-
1
-
-
33846078626
-
REBASE-enzymes and genes for DNA restriction and modification
-
Roberts,R.J., Vincze,T., Posfai,J. and Macelis,D. (2007) REBASE-enzymes and genes for DNA restriction and modification. Nucleic Acids Res. 35, D269-270.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Roberts, R.J.1
Vincze, T.2
Posfai, J.3
Macelis, D.4
-
2
-
-
0029940857
-
Horizontal gene transfer contributes to the wide distribution and evolution of type II restriction-modification systems
-
Jeltsch,A. and Pingoud,A. (1996) Horizontal gene transfer contributes to the wide distribution and evolution of type II restriction-modification systems. J. Mol. Evol., 42, 91-96.
-
(1996)
J. Mol. Evol
, vol.42
, pp. 91-96
-
-
Jeltsch, A.1
Pingoud, A.2
-
3
-
-
0036226256
-
Mobility of a restriction-modification system revealed by its genetic contexts in three hosts
-
Naderer,M., Brust,J.R., Knowle,D. and Blumenthal,R.M. (2002) Mobility of a restriction-modification system revealed by its genetic contexts in three hosts. J. Bacteriol., 184, 2411-2419.
-
(2002)
J. Bacteriol
, vol.184
, pp. 2411-2419
-
-
Naderer, M.1
Brust, J.R.2
Knowle, D.3
Blumenthal, R.M.4
-
4
-
-
0022376069
-
Cloning of a restriction-modification system from Proteus vulgaris and its use in analyzing a methylase-sensitive phenotype in Escherichia coli
-
Blumenthal, R.M., Gregory,S.A. and Cooperider,J.S. (1985) Cloning of a restriction-modification system from Proteus vulgaris and its use in analyzing a methylase-sensitive phenotype in Escherichia coli. J. Bacteriol., 164, 501-509.
-
(1985)
J. Bacteriol
, vol.164
, pp. 501-509
-
-
Blumenthal, R.M.1
Gregory, S.A.2
Cooperider, J.S.3
-
5
-
-
0029009733
-
Characterization of pPvu1, the autonomous plasmid from Proteus vulgaris that carries the genes of the PvuII restriction-modification system
-
Calvin Koons,M.D. and Blumenthal,R.M. (1995) Characterization of pPvu1, the autonomous plasmid from Proteus vulgaris that carries the genes of the PvuII restriction-modification system. Gene, 157 73-79.
-
(1995)
Gene
, vol.157
, pp. 73-79
-
-
Calvin Koons, M.D.1
Blumenthal, R.M.2
-
6
-
-
17044403057
-
Type II restriction endonucleases: Structure and mechanism
-
Pingoud,A., Fuxreiter,M., Pingoud,V. and Wende,W. (2005) Type II restriction endonucleases: Structure and mechanism. Cell Mol. Life Sci., 62, 685-707.
-
(2005)
Cell Mol. Life Sci
, vol.62
, pp. 685-707
-
-
Pingoud, A.1
Fuxreiter, M.2
Pingoud, V.3
Wende, W.4
-
7
-
-
0030752992
-
The PvuII DNA (cytosine-N4)-methyltransferase comprises two trypsin-defined domains, each of which binds a molecule of S-adenosyl-L-methionine
-
Adams,G.M. and Blumenthal,R.M. (1997) The PvuII DNA (cytosine-N4)-methyltransferase comprises two trypsin-defined domains, each of which binds a molecule of S-adenosyl-L-methionine. Biochemistry, 36, 8284-8292.
-
(1997)
Biochemistry
, vol.36
, pp. 8284-8292
-
-
Adams, G.M.1
Blumenthal, R.M.2
-
8
-
-
0019868102
-
Two new restriction endonucleases from Proteus vulgaris
-
Gingeras,T.R., Greenough,L., Schildicraut,I. and Roberts,R.J. (1981) Two new restriction endonucleases from Proteus vulgaris. Nucleic Acids Res., 9, 4525-4536.
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 4525-4536
-
-
Gingeras, T.R.1
Greenough, L.2
Schildicraut, I.3
Roberts, R.J.4
-
9
-
-
0030612472
-
Structure of pvull DNA-(cytosinc N4) methyltransferase, an example of domain permutation and protein fold assignment
-
Gong,W., O'Gara,M., Blumenthal,R.M. and Cheng,X. (1997) Structure of pvull DNA-(cytosinc N4) methyltransferase, an example of domain permutation and protein fold assignment. Nucleic Acids Res., 25 2702-2715.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 2702-2715
-
-
Gong, W.1
O'Gara, M.2
Blumenthal, R.M.3
Cheng, X.4
-
10
-
-
0034663684
-
Recognition of native DNA methylation by the PvuII restriction endonuclcase
-
Rice,M.R. and Blumenthal,R.M. (2000) Recognition of native DNA methylation by the PvuII restriction endonuclcase. Nucleic Acids Res. 28, 3143-3150.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 3143-3150
-
-
Rice, M.R.1
Blumenthal, R.M.2
-
11
-
-
0033556694
-
Substrate recognition by the Pvu II endonuclease: Binding and cleavage of CAG5mCTG sites
-
Rice,M.R., Koons,M.D. and Blumenthal,R.M. (1999) Substrate recognition by the Pvu II endonuclease: Binding and cleavage of CAG5mCTG sites. Nucleic Acids Res., 27, 1032-1038.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 1032-1038
-
-
Rice, M.R.1
Koons, M.D.2
Blumenthal, R.M.3
-
12
-
-
0023664751
-
Interaction of AluI, Cfr6I and Pvull restriction-modification enzymes with substrates containing either N4-methylcytosine or 5-methylcytosine
-
Butkus,V., Klimasauskas,S., Petrauskiene,L., Maneliene,Z., Lebionka,A. and Janulaitis,A. (1987) Interaction of AluI, Cfr6I and Pvull restriction-modification enzymes with substrates containing either N4-methylcytosine or 5-methylcytosine. Biochim. Biophys. Acta, 909, 201-207.
