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Volumn 65, Issue 4, 2007, Pages 907-919

Emergence of novel functions in transcriptional regulators by regression to stem protein types

Author keywords

[No Author keywords available]

Indexed keywords

2,4 DINITROTOLUENE; AMINO ACID; POLYPEPTIDE; TOLUENE; TRANSCRIPTION FACTOR;

EID: 34547689731     PISSN: 0950382X     EISSN: 13652958     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2007.05832.x     Document Type: Article
Times cited : (46)

References (43)
  • 1
    • 33751221972 scopus 로고    scopus 로고
    • The latent promiscuity of newly identified microbial lactonases is linked to a recently diverged phosphotriesterase
    • Afriat, L., Roodveldt, C., Manco, G. Tawfik, D.S. (2006) The latent promiscuity of newly identified microbial lactonases is linked to a recently diverged phosphotriesterase. Biochemistry 45 : 13677 13686.
    • (2006) Biochemistry , vol.45 , pp. 13677-13686
    • Afriat, L.1    Roodveldt, C.2    Manco, G.3    Tawfik, D.S.4
  • 3
    • 33845864966 scopus 로고    scopus 로고
    • Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein
    • Bershtein, S., Segal, M., Bekerman, R., Tokuriki, N. Tawfik, D.S. (2006) Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein. Nature 444 : 929 932.
    • (2006) Nature , vol.444 , pp. 929-932
    • Bershtein, S.1    Segal, M.2    Bekerman, R.3    Tokuriki, N.4    Tawfik, D.S.5
  • 4
    • 0028784952 scopus 로고
    • From xenobiotic to antibiotic, formation of protoanemonin from 4-chlorocatechol by enzymes of the 3-oxoadipate pathway
    • Blasco, R., Wittich, R.M., Mallavarapu, M., Timmis, K.N. Pieper, D.H. (1995) From xenobiotic to antibiotic, formation of protoanemonin from 4-chlorocatechol by enzymes of the 3-oxoadipate pathway. J Biol Chem 270 : 29229 29235.
    • (1995) J Biol Chem , vol.270 , pp. 29229-29235
    • Blasco, R.1    Wittich, R.M.2    Mallavarapu, M.3    Timmis, K.N.4    Pieper, D.H.5
  • 5
    • 0030819591 scopus 로고    scopus 로고
    • Improved broad-host-range RK2 vectors useful for high and low regulated gene expression levels in Gram-negative bacteria
    • Blatny, J.M., Brautaset, T., Winther-Larsen, H.C., Karunakaran, P. Valla, S. (1997) Improved broad-host-range RK2 vectors useful for high and low regulated gene expression levels in Gram-negative bacteria. Plasmid 38 : 35 51.
    • (1997) Plasmid , vol.38 , pp. 35-51
    • Blatny, J.M.1    Brautaset, T.2    Winther-Larsen, H.C.3    Karunakaran, P.4    Valla, S.5
  • 6
    • 13444302680 scopus 로고    scopus 로고
    • Promoters in the environment: Transcriptional regulation in its natural context
    • Cases, I. de Lorenzo, V. (2005) Promoters in the environment: transcriptional regulation in its natural context. Nat Rev Microbiol 3 : 105 118.
    • (2005) Nat Rev Microbiol , vol.3 , pp. 105-118
    • Cases, I.1    De Lorenzo, V.2
  • 7
    • 0029659029 scopus 로고    scopus 로고
    • Involvement of sigma 54 in exponential silencing of the TOL plasmid Pu promoter
    • Cases, I., de Lorenzo, V. Perez-Martin, J. (1996) Involvement of sigma 54 in exponential silencing of the TOL plasmid Pu promoter. Mol Microbiol 19 : 7 17.
    • (1996) Mol Microbiol , vol.19 , pp. 7-17
    • Cases, I.1    De Lorenzo, V.2    Perez-Martin, J.3
  • 8
    • 0031041234 scopus 로고    scopus 로고
    • Effector specificity mutants of the transcriptional activator NahR of naphthalene degrading Pseudomonas define protein sites involved in binding of aromatic inducers
    • Cebolla, A., Sousa, C. de Lorenzo, V. (1997) Effector specificity mutants of the transcriptional activator NahR of naphthalene degrading Pseudomonas define protein sites involved in binding of aromatic inducers. J Biol Chem 272 : 3986 3992.
