sonnhammer EL (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol 305 : 567 580.
    • (2001) J Mol Biol , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    Von Heijne, G.3    Sonnhammer, E.L.4
  • 22
    • 77953160616 scopus 로고    scopus 로고
    • Biomass sensing via trans-envelope carbohydrate-binding proteins, divergent family 3 CBMs, and processive enzymes in Clostridium thermocellum
    • Reims, France, March 28-April 1, 2010
    • Lamed R (2010) Biomass sensing via trans-envelope carbohydrate-binding proteins, divergent family 3 CBMs, and processive enzymes in Clostridium thermocellum. Proceedings of the 1st Symposium on Biotechnology Applied to Lignocelluloses (Lignobiotech), Reims, France, March 28-April 1, 2010, p. 21.
    • (2010) Proceedings of the 1st Symposium on Biotechnology Applied to Lignocelluloses (Lignobiotech) , pp. 21
    • Lamed, R.1
  • 23
    • 0020958567 scopus 로고
    • The cellulosome: A discrete cell surface organelle of Clostridium thermocellum which exhibits separate antigenic, cellulose binding and various cellulolytic activities
    • Lamed R, Setter E, Kenig R Bayer EA (1983) The cellulosome: a discrete cell surface organelle of Clostridium thermocellum which exhibits separate antigenic, cellulose binding and various cellulolytic activities. Biotechnol Bioeng Symp 13 : 163 181.
    • (1983) Biotechnol Bioeng Symp , vol.13 , pp. 163-181
    • Lamed, R.1    Setter, E.2    Kenig, R.3    Bayer, E.A.4
  • 25
    • 0026612797 scopus 로고
    • The σ70 family: Sequence conservation and evolutionary relationships
    • Lonetto M, Gribskov M Gross CA (1992) The σ70 family: sequence conservation and evolutionary relationships. J Bacteriol 174 : 3843 3849.
    • (1992) J Bacteriol , vol.174 , pp. 3843-3849
    • Lonetto, M.1    Gribskov, M.2    Gross, C.A.3
  • 26
    • 0028018104 scopus 로고
    • Analysis of the Streptomyces coelicolor sigE gene reveals the existence of a subfamily of eubacterial σ factors involved in the regulation of extracytoplasmic functions
    • Lonetto MA, Brown KL, Rudd KE Buttner MJ (1994) Analysis of the Streptomyces coelicolor sigE gene reveals the existence of a subfamily of eubacterial σ factors involved in the regulation of extracytoplasmic functions. P Natl Acad Sci USA 91 : 7573 7577.
    • (1994) P Natl Acad Sci USA , vol.91 , pp. 7573-7577
    • Lonetto, M.A.1    Brown, K.L.2    Rudd, K.E.3    Buttner, M.J.4
  • 27
    • 0026083675 scopus 로고
    • Transcription of Clostridium thermocellum endoglucanase genes celF and celD
    • Mishra S, Béguin P Aubert J (1991) Transcription of Clostridium thermocellum endoglucanase genes celF and celD. J Bacteriol 173 : 80 85.
    • (1991) J Bacteriol , vol.173 , pp. 80-85
    • Mishra, S.1    Béguin, P.2    Aubert, J.3
  • 28
    • 7244254401 scopus 로고    scopus 로고
    • Crystal structure of a family 54 σ-l-arabinofuranosidase reveals a novel carbohydrate-binding module that can bind arabinose
    • Miyanaga A, Koseki T, Matsuzawa H, Wakagi T, Shoun H Fushinobu S (2004) Crystal structure of a family 54 σ-l-arabinofuranosidase reveals a novel carbohydrate-binding module that can bind arabinose. J Biol Chem 279 : 44907 44914.
    • (2004) J Biol Chem , vol.279 , pp. 44907-44914
    • Miyanaga, A.1    Koseki, T.2    Matsuzawa, H.3    Wakagi, T.4    Shoun, H.5    Fushinobu, S.6
  • 30
    • 0037261948 scopus 로고    scopus 로고
    • The σ70 family of sigma factors
    • Paget MSB Helmann JD (2003) The σ70 family of sigma factors. Genome Biol 4 : 203.1 203.6.
    • (2003) Genome Biol , vol.4 , pp. 2031-2036
    • Paget, M.S.B.1    Helmann, J.D.2
  • 31
    • 74549172146 scopus 로고    scopus 로고
    • Structure of a family 3b′ carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum: Structural diversity and implications for carbohydrate binding
    • Petkun S, Jindou S, Shimon LJ, Rosenheck S, Bayer EA, Lamed R Frolow F (2010) Structure of a family 3b′ carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum: structural diversity and implications for carbohydrate binding. Acta Crystallogr D 66 : 33 43.
    • (2010) Acta Crystallogr D , vol.66 , pp. 33-43
    • Petkun, S.1    Jindou, S.2    Shimon, L.J.3    Rosenheck, S.4    Bayer, E.A.5    Lamed, R.6    Frolow, F.7
  • 33
    • 0026621578 scopus 로고
    • Identification of the cellulose binding domain of the cellulosome subunit S1 from Clostridium thermocellum
    • Poole DM, Morag E, Lamed R, Bayer EA, Hazlewood GP Gilbert HJ (1992) Identification of the cellulose binding domain of the cellulosome subunit S1 from Clostridium thermocellum. FEMS Microbiol Lett 99 : 181 186.