-
(1987)
Biochim. Biophys. Acta
, vol.909
, pp. 201-207
-
-
Butkus, V.1
Klimasauskas, S.2
Petrauskiene, L.3
Maneliene, Z.4
Lebionka, A.5
Janulaitis, A.6
-
13
-
-
0032568598
-
Restriction-modification gene complexes as selfish gene entities: Roles of a regulatory system in their establishment, maintenance, and apoptotic mutual exclusion
-
Nakayama,Y. and Kobayashi,I. (1998) Restriction-modification gene complexes as selfish gene entities: Roles of a regulatory system in their establishment, maintenance, and apoptotic mutual exclusion. Proc. Natl Acad. Sci. USA, 95, 6442-6447.
-
(1998)
Proc. Natl Acad. Sci. USA
, vol.95
, pp. 6442-6447
-
-
Nakayama, Y.1
Kobayashi, I.2
-
14
-
-
5644239810
-
Escherichia coli mazEF mediated cell death as á defense mechanism that inhibits the spread of phage P1
-
Hazan,R. and Engelberg-Kulka,H. (2004) Escherichia coli mazEF mediated cell death as á defense mechanism that inhibits the spread of phage P1. Mol. Genet. Genomics, 272, 227-234.
-
(2004)
Mol. Genet. Genomics
, vol.272
, pp. 227-234
-
-
Hazan, R.1
Engelberg-Kulka, H.2
-
15
-
-
22544464152
-
The biology of restriction and anti-restriction
-
Tock,M.R. and Dryden,D.T. (2005) The biology of restriction and anti-restriction. Curr. Opin. Microbiol., 8, 466-472.
-
(2005)
Curr. Opin. Microbiol
, vol.8
, pp. 466-472
-
-
Tock, M.R.1
Dryden, D.T.2
-
16
-
-
0036842035
-
A DNA methyltransferase can protect the genome from post-disturbance attack by a restriction-modification gene complex
-
Takahashi,N., Naito,Y., Handa,N. and Kobayashi,I. (2002) A DNA methyltransferase can protect the genome from post-disturbance attack by a restriction-modification gene complex. J. Bacteriol., 184, 6100-6108.
-
(2002)
J. Bacteriol
, vol.184
, pp. 6100-6108
-
-
Takahashi, N.1
Naito, Y.2
Handa, N.3
Kobayashi, I.4
-
17
-
-
26444530070
-
Analysis of global gene expression and double-strand-break formation in DNA adenine methyltransferase-and mismatch repair-deficient Escherichia coli
-
Robbins-Manke,J.L., Zraveski,Z.Z., Marinus,M. and Essigmann,J.M. (2005) Analysis of global gene expression and double-strand-break formation in DNA adenine methyltransferase-and mismatch repair-deficient Escherichia coli. J. Bacteriol., 187, 7027-7037.
-
(2005)
J. Bacteriol
, vol.187
, pp. 7027-7037
-
-
Robbins-Manke, J.L.1
Zraveski, Z.Z.2
Marinus, M.3
Essigmann, J.M.4
-
18
-
-
0037446886
-
Role of SeqA and Dam in Escherichia coli gene expression: A global/microarray analysis
-
Løbner-Olesen,A., Marinus,M.G. and Hansen,F.G. (2003) Role of SeqA and Dam in Escherichia coli gene expression: A global/microarray analysis. Proc. Natl Acad. Sci. USA, 100, 4672-4677.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 4672-4677
-
-
Løbner-Olesen, A.1
Marinus, M.G.2
Hansen, F.G.3
-
19
-
-
0036366541
-
Genome-wide analysis of deoxyadenosine methyltransferase-mediated control of gene expression in Escherichia coli
-
Oshima,T., Wada,C., Kawagoe,Y., Ara,T., Maeda,M., Masuda, Y., Haraga,S. and Mori,H. (2002) Genome-wide analysis of deoxyadenosine methyltransferase-mediated control of gene expression in Escherichia coli. Mol. Microbiol., 45, 673-695.
-
(2002)
Mol. Microbiol
, vol.45
, pp. 673-695
-
-
Oshima, T.1
Wada, C.2
Kawagoe, Y.3
Ara, T.4
Maeda, M.5
Masuda, Y.6
Haraga, S.7
Mori, H.8
-
20
-
-
0029868994
-
Overproduction of DNA cytosine methyltransferases causes methylation and C → T mutations at non-canonical sites
-
Bandaru,B., Gopal,J. and Bhagwat,A.S. (1996) Overproduction of DNA cytosine methyltransferases causes methylation and C → T mutations at non-canonical sites. J. Biol. Chem., 271, 7951-7859.
-
(1996)
J. Biol. Chem
, vol.271
, pp. 7951-7859
-
-
Bandaru, B.1
Gopal, J.2
Bhagwat, A.S.3
-
21
-
-
0027093283
-
High frequency mutagenesis by a DNA methyltransferase
-
Shen,J.C., Rideout,W.M.III and Jones,P.A. (1992) High frequency mutagenesis by a DNA methyltransferase. Cell, 71, 1073-1080.
-
(1992)
Cell
, vol.71
, pp. 1073-1080
-
-
Shen, J.C.1
Rideout III, W.M.2
Jones, P.A.3
-
22
-
-
0026099080
-
Transfer of the genes for the StyLTI restriction-modification system of Salmonella typhimurium to strains lacking modification ability results in death of the recipient cells and degradation of their DNA
-
De Backer,O. and Colson,C. (1991) Transfer of the genes for the StyLTI restriction-modification system of Salmonella typhimurium to strains lacking modification ability results in death of the recipient cells and degradation of their DNA. J. Bacteriol., 173, 1328-1330.
