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Volumn 40, Issue 14, 2012, Pages 6673-6682

Combinatorial targeting of ribbon-helix-helix artificial transcription factors to chimeric recognition sites

Author keywords

[No Author keywords available]

Indexed keywords

HYBRID PROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR RIBBON HELIX HELIX; UNCLASSIFIED DRUG;

EID: 84864936420     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks314     Document Type: Article
Times cited : (4)

References (42)
  • 1
    • 77958096076 scopus 로고    scopus 로고
    • Determining the specificity of protein-DNA interactions
    • Stormo, G.D. and Zhao, Y. (2010) Determining the specificity of protein-DNA interactions. Nat. Rev. Genet., 11, 751-760.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 751-760
    • Stormo, G.D.1    Zhao, Y.2
  • 2
    • 0035930331 scopus 로고    scopus 로고
    • Recognition of specific DNA sequences
    • DOI 10.1016/S1097-2765(01)00392-6
    • Garvie, C.W. and Wolberger, C. (2001) Recognition of specific DNA sequences. Mol. Cell, 8, 937-946. (Pubitemid 34031797)
    • (2001) Molecular Cell , vol.8 , Issue.5 , pp. 937-946
    • Garvie, C.W.1    Wolberger, C.2
  • 3
    • 0036898867 scopus 로고    scopus 로고
    • Modular design of artificial transcription factors
    • DOI 10.1016/S1367-5931(02)00377-0
    • Ansari, A.Z. and Mapp, A.K. (2002) Modular design of artificial transcription factors. Curr. Opin. Chem. Biol., 6, 765-772. (Pubitemid 35449335)
    • (2002) Current Opinion in Chemical Biology , vol.6 , Issue.6 , pp. 765-772
    • Ansari, A.Z.1    Mapp, A.K.2
  • 4
    • 0042933802 scopus 로고    scopus 로고
    • Engineering proteins that bind, move, make and break DNA
    • DOI 10.1016/S0958-1669(03)00091-0
    • Collins, C.H., Yokobayashi, Y., Umeno, D. and Arnold, F.H. (2003) Engineering proteins that bind, move, make and break DNA. Curr. Opin. Biotechnol., 14, 371-378. (Pubitemid 37011316)
    • (2003) Current Opinion in Biotechnology , vol.14 , Issue.4 , pp. 371-378
    • Collins, C.H.1    Yokobayashi, Y.2    Umeno, D.3    Arnold, F.H.4
  • 5
    • 77951107086 scopus 로고    scopus 로고
    • Synthetic biology: Applications come of age
    • Khalil, A.S. and Collins, J.J. (2010) Synthetic biology: applications come of age. Nat. Rev. Genet., 11, 367-379.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 367-379
    • Khalil, A.S.1    Collins, J.J.2
  • 6
    • 0036168937 scopus 로고    scopus 로고
    • Engineering polydactyl zinc-finger transcription factors
    • DOI 10.1038/nbt0202-135
    • Beerli, R.R. and Barbas, C.F. III (2002) Engineering polydactyl zinc-finger transcription factors. Nat. Biotechnol., 20, 135-141. (Pubitemid 34158028)
    • (2002) Nature Biotechnology , vol.20 , Issue.2 , pp. 135-141
    • Beerli, R.R.1    Barbas III, C.F.2
  • 9
    • 79751487297 scopus 로고    scopus 로고
    • Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription
    • Zhang, F., Cong, L., Lodato, S., Kosuri, S., Church, G.M. and Arlotta, P. (2011) Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription. Nat. Biotechnol., 29, 149-153.
