-
1
-
-
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
-
2
-
-
0014966111
-
A restriction enzyme from Hemophilus influenzae
-
Kelly, T.J. Jr and Smith, H.O. (1970) A restriction enzyme from Hemophilus influenzae. II. J. Mol. Biol., 51, 393-409.
-
(1970)
II. J. Mol. Biol.
, vol.51
, pp. 393-409
-
-
Kelly, Jr.T.J.1
Smith, H.O.2
-
3
-
-
0028932881
-
Structure and function of restriction endonucleases
-
Aggarwal, A.K. (1995) Structure and function of restriction endonucleases. Curr. Opin. Struct. Biol., 5, 11-19.
-
(1995)
Curr. Opin. Struct. Biol.
, vol.5
, pp. 11-19
-
-
Aggarwal, A.K.1
-
4
-
-
0023656822
-
Isolation and characterization of the Escherichia coli mutH gene product
-
Welsh, K.M., Lu, A.L., Clark, S. and Modrich, P. (1987) Isolation and characterization of the Escherichia coli mutH gene product. J. Biol. Chem., 262, 15624-15629.
-
(1987)
J. Biol. Chem.
, vol.262
, pp. 15624-15629
-
-
Welsh, K.M.1
Lu, A.L.2
Clark, S.3
Modrich, P.4
-
5
-
-
25844494491
-
MutH complexed with hemi- and unmethylated DNAs: Coupling base recognition and DNA cleavage
-
Lee, J.Y., Chang, J., Joseph, N., Ghirlando, R., Rao, D.N. and Yang, W. (2005) MutH complexed with hemi- and unmethylated DNAs: coupling base recognition and DNA cleavage. Mol. Cell, 20, 155-166.
-
(2005)
Mol. Cell
, vol.20
, pp. 155-166
-
-
Lee, J.Y.1
Chang, J.2
Joseph, N.3
Ghirlando, R.4
Rao, D.N.5
Yang, W.6
-
6
-
-
34247863978
-
Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically
-
Kaus-Drobek, M., Czapinska, H., Sokolowska, M., Tamulaitis, G., Szczepanowski, R.H., Urbanke, C., Siksnys, V. and Bochtler, M. (2007) Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically. Nucleic Acids Res., 35, 2035-2046.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 2035-2046
-
-
Kaus-Drobek, M.1
Czapinska, H.2
Sokolowska, M.3
Tamulaitis, G.4
Szczepanowski, R.H.5
Urbanke, C.6
Siksnys, V.7
Bochtler, M.8
-
7
-
-
34248153723
-
Monomeric restriction endonuclease BcnI in the apo form and in an asymmetric complex with target DNA
-
Sokolowska, M., Kaus-Drobek, M., Czapinska, H., Tamulaitis, G., Szczepanowski, R.H., Urbanke, C., Siksnys, V. and Bochtler, M. (2007) Monomeric restriction endonuclease BcnI in the apo form and in an asymmetric complex with target DNA. J. Mol. Biol., 369, 722-734.
-
(2007)
J. Mol. Biol.
, vol.369
, pp. 722-734
-
-
Sokolowska, M.1
Kaus-Drobek, M.2
Czapinska, H.3
Tamulaitis, G.4
Szczepanowski, R.H.5
Urbanke, C.6
Siksnys, V.7
Bochtler, M.8
-
8
-
-
34548651644
-
Restriction endonucleases that resemble a component of the bacterial DNA repair machinery
-
Sokolowska, M., Kaus-Drobek, M., Czapinska, H., Tamulaitis, G., Siksnys, V. and Bochtler, M. (2007) Restriction endonucleases that resemble a component of the bacterial DNA repair machinery. Cell. Mol. Life Sci., 64, 2351-2357.
-
(2007)
Cell. Mol. Life Sci.
, vol.64
, pp. 2351-2357
-
-
Sokolowska, M.1
Kaus-Drobek, M.2
Czapinska, H.3
Tamulaitis, G.4
Siksnys, V.5
Bochtler, M.6
-
9
-
-
0032167717
-
FokI dimerization is required for DNA cleavage
-
Bitinaite, J., Wah, D.A., Aggarwal, A.K. and Schildkraut, I. (1998) FokI dimerization is required for DNA cleavage. Proc. Natl Acad. Sci. USA, 95, 10570-10575.