-
(1991)
J. Bacteriol
, vol.173
, pp. 1328-1330
-
-
De Backer, O.1
Colson, C.2
-
23
-
-
0010697814
-
Repair of the Escherichia coli chromosome after in vivo scission by the EcoRI endonuclease
-
Heitman,J., Zinder,N.D. and Model,P. (1989) Repair of the Escherichia coli chromosome after in vivo scission by the EcoRI endonuclease. Proc. Natl Acad. Sci. USA, 86, 2281-2285.
-
(1989)
Proc. Natl Acad. Sci. USA
, vol.86
, pp. 2281-2285
-
-
Heitman, J.1
Zinder, N.D.2
Model, P.3
-
24
-
-
0030807132
-
Recombination and population structure in Escherichia coli
-
Milkman,R. (1997) Recombination and population structure in Escherichia coli. Genetics, 146, 745-750.
-
(1997)
Genetics
, vol.146
, pp. 745-750
-
-
Milkman, R.1
-
25
-
-
34548042075
-
Regulation of the EcoRI restriction-modification system: Identification of ecoRIM gene promoters and their upstream negative regulators in the ecoRIR gene
-
Liu,Y., Ichige,A. and Kobayashi,I. (2007) Regulation of the EcoRI restriction-modification system: Identification of ecoRIM gene promoters and their upstream negative regulators in the ecoRIR gene. Gene, 400, 140-149.
-
(2007)
Gene
, vol.400
, pp. 140-149
-
-
Liu, Y.1
Ichige, A.2
Kobayashi, I.3
-
26
-
-
34948863873
-
Negative regulation of EcoRI restriction enzyme gene associated with intragenic reverse promoters
-
Liu,Y. and Kobayashi,I. (2007) Negative regulation of EcoRI restriction enzyme gene associated with intragenic reverse promoters. J. Bacteriol., 189, 6928-6935.
-
(2007)
J. Bacteriol
, vol.189
, pp. 6928-6935
-
-
Liu, Y.1
Kobayashi, I.2
-
27
-
-
0026633116
-
Sequence and characterization of pvuIIR, the PvuII endonuclease gene, and of pvuIIC, its regulatory gene
-
Tao,T. and Blumenthal,R.M. (1992) Sequence and characterization of pvuIIR, the PvuII endonuclease gene, and of pvuIIC, its regulatory gene. J. Bacteriol., 174, 3395-3398.
-
(1992)
J. Bacteriol
, vol.174
, pp. 3395-3398
-
-
Tao, T.1
Blumenthal, R.M.2
-
28
-
-
0029035552
-
Purification and characterization of C.BamHI, a regulator of the BamHI restriction-modification system
-
Sohail,A., Ives,C.L. and Brooks,J.E. (1995) Purification and characterization of C.BamHI, a regulator of the BamHI restriction-modification system. Gene, 157, 227-228.
-
(1995)
Gene
, vol.157
, pp. 227-228
-
-
Sohail, A.1
Ives, C.L.2
Brooks, J.E.3
-
29
-
-
28844494799
-
Crystal structure of the restriction-modification system control element C.BcII and mapping of its binding site
-
Sawaya,M.R., Zhu,Z., Mersha,F., Chan,S.H., Dabur,R., Xu,S.Y. and Balendiran,G.K. (2005) Crystal structure of the restriction-modification system control element C.BcII and mapping of its binding site. Structure, 13, 1837-1847.
-
(2005)
Structure
, vol.13
, pp. 1837-1847
-
-
Sawaya, M.R.1
Zhu, Z.2
Mersha, F.3
Chan, S.H.4
Dabur, R.5
Xu, S.Y.6
Balendiran, G.K.7
-
30
-
-
0030615227
-
Cloning and characterization of the BgIII restriction-modification system reveals a possible evolutionary footprint
-
Anton,B.P., Heiter,D.F., Benner,J.S., Hess,E.J., Greenough,L., Moran,L.S., Slatko,B.E. and Brooks,J.E. (1997) Cloning and characterization of the BgIII restriction-modification system reveals a possible evolutionary footprint. Gene, 187, 19-27.
-
(1997)
Gene
, vol.187
, pp. 19-27
-
-
Anton, B.P.1
Heiter, D.F.2
Benner, J.S.3
Hess, E.J.4
Greenough, L.5
Moran, L.S.6
Slatko, B.E.7
Brooks, J.E.8
-
31
-
-
0037437368
-
Esp1396I restriction-modification system: Structural organization and mode of regulation
-
Cesnaviciene,E., Mitkaite,G., Stankevicius,K., Janulaitis,A. and Lubys,A. (2003) Esp1396I restriction-modification system: Structural organization and mode of regulation. Nucleic Acids Res., 31, 743-749.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 743-749
-
-
Cesnaviciene, E.1
Mitkaite, G.2
Stankevicius, K.3
Janulaitis, A.4
Lubys, A.5
-
32
-
-
0037101805
-
C.EcoO1091, a regulatory protein for production of EcoO1091 restriction endonuclease, specifically binds to and bends DNA upstream of its translational start site
-
Kita,K., Tsuda,J. and Nakai,S.Y. (2002) C.EcoO1091, a regulatory protein for production of EcoO1091 restriction endonuclease, specifically binds to and bends DNA upstream of its translational start site. Nucleic Acids Res., 30, 3558-3565.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 3558-3565
-
-
Kita, K.1
Tsuda, J.2
Nakai, S.Y.3
-
33
-
-
29244492278
-
Transcription regulation of the EcoRV restriction-modification system
-
Semenova,E., Minakhin,L., Bogdanova,E., Nagornykh,M., Vasilov,A., Heyduk,T., Solonin,A., Zakharova,M. and Severinov,K. (2005) Transcription regulation of the EcoRV restriction-modification system. Nucleic Acids Res., 33, 6942-6951.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 6942-6951
-
-
Semenova, E.1
Minakhin, L.2
Bogdanova, E.3
Nagornykh, M.4
Vasilov, A.5
Heyduk, T.6
Solonin, A.7
Zakharova, M.8
Severinov, K.9
-
34
-
-
0029030933
-
The eco72IC gene specifies a trans-acting factor which influences expression of both DNA methyltransferase and endonuclease from the Eco72I restriction-modification system
-
Rimseliene,R., Vaisvila,R. and Janulaitis,A. (1995) The eco72IC gene specifies a trans-acting factor which influences expression of both DNA methyltransferase and endonuclease from the Eco72I restriction-modification system. Gene, 157, 217-219.