    • (2011) Nat. Biotechnol. , vol.29 , pp. 149-153
    • Zhang, F.1    Cong, L.2    Lodato, S.3    Kosuri, S.4    Church, G.M.5    Arlotta, P.6
  • 10
    • 0034811833 scopus 로고    scopus 로고
    • Concerted evolution of structure and function in a miniature protein
    • DOI 10.1021/ja0056668
    • Chin, J.W. and Schepartz, A. (2001) Concerted evolution of structure and function in a miniature protein. J. Am. Chem. Soc., 123, 2929-2930. (Pubitemid 32910738)
    • (2001) Journal of the American Chemical Society , vol.123 , Issue.12 , pp. 2929-2930
    • Chin, J.W.1    Schepartz, A.2
  • 11
    • 79953225853 scopus 로고    scopus 로고
    • Redesign of a WW domain peptide for selective recognition of single-stranded DNA
    • Stewart, A.L., Park, J.H. and Waters, M.L. (2011) Redesign of a WW domain peptide for selective recognition of single-stranded DNA. Biochemistry, 50, 2575-2784.
    • (2011) Biochemistry , vol.50 , pp. 2575-2784
    • Stewart, A.L.1    Park, J.H.2    Waters, M.L.3
  • 12
    • 34548046005 scopus 로고    scopus 로고
    • Ribbon-helix-helix transcription factors: Variations on a theme
    • DOI 10.1038/nrmicro1717, PII NRMICRO1717
    • Schreiter, E.R. and Drennan, C.L. (2007) Ribbon-helix-helix transcription factors: variations on a theme. Nat. Rev. Microbiol., 5, 710-720. (Pubitemid 47278864)
    • (2007) Nature Reviews Microbiology , vol.5 , Issue.9 , pp. 710-720
    • Schreiter, E.R.1    Drennan, C.L.2
  • 13
    • 0023684064 scopus 로고
    • A general method of in vitro preparation and specific mutagenesis of DNA fragments: Study of protein and DNA interactions
    • Higuchi, R., Krummel, B. and Saiki, R.K. (1988) A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions. Nucleic Acids Res., 16, 7351-7367.
    • (1988) Nucleic Acids Res. , vol.16 , pp. 7351-7367
    • Higuchi, R.1    Krummel, B.2    Saiki, R.K.3
  • 14
    • 0038501044 scopus 로고    scopus 로고
    • Architecture of the ParF•ParG protein complex involved in prokaryotic DNA segregation
    • DOI 10.1046/j.1365-2958.2003.03564.x
    • Barillà , D. and Hayes, F. (2003) Architecture of the ParF-ParG protein complex involved in procaryotic DNA segregation. Mol. Microbiol., 49, 487-499. (Pubitemid 36851202)
    • (2003) Molecular Microbiology , vol.49 , Issue.2 , pp. 487-499
    • Barilla, D.1    Hayes, F.2
  • 15
    • 67549119034 scopus 로고    scopus 로고
    • Recruitment of the ParG segregation protein to different affinity DNA sites
    • Zampini, M., Derome, A., Bailey, S.E.S., Barillà , D. and Hayes, F. (2009) Recruitment of the ParG segregation protein to different affinity DNA sites. J. Bacteriol., 191, 3832-3841.
    • (2009) J. Bacteriol. , vol.191 , pp. 3832-3841
    • Zampini, M.1    Derome, A.2    Bailey, S.E.S.3    Barillà, D.4    Hayes, F.5
  • 16
    • 0023255472 scopus 로고
    • Improved single and multicopy lac-based cloning vectors for protein and operon fusions
    • DOI 10.1016/0378-1119(87)90095-3
    • Simons, R.W., Houman, F. and Kleckner, N. (1987) Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene, 53, 85-96. (Pubitemid 17090099)
    • (1987) Gene , vol.53 , Issue.1 , pp. 85-96
    • Simons, R.W.1    Houman, F.2    Kleckner, N.3
  • 18
    • 0344826584 scopus 로고    scopus 로고
    • ParG, a protein required for active partition of bacterial plasmids, has a dimeric ribbon-helix-helix structure
    • DOI 10.1046/j.1365-2958.2003.03750.x