    • (1997) J Biol Chem , vol.272 , pp. 3986-3992
    • Cebolla, A.1    Sousa, C.2    De Lorenzo, V.3
  • 9
    • 0036009684 scopus 로고    scopus 로고
    • Deciphering the action of aromatic effectors on the prokaryotic enhancer-binding protein XylR: A structural model of its N-terminal domain
    • Devos, D., Garmendia, J., de Lorenzo, V. Valencia, A. (2002) Deciphering the action of aromatic effectors on the prokaryotic enhancer-binding protein XylR: a structural model of its N-terminal domain. Environ Microbiol 4 : 29 41.
    • (2002) Environ Microbiol , vol.4 , pp. 29-41
    • Devos, D.1    Garmendia, J.2    De Lorenzo, V.3    Valencia, A.4
  • 10
    • 16544381551 scopus 로고    scopus 로고
    • Bacterial degradation of aromatic pollutants: A paradigm of metabolic versatility
    • Diaz, E. (2004) Bacterial degradation of aromatic pollutants: a paradigm of metabolic versatility. Int Microbiol 7 : 173 180.
    • (2004) Int Microbiol , vol.7 , pp. 173-180
    • Diaz, E.1
  • 11
    • 0028038233 scopus 로고
    • Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes
    • Fernandez, S., Shingler, V. de Lorenzo, V. (1994) Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes. J Bacteriol 176 : 5052 5058.
    • (1994) J Bacteriol , vol.176 , pp. 5052-5058
    • Fernandez, S.1    Shingler, V.2    De Lorenzo, V.3
  • 12
    • 0029063837 scopus 로고
    • Activation of the transcriptional regulator XylR of Pseudomonas putida by release of repression between functional domains
    • Fernandez, S., de Lorenzo, V. Perez-Martin, J. (1995) Activation of the transcriptional regulator XylR of Pseudomonas putida by release of repression between functional domains. Mol Microbiol 16 : 205 213.
    • (1995) Mol Microbiol , vol.16 , pp. 205-213
    • Fernandez, S.1    De Lorenzo, V.2    Perez-Martin, J.3
  • 13
    • 13544273854 scopus 로고    scopus 로고
    • Adaptation of the yeast URA3 selection system to gram-negative bacteria and generation of a ΔbetCDE Pseudomonas putida strain
    • Galvão, T.C. de Lorenzo, V. (2005) Adaptation of the yeast URA3 selection system to gram-negative bacteria and generation of a ΔbetCDE Pseudomonas putida strain. Appl Environ Microbiol 71 : 883 892.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 883-892
    • Galvão, T.C.1    De Lorenzo, V.2
  • 14
    • 0033753298 scopus 로고    scopus 로고
    • The role of the interdomain B linker in the activation of the XylR protein of Pseudomonas putida
    • Garmendia, J. de Lorenzo, V. (2000) The role of the interdomain B linker in the activation of the XylR protein of Pseudomonas putida. Mol Microbiol 38 : 401 410.
    • (2000) Mol Microbiol , vol.38 , pp. 401-410
    • Garmendia, J.1    De Lorenzo, V.2
  • 15
    • 0035542726 scopus 로고    scopus 로고
    • Á la carte transcriptional regulators: Unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors
    • Garmendia, J., Devos, D., Valencia, A. de Lorenzo, V. (2001) Á la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors. Mol Microbiol 42 : 47 59.
    • (2001) Mol Microbiol , vol.42 , pp. 47-59
    • Garmendia, J.1    Devos, D.2    Valencia, A.3    De Lorenzo, V.4
  • 16
    • 3242701306 scopus 로고    scopus 로고
    • Structure-based design of Tet repressor to optimize a new inducer specificity
    • Henssler, E.M., Scholz, O., Lochner, S., Gmeiner, P. Hillen, W. (2004) Structure-based design of Tet repressor to optimize a new inducer specificity. Biochemistry 43 : 9512 9518.