-
(1995)
Gene
, vol.157
, pp. 217-219
-
-
Rimseliene, R.1
Vaisvila, R.2
Janulaitis, A.3
-
35
-
-
0029013490
-
Organization and gene expression within restriction-modification systems of Herpetosiphon giganteus
-
Kroger,M., Blum,E., Deppe,E., Dusterhoft,A., Erdmann,D., Kilz,S., Meyer-Rogge,S. and Mostl,D. (1995) Organization and gene expression within restriction-modification systems of Herpetosiphon giganteus. Gene, 157, 43-47.
-
(1995)
Gene
, vol.157
, pp. 43-47
-
-
Kroger, M.1
Blum, E.2
Deppe, E.3
Dusterhoft, A.4
Erdmann, D.5
Kilz, S.6
Meyer-Rogge, S.7
Mostl, D.8
-
36
-
-
0343415133
-
Nucleotide sequence of the gene encoding the BstLVI DNA methyltransferase: Comparison with other amino-DNA methyltransferases
-
Vasquez,C.C., Saavedra,C.P. and Pichuantes,S.E. (2000) Nucleotide sequence of the gene encoding the BstLVI DNA methyltransferase: comparison with other amino-DNA methyltransferases. Curr. Microbiol. 40, 114-118.
-
(2000)
Curr. Microbiol
, vol.40
, pp. 114-118
-
-
Vasquez, C.C.1
Saavedra, C.P.2
Pichuantes, S.E.3
-
37
-
-
0033231412
-
Structural organization and regulation of the plasmid-borne type II restriction-modification system Kpn2I from Klebsiella pneumoniae RFL2
-
Lubys,A., Jurenaite,S. and Janulaitis,A. (1999) Structural organization and regulation of the plasmid-borne type II restriction-modification system Kpn2I from Klebsiella pneumoniae RFL2. Nucleic Acids Res., 27, 4228-4234.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 4228-4234
-
-
Lubys, A.1
Jurenaite, S.2
Janulaitis, A.3
-
38
-
-
0028865833
-
The regulatory C proteins from different restriction-modification systems can cross-complement
-
Ives,C.L., Sohail,A. and Brooks,J.E. (1995) The regulatory C proteins from different restriction-modification systems can cross-complement. J. Bacteriol., 177, 6313-6315.
-
(1995)
J. Bacteriol
, vol.177
, pp. 6313-6315
-
-
Ives, C.L.1
Sohail, A.2
Brooks, J.E.3
-
39
-
-
0031782375
-
-
O'Sullivan,D.J. and Klaenhammer,' T.R. (1998) Control of expression of LlaI restriction in Lactococcus lactis. Mol. Microbiol., 27, 1009-1020.
-
O'Sullivan,D.J. and Klaenhammer,' T.R. (1998) Control of expression of LlaI restriction in Lactococcus lactis. Mol. Microbiol., 27, 1009-1020.
-
-
-
-
40
-
-
0033988985
-
Role and mechanism of action of C. PvuII, a regulatory protein conserved among restriction-modification systems
-
Vijesurier,R.M., Carlock,L., Blumenthal,R.M. and Dunbar,J.C. (2000) Role and mechanism of action of C. PvuII, a regulatory protein conserved among restriction-modification systems. J. Bacteriol., 182, 477-487.
-
(2000)
J. Bacteriol
, vol.182
, pp. 477-487
-
-
Vijesurier, R.M.1
Carlock, L.2
Blumenthal, R.M.3
Dunbar, J.C.4
-
41
-
-
0026087311
-
A family of regulatory genes associated with type II restriction-modification systems
-
Tao,T., Bourne,J.C. and Blumenthal,R.M. (1991) A family of regulatory genes associated with type II restriction-modification systems. J. Bacteriol., 173, 1367-1375.
-
(1991)
J. Bacteriol
, vol.173
, pp. 1367-1375
-
-
Tao, T.1
Bourne, J.C.2
Blumenthal, R.M.3
-
42
-
-
13844281073
-
High-resolution crystal structure of the restriction-modification controller protein C.AhdI from Aeromonas hydrophila
-
McGeehan,J.E., Streeter,S.D., Papapanagiotou,I., Fox,G.C. and Kneale,G.G. (2005) High-resolution crystal structure of the restriction-modification controller protein C.AhdI from Aeromonas hydrophila. J. Mol. Biol., 346, 689-701.
-
(2005)
J. Mol. Biol
, vol.346
, pp. 689-701
-
-
McGeehan, J.E.1
Streeter, S.D.2
Papapanagiotou, I.3
Fox, G.C.4
Kneale, G.G.5
-
43
-
-
11844250013
-
Nature of the promoter activated by C.PvuII, an unusual regulatory protein conserved among restriction-modification systems
-
Knowle,D., Lintner,R.E., Touma,Y.M. and Blumenthal,R.M. (2005) Nature of the promoter activated by C.PvuII, an unusual regulatory protein conserved among restriction-modification systems. J. Bacteriol., 187, 488-497.