    • Golovanov, A.P., Barillà , D., Golovanova, M., Hayes, F. and Lian, L.Y. (2003) ParG, a protein required for active partition of bacterial plasmids, has a dimeric ribbon-helix-helix structure. Mol. Microbiol., 50, 1141-1153. (Pubitemid 37475849)
    • (2003) Molecular Microbiology , vol.50 , Issue.4 , pp. 1141-1153
    • Golovanov, A.P.1    Barilla, D.2    Golovanova, M.3    Hayes, F.4    Lian, L.-Y.5
  • 19
    • 23344439348 scopus 로고    scopus 로고
    • The unstructured N-terminal tail of ParG modulates assembly of a quaternary nucleoprotein complex in transcription repression
    • DOI 10.1074/jbc.M501173200
    • Carmelo, E., Barillà , D., Golovanov, A.P., Lian, L.Y., Derome, A. and Hayes, F. (2005) The unstructured N-terminal tail of ParG modulates assembly of a quaternary nucleoprotein complex in transcription repression. J. Biol. Chem., 280, 28683-28691. (Pubitemid 41105769)
    • (2005) Journal of Biological Chemistry , vol.280 , Issue.31 , pp. 28683-28691
    • Carmelo, E.1    Barilla, D.2    Golovanov, A.P.3    Lian, L.-Y.4    Derome, A.5    Hayes, F.6
  • 20
    • 17844403033 scopus 로고    scopus 로고
    • Bacterial DNA segregation dynamics mediated by the polymerizing protein ParF
    • DOI 10.1038/sj.emboj.7600619
    • Barillà , D., Rosenberg, M.F., Nobbmann, U. and Hayes, F. (2005) Bacterial DNA segregation dynamics mediated by the polymerizing protein ParF. EMBO J., 24, 1453-1464. (Pubitemid 40593065)
    • (2005) EMBO Journal , vol.24 , Issue.7 , pp. 1453-1464
    • Barilla, D.1    Rosenberg, M.F.2    Nobbmann, U.3    Hayes, F.4
  • 21
    • 33846919050 scopus 로고    scopus 로고
    • The tail of the ParG DNA segregation protein remodels ParF polymers and enhances ATP hydrolysis via an arginine finger-like motif
    • DOI 10.1073/pnas.0607216104
    • Barillà , D., Carmelo, E. and Hayes, F. (2007) The tail of the ParG DNA segregation protein remodels ParF polymers and enhances ATP hydrolysis via an arginine finger-like motif. Proc. Natl Acad. Sci. USA, 104, 1811-1816. (Pubitemid 46239861)
    • (2007) Proceedings of the National Academy of Sciences of the United States of America , vol.104 , Issue.6 , pp. 1811-1816
    • Barilla, D.1    Carmelo, E.2    Hayes, F.3
  • 22
    • 35349020414 scopus 로고    scopus 로고
    • Promiscuous stimulation of ParF protein polymerization by heterogeneous centromere binding factors
    • DOI 10.1016/j.jmb.2007.09.025, PII S0022283607011990
    • Machó n, C., Fothergill, T.J.G., Barillà , D. and Hayes, F. (2007) Promiscuous stimulation of ParF protein polymerization by heterogeneous centromere binding factors. J. Mol. Biol., 374, 1-8. (Pubitemid 47600242)
    • (2007) Journal of Molecular Biology , vol.374 , Issue.1 , pp. 1-8
    • Machon, C.1    Fothergill, T.J.G.2    Barilla, D.3    Hayes, F.4
  • 25
    • 69049111851 scopus 로고    scopus 로고
    • Repressor CopG prevents access of RNA polymerase to promoter and actively dissociates open complexes
    • Herná ndez-Arriaga, A.M., Rubio-Lepe, T.S., Espinosa, M. and del Solar, G. (2009) Repressor CopG prevents access of RNA polymerase to promoter and actively dissociates open complexes. Nucleic Acids Res., 37, 4799-4811.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 4799-4811
    • Herná Ndez-Arriaga, A.M.1    Rubio-Lepe, T.S.2    Espinosa, M.3    Del Solar, G.4
  • 26
    • 33845917040 scopus 로고    scopus 로고
    • Structural basis for the differential regulation of DNA by the methionine repressor MetJ