    • (2004) Biochemistry , vol.43 , pp. 9512-9518
    • Henssler, E.M.1    Scholz, O.2    Lochner, S.3    Gmeiner, P.4    Hillen, W.5
  • 17
    • 24644464788 scopus 로고    scopus 로고
    • Tet repressor mutants with altered effector binding and allostery
    • Henssler, E.M., Bertram, R., Wisshak, S. Hillen, W. (2005) Tet repressor mutants with altered effector binding and allostery. FEBS J 272 : 4487 4496.
    • (2005) FEBS J , vol.272 , pp. 4487-4496
    • Henssler, E.M.1    Bertram, R.2    Wisshak, S.3    Hillen, W.4
  • 18
    • 0025047590 scopus 로고
    • Transposon vectors containing non-antibiotic resistance selection markers for cloning and stable chromosomal insertion of foreign genes in Gram-negative bacteria
    • Herrero, M., de Lorenzo, V. Timmis, K.N. (1990) Transposon vectors containing non-antibiotic resistance selection markers for cloning and stable chromosomal insertion of foreign genes in Gram-negative bacteria. J Bacteriol 172 : 6557 6567.
    • (1990) J Bacteriol , vol.172 , pp. 6557-6567
    • Herrero, M.1    De Lorenzo, V.2    Timmis, K.N.3
  • 19
    • 28644444340 scopus 로고    scopus 로고
    • Bacterial degradation of xenobiotic compounds: Evolution and distribution of novel enzyme activities
    • Janssen, D.B., Dinkla, I.J., Poelarends, G.J. Terpstra, P. (2005) Bacterial degradation of xenobiotic compounds: evolution and distribution of novel enzyme activities. Environ Microbiol 7 : 1868 1882.
    • (2005) Environ Microbiol , vol.7 , pp. 1868-1882
    • Janssen, D.B.1    Dinkla, I.J.2    Poelarends, G.J.3    Terpstra, P.4
  • 20
    • 0017272554 scopus 로고
    • Enzyme recruitment in evolution of new function
    • Jensen, R.A. (1976) Enzyme recruitment in evolution of new function. Annu Rev Microbiol 30 : 409 425.
    • (1976) Annu Rev Microbiol , vol.30 , pp. 409-425
    • Jensen, R.A.1
  • 21
    • 11244261591 scopus 로고    scopus 로고
    • In search of the limits of evolution
    • Kondrashov, F.A. (2005) In search of the limits of evolution. Nat Genet 37 : 9 10.
    • (2005) Nat Genet , vol.37 , pp. 9-10
    • Kondrashov, F.A.1
  • 22
    • 0038752617 scopus 로고    scopus 로고
    • Computational design of receptor and sensor proteins with novel functions
    • Looger, L.L., Dwyer, M.A., Smith, J.J. Hellinga, H.W. (2003) Computational design of receptor and sensor proteins with novel functions. Nature 423 : 185 190.
    • (2003) Nature , vol.423 , pp. 185-190
    • Looger, L.L.1    Dwyer, M.A.2    Smith, J.J.3    Hellinga, H.W.4
  • 23
    • 0029881189 scopus 로고    scopus 로고
    • Regulatory noise in prokaryotic promoters: How bacteria learn to respond to novel environmental signals
    • de Lorenzo, V. Perez-Martin, J. (1996) Regulatory noise in prokaryotic promoters: how bacteria learn to respond to novel environmental signals. Mol Microbiol 19 : 1177 1184.
    • (1996) Mol Microbiol , vol.19 , pp. 1177-1184
    • De Lorenzo, V.1    Perez-Martin, J.2
  • 24
    • 0028358260 scopus 로고
    • Analysis and construction of stable phenotypes in gram-negative bacteria with Tn5- and Tn10-derived minitransposons
    • de Lorenzo, V. Timmis, K.N. (1994) Analysis and construction of stable phenotypes in gram-negative bacteria with Tn5- and Tn10-derived minitransposons. Methods Enzymol 235 : 386 405.
    • (1994) Methods Enzymol , vol.235 , pp. 386-405
    • De Lorenzo, V.1    Timmis, K.N.2
  • 25
    • 0025195680 scopus 로고
    • Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in Gram-negative eubacteria
    • de Lorenzo, V., Herrero, M., Jakubzik, U. Timmis, K.N. (1990) Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in Gram-negative eubacteria. J Bacteriol 172 : 6568 6572.