-
(2005)
J. Bacteriol
, vol.187
, pp. 488-497
-
-
Knowle, D.1
Lintner, R.E.2
Touma, Y.M.3
Blumenthal, R.M.4
-
44
-
-
0033057789
-
Operator sequences for the regulatory proteins of restriction modification systems
-
Bart,A., Dankert,J. and van der Ende,A. (1999) Operator sequences for the regulatory proteins of restriction modification systems. Mol. Microbiol., 31, 1277-1278.
-
(1999)
Mol. Microbiol
, vol.31
, pp. 1277-1278
-
-
Bart, A.1
Dankert, J.2
van der Ende, A.3
-
45
-
-
33646105382
-
Cooperative binding of the C.AhdI controller protein to the C/R promoter and its role in endonuclease gene expression
-
McGeehan,J.E., Papapanagiotou,I., Streeter,S.D. and Kneale,G.G. (2006) Cooperative binding of the C.AhdI controller protein to the C/R promoter and its role in endonuclease gene expression. J. Mol. Biol., 358, 523-531.
-
(2006)
J. Mol. Biol
, vol.358
, pp. 523-531
-
-
McGeehan, J.E.1
Papapanagiotou, I.2
Streeter, S.D.3
Kneale, G.G.4
-
46
-
-
2142738304
-
WebLogo: A sequence logo generator
-
Crooks,G.E., Hon,G., Chandonia,J.M. and Brenner,S.E. (2004) WebLogo: A sequence logo generator. Genome Res., 14, 1188-1190.
-
(2004)
Genome Res
, vol.14
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.M.3
Brenner, S.E.4
-
47
-
-
15944379232
-
The many faces of the helix-tum-helix domain: Transcription regulation and beyond
-
Aravind,L., Anantharaman,V., Balaji,S., Babu,M.M. and Iyer,L.M. (2005) The many faces of the helix-tum-helix domain: Transcription regulation and beyond. FEMS Microhiol. Rev., 29, 231-262.
-
(2005)
FEMS Microhiol. Rev
, vol.29
, pp. 231-262
-
-
Aravind, L.1
Anantharaman, V.2
Balaji, S.3
Babu, M.M.4
Iyer, L.M.5
-
48
-
-
34250312038
-
DNA structural deformations in the interaction of the controller protein C.AhdI with its operator sequence
-
Papapanagiotou,I., Streeter,S.D., Cary,P.D. and Kneale,G.G. (2007) DNA structural deformations in the interaction of the controller protein C.AhdI with its operator sequence. Nucleic Acids Res., 35, 2643-2650.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 2643-2650
-
-
Papapanagiotou, I.1
Streeter, S.D.2
Cary, P.D.3
Kneale, G.G.4
-
49
-
-
0028993911
-
Three-dimensional structure of the diphtheria toxin repressor in complex with divalent cation co-repressors
-
Qiu,X., Verlinde,C.L., Zhang,S., Schmitt,M.P., Holmes,R.K. and Hol,W.G. (1995) Three-dimensional structure of the diphtheria toxin repressor in complex with divalent cation co-repressors. Structure, 3, 87-100.
-
(1995)
Structure
, vol.3
, pp. 87-100
-
-
Qiu, X.1
Verlinde, C.L.2
Zhang, S.3
Schmitt, M.P.4
Holmes, R.K.5
Hol, W.G.6
-
50
-
-
0036198887
-
Leaderless mRNAs in bacteria: Surprises in ribosomal recruitment and translational control
-
Moll,I., Grill,S., Gualerzi,C.O. and Blasi,U. (2002) Leaderless mRNAs in bacteria: Surprises in ribosomal recruitment and translational control. Mol. Microbiol., 43, 239-246.
-
(2002)
Mol. Microbiol
, vol.43
, pp. 239-246
-
-
Moll, I.1
Grill, S.2
Gualerzi, C.O.3
Blasi, U.4
-
51
-
-
0036889040
-
Leaderless mRNAs bind 70S ribosomes more strongly than 30S ribosomal subunits in Escherichia coli
-
O'Donnell,S.M. and Janssen,G.R. (2002) Leaderless mRNAs bind 70S ribosomes more strongly than 30S ribosomal subunits in Escherichia coli. J. Bacteriol., 184, 6730-6733.
-
(2002)
J. Bacteriol
, vol.184
, pp. 6730-6733
-
-
O'Donnell, S.M.1
Janssen, G.R.2
-
52
-
-
13444269482
-
DNA footprinting and biophysical characterization of the controller protein C.AhdI suggests the basis of a genetic switch
-
Streeter,S.D., Papapanagiotou,I., McGeehan,J.E. and Kneale,G.G. (2004) DNA footprinting and biophysical characterization of the controller protein C.AhdI suggests the basis of a genetic switch. Nucleic Acids Res., 32, 6445-6453.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 6445-6453
-
-
Streeter, S.D.1
Papapanagiotou, I.2
McGeehan, J.E.3
Kneale, G.G.4
-
53
-
-
21344439607
-
Transcriptional takeover by sigma appropriation: Remodelling of the sigma70 subunit of Escherichia coli RNA polymerase by the bacteriophage T4 activator MotA and co-activator AsiA
-
Hinton,D.M., Pande,S., Wais,N., Johnson,X.B., Vuthoori,M., Makela,A. and Hook-Barnard,I. (2005) Transcriptional takeover by sigma appropriation: remodelling of the sigma70 subunit of Escherichia coli RNA polymerase by the bacteriophage T4 activator MotA and co-activator AsiA. Microbiology, 151, 1729-1740.
-
(2005)
Microbiology
, vol.151
, pp. 1729-1740
-
-
Hinton, D.M.1
Pande, S.2
Wais, N.3
Johnson, X.B.4
Vuthoori, M.5
Makela, A.6
Hook-Barnard, I.7
-
54
-
-
33646163454
-
The role of an upstream promoter interaction in initiation of bacterial transcription
-
Nechaev,S. and Geiduschek,E.P. (2006) The role of an upstream promoter interaction in initiation of bacterial transcription. EMBO J., 25, 1700-1709.