    • DOI 10.1074/jbc.M605763200
    • Augustus, A.M., Reardon, P.N., Heller, W.T. and Spicer, L.D. (2006) Structural basis for the differential regulation of DNA by the methionine repressor MetJ. J. Biol. Chem., 281, 34269-34276. (Pubitemid 46036635)
    • (2006) Journal of Biological Chemistry , vol.281 , Issue.45 , pp. 34269-34276
    • Augustus, A.M.1    Reardon, P.N.2    Heller, W.T.3    Spicer, L.D.4
  • 27
    • 0029862991 scopus 로고    scopus 로고
    • In vitro evolution of the DNA binding sites of Escherichia coli methionine repressor, MetJ
    • DOI 10.1006/jmbi.1996.0006
    • He, Y.Y., Stockley, P.G. and Gold, L. (1996) In vitro evolution of the DNA binding sites of Escherichia coli methionine repressor, MetJ. J. Mol. Biol., 255, 55-66. (Pubitemid 26104184)
    • (1996) Journal of Molecular Biology , vol.255 , Issue.1 , pp. 55-66
    • He, Y.-Y.1    Stockley, P.G.2    Gold, L.3
  • 28
    • 0033854632 scopus 로고    scopus 로고
    • The partition system of multidrug resistance plasmid TP228 includes a novel protein that epitomizes an evolutionarily distinct subgroup of the ParA superfamily
    • DOI 10.1046/j.1365-2958.2000.02030.x
    • Hayes, F. (2000) The partition system of multidrug resistance plasmid TP228 includes a novel protein that epitomizes an evolutionarily-distinct subgroup of the ParA superfamily. Mol. Microbiol., 37, 528-541. (Pubitemid 30611833)
    • (2000) Molecular Microbiology , vol.37 , Issue.3 , pp. 528-541
    • Hayes, F.1
  • 30
    • 24744447497 scopus 로고    scopus 로고
    • Altered specificity in DNA binding by the lac repressor: A mutant lac headpiece that mimics the gal repressor
    • DOI 10.1002/cbic.200500049
    • Salinas, R.K., Folkers, G.E., Bonvin, A.M.J.J., Das, D., Boelen, R. and Kaptein, R. (2005) Altered specificity in DNA binding by the lac repressor: a mutant lac headpiece that mimics the gal repressor. Chembiochem, 6, 1628-1637. (Pubitemid 41296970)
    • (2005) ChemBioChem , vol.6 , Issue.9 , pp. 1628-1637
    • Salinas, R.K.1    Folkers, G.E.2    Bonvin, A.M.J.J.3    Das, D.4    Boelens, R.5    Kaptein, R.6
  • 31
    • 65849228838 scopus 로고    scopus 로고
    • Engineering transcription factors with novel DNA-binding specificity using comparative genomics
    • Desai, T.A., Rodionov, D.A., Gelfand, M.S., Alm, E.J. and Rao, C.V. (2009) Engineering transcription factors with novel DNA-binding specificity using comparative genomics. Nucleic Acids Res., 37, 2493-2503.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 2493-2503
    • Desai, T.A.1    Rodionov, D.A.2    Gelfand, M.S.3    Alm, E.J.4    Rao, C.V.5
  • 32
    • 0021130173 scopus 로고
    • Substituting an α-helix switches the sequence-specific DNA interactions of a repressor
    • Wharton, R.P., Brown, E.L. and Ptashne, M. (1984) Substituting an a-helix switches the sequence-specific DNA interactions of a repressor. Cell, 38, 361-369. (Pubitemid 14022031)
    • (1984) Cell , vol.38 , Issue.2 , pp. 361-369
    • Wharton, R.P.1    Brown, E.L.2    Ptashne, M.3
  • 35
    • 0028843773 scopus 로고
    • Dramatic changes in DNA-binding specificity caused by single residue substitutions in an Arc/Mnt hybrid repressor
    • Raumann, B.E., Knight, K.L. and Sauer, R.T. (1995) Dramatic changes in DNA-binding specificity caused by single residue substitutions in an Arc/Mnt hybrid repressor. Nat. Struct. Biol., 2, 1115-1122.