    • (1992) FEMS Microbiol Lett , vol.99 , pp. 181-186
    • Poole, D.M.1    Morag, E.2    Lamed, R.3    Bayer, E.A.4    Hazlewood, G.P.5    Gilbert, H.J.6
  • 34
    • 0035100922 scopus 로고    scopus 로고
    • The -10 region is a key promoter specificity determinant for the Bacillus subtilis extracytoplasmic-function sigma factors σx and σw
    • Qiu J Helmann JD (2001) The -10 region is a key promoter specificity determinant for the Bacillus subtilis extracytoplasmic-function sigma factors σX and σW. J Bacteriol 183 : 1921 1927.
    • (2001) J Bacteriol , vol.183 , pp. 1921-1927
    • Qiu, J.1    Helmann, J.D.2
  • 35
    • 67649214495 scopus 로고    scopus 로고
    • Impact of pretreated switchgrass and biomass carbohydrates on Clostridium thermocellum ATCC
    • 27405 cellulosome composition: a quantitative proteomic analysis.
    • Raman B, Pan C, Hurst GB, Rodriguez M Jr., McKeown CK, Lankford PK, Samatova NF Mielenz JR (2009) Impact of pretreated switchgrass and biomass carbohydrates on Clostridium thermocellum ATCC 27405 cellulosome composition: a quantitative proteomic analysis. PLoS ONE 4 : e5271.
    • (2009) PLoS ONE , vol.4
    • Raman, B.1    Pan, C.2    Hurst, G.B.3    Rodriguez, Jr.M.4    McKeown, C.K.5    Lankford, P.K.6    Samatova, N.F.7    Mielenz, J.R.8
  • 36
    • 3242775493 scopus 로고    scopus 로고
    • The PA14 domain, a conserved all-β domain in bacterial toxins, enzymes, adhesins and signaling molecules
    • Rigden DJ, Mello LV Galperin MY (2004) The PA14 domain, a conserved all-β domain in bacterial toxins, enzymes, adhesins and signaling molecules. Trends Biochem Sci 29 : 335 339.
    • (2004) Trends Biochem Sci , vol.29 , pp. 335-339
    • Rigden, D.J.1    Mello, L.V.2    Galperin, M.Y.3
  • 39
    • 70350432754 scopus 로고    scopus 로고
    • The third pillar of bacterial signal transduction: Classification of the extracytoplasmic function (ECF) σ factor protein family
    • Staroń A, Sofia HJ, Dietrich S, Ulrich LE, Liesegang H Mascher T (2009) The third pillar of bacterial signal transduction: classification of the extracytoplasmic function (ECF) σ factor protein family. Mol Microbiol 74 : 557 581.
    • (2009) Mol Microbiol , vol.74 , pp. 557-581
    • Staroń, A.1    Sofia, H.J.2    Dietrich, S.3    Ulrich, L.E.4    Liesegang, H.5    Mascher, T.6
  • 40
    • 23744485701 scopus 로고    scopus 로고
    • Expression of 17 genes in Clostridium thermocellum ATCC
    • 27405 during fermentation of cellulose or cellobiose in continuous culture.
    • Stevenson DM Weimer PJ (2005) Expression of 17 genes in Clostridium thermocellum ATCC 27405 during fermentation of cellulose or cellobiose in continuous culture. Appl Environ Microb 71 : 4672 4678.
    • (2005) Appl Environ Microb , vol.71 , pp. 4672-4678
    • Stevenson, D.M.1    Weimer, P.J.2
  • 41
    • 0029955959 scopus 로고    scopus 로고
    • Crystal structure of a bacterial family-III cellulose-binding domain: A general mechanism for attachment to cellulose
    • Tormo J, Lamed R, Chirino AJ, Morag E, Bayer EA, Shoham Y Steitz TA (1996) Crystal structure of a bacterial family-III cellulose-binding domain: a general mechanism for attachment to cellulose. EMBO J 15 : 5739 5751.
    • (1996) EMBO J , vol.15 , pp. 5739-5751
    • Tormo, J.1    Lamed, R.2    Chirino, A.J.3    Morag, E.4    Bayer, E.A.5    Shoham, Y.6    Steitz, T.A.7
  • 42
    • 0026232176 scopus 로고
    • Methods for dietary fiber, neutral detergent fiber, and nonstarch polysaccharides in relation to animal nutrition
    • Van Soest PJ, Robertson JB Lewis BA (1991) Methods for dietary fiber, neutral detergent fiber, and nonstarch polysaccharides in relation to animal nutrition. J Dairy Sci 74 : 3583 3597.
    • (1991) J Dairy Sci , vol.74 , pp. 3583-3597
    • Van Soest, P.J.1    Robertson, J.B.2    Lewis, B.A.3
  • 43
    • 2442419093 scopus 로고    scopus 로고
    • A novel family of carbohydrate-binding modules identified with Ruminococcus albus proteins
    • Xu Q, Morrison M, Bayer EA, Atamna N Lamed R (2004) A novel family of carbohydrate-binding modules identified with Ruminococcus albus proteins. FEBS Lett 566 : 11 16.
    • (2004) FEBS Lett , vol.566 , pp. 11-16
    • Xu, Q.1    Morrison, M.2    Bayer, E.A.3    Atamna, N.4    Lamed, R.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.