-
(2006)
EMBO J
, vol.25
, pp. 1700-1709
-
-
Nechaev, S.1
Geiduschek, E.P.2
-
55
-
-
0028167556
-
Role of the sigma 70 subunit of Escherichia coli RNA polymerase in transcription activation
-
Kumar,A., Grimes,B., Fujita,N., Makino,K., Malloch,R.A., Hayward,R.S. and Ishihama,A. (1994) Role of the sigma 70 subunit of Escherichia coli RNA polymerase in transcription activation. J. Mol. Biol., 235, 405-413.
-
(1994)
J. Mol. Biol
, vol.235
, pp. 405-413
-
-
Kumar, A.1
Grimes, B.2
Fujita, N.3
Makino, K.4
Malloch, R.A.5
Hayward, R.S.6
Ishihama, A.7
-
56
-
-
2342447166
-
A mutant spacer sequence between -35 and -10 elements makes the Plac promoter hyperactive and cAMP receptor protein-independent
-
Liu,M., Tolstorukov,M., Zhurkin,V., Garges,S. and Adhya,S. (2004) A mutant spacer sequence between -35 and -10 elements makes the Plac promoter hyperactive and cAMP receptor protein-independent. Proc. Natl Acad. Sci. USA, 101, 6911-6916.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 6911-6916
-
-
Liu, M.1
Tolstorukov, M.2
Zhurkin, V.3
Garges, S.4
Adhya, S.5
-
57
-
-
33847390753
-
Anatomy of Escherichia coli sigma70 promoters
-
Shultzaberger,R.K., Chen,Z., Lewis,K.A. and Schneider,T.D. (2007) Anatomy of Escherichia coli sigma70 promoters. Nucleic Acids Res., 35, 771-788.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 771-788
-
-
Shultzaberger, R.K.1
Chen, Z.2
Lewis, K.A.3
Schneider, T.D.4
-
58
-
-
33744794380
-
Regulatory dynamics of synthetic gene networks with positive feedback
-
Maeda,Y.T. and Sano,M. (2006) Regulatory dynamics of synthetic gene networks with positive feedback. J. Mol. Biol., 359, 1107-1124.
-
(2006)
J. Mol. Biol
, vol.359
, pp. 1107-1124
-
-
Maeda, Y.T.1
Sano, M.2
-
59
-
-
0026602370
-
Organization and function of the mcrBC genes of Escherichia coli K-12
-
Raleigh,E.A. (1992) Organization and function of the mcrBC genes of Escherichia coli K-12. Mol. Microbiol., 6, 1079-1086.
-
(1992)
Mol. Microbiol
, vol.6
, pp. 1079-1086
-
-
Raleigh, E.A.1
-
60
-
-
0024296268
-
McrA and McrB restriction phenotypes of some E. coli strains and implications for gene cloning
-
Raleigh,E.A., Murray,N.E., Revel,H., Blumenthal,R.M., Westaway,D., Reith,A.D., Rigby,P.W., Elhai,J. and Hanahan,D. (1988) McrA and McrB restriction phenotypes of some E. coli strains and implications for gene cloning. Nucleic Acids Res., 16, 1563-1575.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 1563-1575
-
-
Raleigh, E.A.1
Murray, N.E.2
Revel, H.3
Blumenthal, R.M.4
Westaway, D.5
Reith, A.D.6
Rigby, P.W.7
Elhai, J.8
Hanahan, D.9
-
61
-
-
0018956590
-
Analysis of gene control signals by DNA fusion and cloning in Escherichia coli
-
Casadaban,M.J. and Cohen,S.N. (1980) Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J. Mol. Biol., 138 179-207.
-
(1980)
J. Mol. Biol
, vol.138
, pp. 179-207
-
-
Casadaban, M.J.1
Cohen, S.N.2
-
62
-
-
0026305697
-
Controlling basal expression in an inducible T7 expression system by blocking the target T7 promoter with lac repressor
-
Dubendorff,J.W. and Studier,F.W. (1991) Controlling basal expression in an inducible T7 expression system by blocking the target T7 promoter with lac repressor. J. Mol. Biol., 219, 45-59.
-
(1991)
J. Mol. Biol
, vol.219
, pp. 45-59
-
-
Dubendorff, J.W.1
Studier, F.W.2
-
63
-
-
0016283409
-
Culture medium for enterobacteria
-
Neidhardt,F.C., Bloch,P.L. and Smith,D.F. (1974) Culture medium for enterobacteria. J. Bacteriol., 119, 736-747.
-
(1974)
J. Bacteriol
, vol.119
, pp. 736-747
-
-
Neidhardt, F.C.1
Bloch, P.L.2
Smith, D.F.3
-
65
-
-
0025288248
-
The ilvIH operon of Escherichia coli is positively regulated
-
Platko,J.V., Willins,D.A. and Calvo,J.M. (1990) The ilvIH operon of Escherichia coli is positively regulated. J. Bacteriol., 172, 4563-4570.
-
(1990)
J. Bacteriol
, vol.172
, pp. 4563-4570
-
-
Platko, J.V.1
Willins, D.A.2
Calvo, J.M.3
-
66
-
-
0021271212
-
Plasmid vectors for the selection of promoters
-
Brosius,J. (1984) Plasmid vectors for the selection of promoters. Gene, 27, 151-160.