    • (1995) Nat. Struct. Biol. , vol.2 , pp. 1115-1122
    • Raumann, B.E.1    Knight, K.L.2    Sauer, R.T.3
  • 36
    • 0028177303 scopus 로고
    • DNA recognition by b-sheets in the Arc repressor-operator crystal structure
    • Raumann, B.E., Rould, M.A., Pabo, C.O. and Sauer, R.T. (1994) DNA recognition by b-sheets in the Arc repressor-operator crystal structure. Nature, 367, 754-757.
    • (1994) Nature , vol.367 , pp. 754-757
    • Raumann, B.E.1    Rould, M.A.2    Pabo, C.O.3    Sauer, R.T.4
  • 37
    • 73349109189 scopus 로고    scopus 로고
    • The Staphylococcus aureus pSK41 plasmid-encoded ArtA protein is a master regulator of plasmid transmission genes and contains a RHH motif used in alternate DNA-binding modes
    • Ni, L., Jensen, S.O., Ky Tonthat, N., Berg, T., Kwong, S.M., Guan, F.H., Brown, M.H., Skurray, R.A., Firth, N. and Schumacher, M.A. (2009) The Staphylococcus aureus pSK41 plasmid-encoded ArtA protein is a master regulator of plasmid transmission genes and contains a RHH motif used in alternate DNA-binding modes. Nucleic Acids Res., 37, 6970-6983.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 6970-6983
    • Ni, L.1    Jensen, S.O.2    Ky Tonthat, N.3    Berg, T.4    Kwong, S.M.5    Guan, F.H.6    Brown, M.H.7    Skurray, R.A.8    Firth, N.9    Schumacher, M.A.10
  • 38
    • 34547564386 scopus 로고    scopus 로고
    • The solution structure of ParD, the antidote of the ParDE toxin-antitoxin module, provides the structural basis for DNA and toxin binding
    • DOI 10.1110/ps.062680707
    • Oberer, M., Zangger, K., Gruber, K. and Keller, W. (2007) The solution structure of ParD, the antidote of the ParDE toxin antitoxin module, provides the structural basis for DNA and toxin binding. Protein Sci., 16, 1676-1688. (Pubitemid 47195694)
    • (2007) Protein Science , vol.16 , Issue.8 , pp. 1676-1688
    • Oberer, M.1    Zangger, K.2    Gruber, K.3    Keller, W.4
  • 39
    • 0035824885 scopus 로고    scopus 로고
    • Crystal structure of ω transcriptional repressor encoded by Streptococcus pyogenes plasmid pSM19035 at 1.5 A resolution
    • DOI 10.1006/jmbi.2001.5157
    • Murayama, K., Orth, P., de la Hoz, A.B., Alonso, J.C. and Saenger, W. (2001) Crystal structure of o transcriptional repressor encoded by Streptococcus pyogenes plasmid pSM19035 at 1.5 A ? resolution. J. Mol. Biol., 314, 789-796. (Pubitemid 34087847)
    • (2001) Journal of Molecular Biology , vol.314 , Issue.4 , pp. 789-796
    • Murayama, K.1    Orth, P.2    De La Hoz, A.B.3    Alonso, J.C.4    Saenger, W.5
  • 40
  • 41
    • 0030606226 scopus 로고    scopus 로고
    • Role of operator subsites in arc repression
    • DOI 10.1006/jmbi.1996.0637
    • Smith, T.L. and Sauer, R.T. (1996) Role of operator subsites in Arc repression. J. Mol. Biol., 264, 233-242. (Pubitemid 26402694)
    • (1996) Journal of Molecular Biology , vol.264 , Issue.2 , pp. 233-242
    • Smith, T.L.1    Sauer, R.T.2
  • 42
    • 45849138845 scopus 로고    scopus 로고
    • Expanding the specificity of DNA targeting by harnessing cooperative assembly
    • Moretti, R. and Ansari, A.Z. (2008) Expanding the specificity of DNA targeting by harnessing cooperative assembly. Biochimie, 90, 1015-1025.
    • (2008) Biochimie , vol.90 , pp. 1015-1025
    • Moretti, R.1    Ansari, A.Z.2


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