    • (1990) J Bacteriol , vol.172 , pp. 6568-6572
    • De Lorenzo, V.1    Herrero, M.2    Jakubzik, U.3    Timmis, K.N.4
  • 26
    • 0035846958 scopus 로고    scopus 로고
    • In vitro evolution of beta-glucuronidase into a beta-galactosidase proceeds through non-specific intermediates
    • Matsumura, I. Ellington, A.D. (2001) In vitro evolution of beta-glucuronidase into a beta-galactosidase proceeds through non-specific intermediates. J Mol Biol 305 : 331 339.
    • (2001) J Mol Biol , vol.305 , pp. 331-339
    • Matsumura, I.1    Ellington, A.D.2
  • 28
    • 0040912895 scopus 로고    scopus 로고
    • Novel effector control through modulation of a preexisting binding site of the aromatic-responsive sigma 54-dependent regulator DmpR
    • O'Neill, E., Sze, C.C. Shingler, V. (1999) Novel effector control through modulation of a preexisting binding site of the aromatic-responsive sigma 54-dependent regulator DmpR. J Biol Chem 274 : 32425 32432.
    • (1999) J Biol Chem , vol.274 , pp. 32425-32432
    • O'Neill, E.1    Sze, C.C.2    Shingler, V.3
  • 29
    • 0242522894 scopus 로고    scopus 로고
    • The organization of the microbial biodegradation network from a systems-biology perspective
    • Pazos, F., Valencia. A. de Lorenzo, V. (2003) The organization of the microbial biodegradation network from a systems-biology perspective. EMBO Rep 4 : 994 999.
    • (2003) EMBO Rep , vol.4 , pp. 994-999
    • Pazos, F.1    Valencia., A.2    De Lorenzo, V.3
  • 30
    • 0030602821 scopus 로고    scopus 로고
    • ATP binding to the sigma 54-dependent activator XylR triggers a protein multimerization cycle catalyzed by UAS DNA
    • Perez-Martin, J. de Lorenzo, V. (1996a) ATP binding to the sigma 54-dependent activator XylR triggers a protein multimerization cycle catalyzed by UAS DNA. Cell 86 : 331 339.
    • (1996) Cell , vol.86 , pp. 331-339
    • Perez-Martin, J.1    De Lorenzo, V.2
  • 31
    • 0029870669 scopus 로고    scopus 로고
    • Identification of the repressor subdomain within the signal reception module of the prokaryotic enhancer-binding protein XylR of Pseudomonas putida
    • Perez-Martin, J. de Lorenzo, V. (1996b) Identification of the repressor subdomain within the signal reception module of the prokaryotic enhancer-binding protein XylR of Pseudomonas putida. J Biol Chem 271 : 7899 7902.
    • (1996) J Biol Chem , vol.271 , pp. 7899-7902
    • Perez-Martin, J.1    De Lorenzo, V.2
  • 32
    • 0029919623 scopus 로고    scopus 로고
    • In vitro activities of an N-terminal truncated form of XylR, a sigma 54-dependent transcriptional activator of Pseudomonas putida
    • Perez-Martin, J. de Lorenzo, V. (1996c) In vitro activities of an N-terminal truncated form of XylR, a sigma 54-dependent transcriptional activator of Pseudomonas putida. J Mol Biol 258 : 575 587.
    • (1996) J Mol Biol , vol.258 , pp. 575-587
    • Perez-Martin, J.1    De Lorenzo, V.2
  • 33
    • 0025158998 scopus 로고
    • Signal-regulator interactions. Genetic analysis of the effector binding site of xylS, the benzoate-activated positive regulator of Pseudomonas TOL plasmid meta-cleavage pathway operon
    • Ramos, J.L., Michan, C., Rojo, F., Dwyer, D. Timmis, K.N. (1990) Signal-regulator interactions. Genetic analysis of the effector binding site of xylS, the benzoate-activated positive regulator of Pseudomonas TOL plasmid meta-cleavage pathway operon. J Mol Biol 211 : 373 382.