-
(1984)
Gene
, vol.27
, pp. 151-160
-
-
Brosius, J.1
-
67
-
-
0004136246
-
-
2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
-
Sambrook,J., Fritsch,E.F. and Maniatis,T. (1986) Molecular Cloning: A Laboratory Manual, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
-
(1986)
Molecular Cloning: A Laboratory Manual
-
-
Sambrook, J.1
Fritsch, E.F.2
Maniatis, T.3
-
69
-
-
0030759410
-
Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations
-
Siegele,D.A. and Hu,J.C. (1997) Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations. Proc. Natl. Acad. Sci. USA, 94 8168-8172.
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 8168-8172
-
-
Siegele, D.A.1
Hu, J.C.2
-
70
-
-
0034461764
-
Regulatable arabinose-inducible gene expression system with consistent control in all cells of a culture
-
Khlebnikov,A., Risa,O., Skaug,T., Carrier,T.A. and Keasling,J.D. (2000) Regulatable arabinose-inducible gene expression system with consistent control in all cells of a culture. J. Bacteriol., 182, 7029-7034.
-
(2000)
J. Bacteriol
, vol.182
, pp. 7029-7034
-
-
Khlebnikov, A.1
Risa, O.2
Skaug, T.3
Carrier, T.A.4
Keasling, J.D.5
-
71
-
-
0021469101
-
Regulation of the araC gene of Escherichia coli: Catabolite repression, autoregulation, and effect on araBAD expression
-
Miyada,C.G., Stoltzfus,L. and Wilcox,G. (1984) Regulation of the araC gene of Escherichia coli: Catabolite repression, autoregulation, and effect on araBAD expression. Proc. Natl Acad. Sci. USA, 81, 4120-4124.
-
(1984)
Proc. Natl Acad. Sci. USA
, vol.81
, pp. 4120-4124
-
-
Miyada, C.G.1
Stoltzfus, L.2
Wilcox, G.3
-
72
-
-
0030768931
-
The Hill equation revisited: Uses and misuses
-
Weiss,J.N. (1997) The Hill equation revisited: Uses and misuses. FASEB J., 11, 835-841.
-
(1997)
FASEB J
, vol.11
, pp. 835-841
-
-
Weiss, J.N.1
-
73
-
-
0027230594
-
Compilation of E. coli mRNA promoter sequences
-
Lisser,S. and Margalit,H. (1993) Compilation of E. coli mRNA promoter sequences. Nucleic Acids Res., 21, 1507-1516.
-
(1993)
Nucleic Acids Res
, vol.21
, pp. 1507-1516
-
-
Lisser, S.1
Margalit, H.2
-
74
-
-
0141605202
-
Identification and analysis of 'extended -10′ promoters in Escherichia coli
-
Mitchell,J.E., Zheng,D., Busby,S.J. and Minchin,S.D. (2003) Identification and analysis of 'extended -10′ promoters in Escherichia coli. Nucleic Acids Res., 31, 4689-4695.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 4689-4695
-
-
Mitchell, J.E.1
Zheng, D.2
Busby, S.J.3
Minchin, S.D.4
-
75
-
-
0028094540
-
Lambda cI repressor mutants altered in transcriptional activation
-
Kolkhof,P. and Muller-Hill,B. (1994) Lambda cI repressor mutants altered in transcriptional activation. J. Mol. Biol., 242, 23-36.
-
(1994)
J. Mol. Biol
, vol.242
, pp. 23-36
-
-
Kolkhof, P.1
Muller-Hill, B.2
-
76
-
-
4143110020
-
Hysteresis vs. graded responses: The connections make all the difference
-
pe20
-
Ninfa,A.J. and Mayo,A.E. (2004) Hysteresis vs. graded responses: The connections make all the difference. Sci. STKE, 2004, pe20.
-
(2004)
Sci. STKE
-
-
Ninfa, A.J.1
Mayo, A.E.2
-
77
-
-
0037376655
-
Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell
-
Tyson,J.J., Chen,K.C. and Novak,B. (2003) Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell. Curr. Opin. Cell. Biol., 15, 221-231.
-
(2003)
Curr. Opin. Cell. Biol
, vol.15
, pp. 221-231
-
-
Tyson, J.J.1
Chen, K.C.2
Novak, B.3
-
78
-
-
33646835240
-
Dual role for transactivator protein C in activation of mom promoter of bacteriophage Mu
-
Chakraborty,A. and Nagaraja,V. (2006) Dual role for transactivator protein C in activation of mom promoter of bacteriophage Mu. J. Biol. Chem., 281, 8511-8517.
-
(2006)
J. Biol. Chem
, vol.281
, pp. 8511-8517
-
-
Chakraborty, A.1
Nagaraja, V.2
-
79
-
-
0034730114
-
Methyl groups of thymine bases are important for nucleic acid recognition by DtxR
-
Chen,C.S., White,A., Love,J., Murphy,J.R. and Ringe,D. (2000) Methyl groups of thymine bases are important for nucleic acid recognition by DtxR. Biochemistry, 39, 10397-10407.
-
(2000)
Biochemistry
, vol.39
, pp. 10397-10407
-
-
Chen, C.S.1
White, A.2
Love, J.3
Murphy, J.R.4
Ringe, D.5
-
80
-
-
0023187152
-
Effect of non-contacted bases on the affinity of 434 operator for 434 repressor and Cro
-
Koudelka,G.B., Harrison,S.C. and Ptashne,M. (1987) Effect of non-contacted bases on the affinity of 434 operator for 434 repressor and Cro. Nature, 326, 886-888.
-
(1987)
Nature
, vol.326
, pp. 886-888
-
-
Koudelka, G.B.1
Harrison, S.C.2
Ptashne, M.3
-
81
-
-
0029018450
-
DNA recognition and superstructure formation by helix-turn-helix proteins
-
Suzuki,M., Yagi,N. and Gerstein,M. (1995) DNA recognition and superstructure formation by helix-turn-helix proteins. Protein Eng. 8, 329-338.
