-
1
-
-
77958096076
-
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
-
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
-
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
-
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
-
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
-
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
-
7
-
-
77955867185
-
Genome editing with engineered zinc finger nucleases
-
Urnov, F.D., Rebar, E.J., Holmes, M.C., Zhang, H.S. and Gregory, P.D. (2010) Genome editing with engineered zinc finger nucleases. Nat. Rev. Genet., 11, 636-646.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 636-646
-
-
Urnov, F.D.1
Rebar, E.J.2
Holmes, M.C.3
Zhang, H.S.4
Gregory, P.D.5
-
8
-
-
79551685675
-
A TALE nuclease architecture for efficient genome editing
-
Miller, J.C., Tan, S., Qiao, G., Barlow, K.A., Wang, J., Xia, D.F., Meng, X., Paschon, D.E., Leung, E., Hinkley, S.J. et al. (2011) A TALE nuclease architecture for efficient genome editing. Nat. Biotechnol., 29, 143-148.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 143-148
-
-
Miller, J.C.1
Tan, S.2
Qiao, G.3
Barlow, K.A.4
Wang, J.5
Xia, D.F.6
Meng, X.7
Paschon, D.E.8
Leung, E.9
Hinkley, S.J.10
-
9
-
-
79751487297
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
23
-
-
79960232925
-
Segrosome assembly at the pliable parH centromere
-
Wu, M., Zampini, M., Bussiek, M., Hoischen, C., Diekmann, S. and Hayes, F. (2011) Segrosome assembly at the pliable parH centromere. Nucleic Acids Res., 39, 5082-5097.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 5082-5097
-
-
Wu, M.1
Zampini, M.2
Bussiek, M.3
Hoischen, C.4
Diekmann, S.5
Hayes, F.6
-
24
-
-
0039985836
-
The structure of plasmid-encoded transcriptional repressor CopG unliganded and bound to its operator
-
DOI 10.1093/emboj/17.24.7404
-
Gomis-Rü th, F.X., Solá , M., Acebo, P., Pá rraga, A., Guasch, A., Eritja, R., Gonzá lez, A., Espinosa, M., del Solar, G. and Coll, M. (1998) The structure of plasmid-encoded transcriptional repressor CopG unliganded and bound to its operator. EMBO J., 17, 7404-7415. (Pubitemid 29002708)
-
(1998)
EMBO Journal
, vol.17
, Issue.24
, pp. 7404-7415
-
-
Xavier Gomis-Ruth, F.1
Sola, M.2
Acebo, P.3
Parraga, A.4
Guasch, A.5
Eritja, R.6
Gonzalez, A.7
Espinosa, M.8
Solar, G.D.9
Coll, M.10
-
25
-
-
69049111851
-
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
-
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
-
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
-
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
-
29
-
-
0035853162
-
Altering dimerization specificity by changes in surface electrostatics
-
DOI 10.1073/pnas.051624498
-
Nohaile, M.J., Hendsch, Z.S., Tidor, B. and Sauer, R.T. (2001) Altering dimerization specificity by changes in surface electrostatics. Proc. Natl Acad. Sci. USA, 98, 3109-3114. (Pubitemid 32220807)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.6
, pp. 3109-3114
-
-
Nohaile, M.J.1
Hendsch, Z.S.2
Tidor, B.3
Sauer, R.T.4
-
30
-
-
24744447497
-
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
-
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
-
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
-
33
-
-
0026645262
-
Lac repressor with the helix-turn-helix motif of-cro binds to lac operator
-
Kolkhof, P., Teichmann, D., Kisters-Woike, B., von Wilcken-Bergmann, B. and Mü ller-Hill, B. (1992) Lac repressor with the helix-turn-helix motif of-cro binds to lac operator. EMBO J., 11, 3031-3038.
-
(1992)
EMBO J.
, vol.11
, pp. 3031-3038
-
-
Kolkhof, P.1
Teichmann, D.2
Kisters-Woike, B.3
Von Wilcken-Bergmann, B.4
Mü Ller-Hill, B.5
-
35
-
-
0028843773
-
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
-
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
-
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
-
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
-
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
-
-
33750443632
-
Structural basis for nucleic acid and toxin recognition of the bacterial antitoxin CcdA
-
DOI 10.1016/j.jmb.2006.08.082, PII S0022283606011405
-
Madl, T., Van Melderen, L., Mine, N., Respondek, M., Oberer, M., Keller, W., Khatai, L. and Zangger, K. (2006) Structural basis for nucleic acid and toxin recognition of the bacterial antitoxin CcdA. J. Mol. Biol., 364, 170-185. (Pubitemid 44647253)
-
(2006)
Journal of Molecular Biology
, vol.364
, Issue.2
, pp. 170-185
-
-
Madl, T.1
Van Melderen, L.2
Mine, N.3
Respondek, M.4
Oberer, M.5
Keller, W.6
Khatai, L.7
Zangger, K.8
-
41
-
-
0030606226
-
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
-
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
|