    • (1990) J Mol Biol , vol.211 , pp. 373-382
    • Ramos, J.L.1    Michan, C.2    Rojo, F.3    Dwyer, D.4    Timmis, K.N.5
  • 34
    • 0030860391 scopus 로고    scopus 로고
    • Transcriptional control of the Pseudomonas TOL plasmid catabolic operons is achieved through an interplay of host factors and plasmid-encoded regulators
    • Ramos, J.L., Marques, S. Timmis, K.N. (1997) Transcriptional control of the Pseudomonas TOL plasmid catabolic operons is achieved through an interplay of host factors and plasmid-encoded regulators. Annu Rev Microbiol 51 : 341 373.
    • (1997) Annu Rev Microbiol , vol.51 , pp. 341-373
    • Ramos, J.L.1    Marques, S.2    Timmis, K.N.3
  • 35
    • 0035162352 scopus 로고    scopus 로고
    • Role of the DmpR-mediated regulatory circuit in bacterial biodegradation properties in methylphenol-amended soils
    • Sarand, I., Skarfstad, E., Forsman, M., Romantschuk, M. Shingler, V. (2001) Role of the DmpR-mediated regulatory circuit in bacterial biodegradation properties in methylphenol-amended soils. Appl Environ Microbiol 67 : 162 171.
    • (2001) Appl Environ Microbiol , vol.67 , pp. 162-171
    • Sarand, I.1    Skarfstad, E.2    Forsman, M.3    Romantschuk, M.4    Shingler, V.5
  • 38
    • 0034087222 scopus 로고    scopus 로고
    • Identification of an effector specificity subregion within the aromatic-responsive regulators DmpR and XylR by DNA shuffling
    • Skarfstad, E., O'Neill. E., Garmendia, J. Shingler, V. (2000) Identification of an effector specificity subregion within the aromatic-responsive regulators DmpR and XylR by DNA shuffling. J Bacteriol 182 : 3008 3016.
    • (2000) J Bacteriol , vol.182 , pp. 3008-3016
    • Skarfstad, E.1    O'Neill., E.2    Garmendia, J.3    Shingler, V.4
  • 39
    • 0036777452 scopus 로고    scopus 로고
    • Formation of protoanemonin from 2-chloro-cis,cis-muconate by the combined action of muconate cycloisomerase and muconolactone isomerase
    • Skiba, A., Hecht. V. Pieper. D.H. (2002) Formation of protoanemonin from 2-chloro-cis,cis-muconate by the combined action of muconate cycloisomerase and muconolactone isomerase. J Bacteriol 184 : 5402 5409.
    • (2002) J Bacteriol , vol.184 , pp. 5402-5409
    • Skiba, A.1    Hecht., V.2    Pieper., D.H.3
  • 40
    • 4744339316 scopus 로고    scopus 로고
    • Evolution of enzymes for the metabolism of new chemical inputs into the environment
    • Wackett, L.P. (2004) Evolution of enzymes for the metabolism of new chemical inputs into the environment. J Biol Chem 279 : 41259 41262.
    • (2004) J Biol Chem , vol.279 , pp. 41259-41262
    • Wackett, L.P.1
  • 42
    • 0035861981 scopus 로고    scopus 로고
    • The regulatory N-terminal region of the aromatic-responsive transcriptional activator DmpR constrains nucleotide-triggered multimerisation
    • Wikstrom, P., O'Neill, E., Ng. L.C. Shingler, V. (2001) The regulatory N-terminal region of the aromatic-responsive transcriptional activator DmpR constrains nucleotide-triggered multimerisation. J Mol Biol 314 : 971 984.
    • (2001) J Mol Biol , vol.314 , pp. 971-984
    • Wikstrom, P.1    O'Neill, E.2    Ng., L.C.3    Shingler, V.4
  • 43
    • 33646178621 scopus 로고    scopus 로고
    • Designed divergent evolution of enzyme function
    • Yoshikuni, Y., Ferrin, T.E. Keasling, J.D. (2006) Designed divergent evolution of enzyme function. Nature 440 : 1078 1082.
    • (2006) Nature , vol.440 , pp. 1078-1082
    • Yoshikuni, Y.1    Ferrin, T.E.2    Keasling, J.D.3


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