-
(1995)
Protein Eng
, vol.8
, pp. 329-338
-
-
Suzuki, M.1
Yagi, N.2
Gerstein, M.3
-
82
-
-
0030048596
-
Role of base-backbone and base-base interactions in alternating DNA conformations
-
Suzuki,M., Yagi,N. and Finch,J.T. (1996) Role of base-backbone and base-base interactions in alternating DNA conformations. FEBS Lett. 379, 148-152.
-
(1996)
FEBS Lett
, vol.379
, pp. 148-152
-
-
Suzuki, M.1
Yagi, N.2
Finch, J.T.3
-
83
-
-
0032522139
-
-
Dickerson,R,E. (1998) DNA bending: The prevalence of kinkiness and the virtues of normality. Nucleic Acids Res., 26, 1906-1926.
-
Dickerson,R,E. (1998) DNA bending: The prevalence of kinkiness and the virtues of normality. Nucleic Acids Res., 26, 1906-1926.
-
-
-
-
84
-
-
0032819029
-
Modeling helix-turn-helix: Protein-induced DNA bending with knowledge-based distance restraints
-
Tzou,W.S. and Hwang,M.J. (1999) Modeling helix-turn-helix: protein-induced DNA bending with knowledge-based distance restraints. Biophys. J., 77, 1191-1205.
-
(1999)
Biophys. J
, vol.77
, pp. 1191-1205
-
-
Tzou, W.S.1
Hwang, M.J.2
-
85
-
-
0032952075
-
DNA bendability-a novel feature in E. coli promoter recognition
-
Ozoline,O.N., Deev,A.A. and Trifonov,E.N. (1999) DNA bendability-a novel feature in E. coli promoter recognition. J. Biomol. Siruct. Dyn., 16, 825-831.
-
(1999)
J. Biomol. Siruct. Dyn
, vol.16
, pp. 825-831
-
-
Ozoline, O.N.1
Deev, A.A.2
Trifonov, E.N.3
-
86
-
-
0034614487
-
Sequence-dependent DNA structure: Tetranucleotide conformational maps
-
Packer,M.J., Dauncey,M.P. and Hunter,C.A. (2000) Sequence-dependent DNA structure: Tetranucleotide conformational maps. J. Mol. Biol., 295, 85-103.
-
(2000)
J. Mol. Biol
, vol.295
, pp. 85-103
-
-
Packer, M.J.1
Dauncey, M.P.2
Hunter, C.A.3
-
87
-
-
19444377759
-
Transcriptional interference-a crash course
-
Shearwin,K.E., Callen,B.P. and Egan,J.B. (2005) Transcriptional interference-a crash course. Trends Genet., 21, 339-345.
-
(2005)
Trends Genet
, vol.21
, pp. 339-345
-
-
Shearwin, K.E.1
Callen, B.P.2
Egan, J.B.3
-
88
-
-
0030002954
-
Rules for coupled expression of regulator and effector genes in inducible circuits
-
Hlavacek,W.S. and Savageau,M.A. (1996) Rules for coupled expression of regulator and effector genes in inducible circuits. J. Mol. Biol., 255, 121-139.
-
(1996)
J. Mol. Biol
, vol.255
, pp. 121-139
-
-
Hlavacek, W.S.1
Savageau, M.A.2
-
89
-
-
0035578429
-
Design principles for elementary gene circuits: Elements, methods, and examples
-
Savageau,M.A. (2001) Design principles for elementary gene circuits: Elements, methods, and examples. Chaos, 11, 142-159.
-
(2001)
Chaos
, vol.11
, pp. 142-159
-
-
Savageau, M.A.1
-
90
-
-
0017807890
-
Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid
-
Chang,A.C. and Cohen,S.N. (1978) Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J. Bacteriol., 134, 1141-1156.
-
(1978)
J. Bacteriol
, vol.134
, pp. 1141-1156
-
-
Chang, A.C.1
Cohen, S.N.2
-
91
-
-
0017584161
-
Construction and characterization of new cloning vehicles. II. A multipurpose cloning system
-
Bolivar,F., Rodriguez,R.L., Greene,P.J., Betlach,M.C., Heyneker,H.L. and Boyer,H.W. (1977) Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene, 2, 95-113.
-
(1977)
Gene
, vol.2
, pp. 95-113
-
-
Bolivar, F.1
Rodriguez, R.L.2
Greene, P.J.3
Betlach, M.C.4
Heyneker, H.L.5
Boyer, H.W.6
-
92
-
-
33846062023
-
Database resources of the National Center for Biotechnology Information
-
Wheeler,D.L., Barrett,T., Benson,D.A., Bryant,S.H., Canese,K., Chetvernin,V., Church,D.M., DiCuccio,M., Edgar,R. et al. (2007) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 35, D5-12.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Wheeler, D.L.1
Barrett, T.2
Benson, D.A.3
Bryant, S.H.4
Canese, K.5
Chetvernin, V.6
Church, D.M.7
DiCuccio, M.8
Edgar, R.9
-
93
-
-
0037389511
-
A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes
-
Roberts,R.J., Belfort,M., Bestor,T., Bhagwat,A.S., Bickle,T.A., Bitinaite,J., Blumenthal,R.M., Degtyarev,S., Dryden,D.T. et al. (2003) A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes. Nucleic Acids Res., 31 1805-1812.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 1805-1812
-
-
Roberts, R.J.1
Belfort, M.2
Bestor, T.3
Bhagwat, A.S.4
Bickle, T.A.5
Bitinaite, J.6
Blumenthal, R.M.7
Degtyarev, S.8
Dryden, D.T.9
-
94
-
-
0017917985
-
The meaning of Scatchard and Hill plots
-
Dahlquist,F. (1978) The meaning of Scatchard and Hill plots. Methods Enzymol., 48, 270-299.
-
(1978)
Methods Enzymol
, vol.48
, pp. 270-299
-
-
Dahlquist, F.1
|