-
(1998)
Proc. Natl Acad. Sci. USA
, vol.95
, pp. 10570-10575
-
-
Bitinaite, J.1
Wah, D.A.2
Aggarwal, A.K.3
Schildkraut, I.4
-
10
-
-
33645522837
-
Protein assembly and DNA looping by the FokI restriction endonuclease
-
Catto, L.E., Ganguly, S., Milsom, S.E., Welsh, A.J. and Halford, S.E. (2006) Protein assembly and DNA looping by the FokI restriction endonuclease. Nucleic Acids Res., 34, 1711-1720.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 1711-1720
-
-
Catto, L.E.1
Ganguly, S.2
Milsom, S.E.3
Welsh, A.J.4
Halford, S.E.5
-
11
-
-
0037059810
-
DNA binding and recognition by the IIs restriction endonuclease MboII
-
Soundararajan, M., Chang, Z., Morgan, R.D., Heslop, P. and Connolly, B.A. (2002) DNA binding and recognition by the IIs restriction endonuclease MboII. J. Biol. Chem., 277, 887-895.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 887-895
-
-
Soundararajan, M.1
Chang, Z.2
Morgan, R.D.3
Heslop, P.4
Connolly, B.A.5
-
12
-
-
40549109890
-
Kinetic and thermodynamic evidence for flipping of a methyl-CpG binding domain on methylated DNA
-
Inomata, K., Ohki, I., Tochio, H., Fujiwara, K., Hiroaki, H. and Shirakawa, M. (2008) Kinetic and thermodynamic evidence for flipping of a methyl-CpG binding domain on methylated DNA. Biochemistry, 47, 3266-3271.
-
(2008)
Biochemistry
, vol.47
, pp. 3266-3271
-
-
Inomata, K.1
Ohki, I.2
Tochio, H.3
Fujiwara, K.4
Hiroaki, H.5
Shirakawa, M.6
-
13
-
-
77952308521
-
A novel mechanism for the scission of double-stranded DNA: BfiI cuts both 30-50 and 50-30 strands by rotating a single active site
-
Sasnauskas, G., Zakrys, L., Zaremba, M., Cosstick, R., Gaynor, J.W., Halford, S.E. and Siksnys, V. (2010) A novel mechanism for the scission of double-stranded DNA: BfiI cuts both 30-50 and 50-30 strands by rotating a single active site. Nucleic Acids Res., 38, 2399-2410.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 2399-2410
-
-
Sasnauskas, G.1
Zakrys, L.2
Zaremba, M.3
Cosstick, R.4
Gaynor, J.W.5
Halford, S.E.6
Siksnys, V.7
-
14
-
-
0026330796
-
HIV-1 DNA integration: Mechanism of viral DNA cleavage and DNA strand transfer
-
Engelman, A., Mizuuchi, K. and Craigie, R. (1991) HIV-1 DNA integration: mechanism of viral DNA cleavage and DNA strand transfer. Cell, 67, 1211-1221.
-
(1991)
Cell
, vol.67
, pp. 1211-1221
-
-
Engelman, A.1
Mizuuchi, K.2
Craigie, R.3
-
15
-
-
0028805853
-
Cleavage at a V(D)J recombination signal requires only RAG1 and RAG2 proteins and occurs in two steps
-
McBlane, J.F., van Gent, D.C., Ramsden, D.A., Romeo, C., Cuomo, C.A., Gellert, M. and Oettinger, M.A. (1995) Cleavage at a V(D)J recombination signal requires only RAG1 and RAG2 proteins and occurs in two steps. Cell, 83, 387-395.
-
(1995)
Cell
, vol.83
, pp. 387-395
-
-
McBlane, J.F.1
Van Gent, D.C.2
Ramsden, D.A.3
Romeo, C.4
Cuomo, C.A.5
Gellert, M.6
Oettinger, M.A.7
-
16
-
-
0032475879
-
Tn10 transposition via a DNA hairpin intermediate
-
Kennedy, A.K., Guhathakurta, A., Kleckner, N. and Haniford, D.B. (1998) Tn10 transposition via a DNA hairpin intermediate. Cell, 95, 125-134.
-
(1998)
Cell
, vol.95
, pp. 125-134
-
-
Kennedy, A.K.1
Guhathakurta, A.2
Kleckner, N.3
Haniford, D.B.4
-
17
-
-
79956030101
-
Degenerate sequence recognition by the monomeric restriction enzyme: Single mutation converts BcnI into a strand-specific nicking endonuclease
-
Kostiuk, G., Sasnauskas, G., Tamulaitiene, G. and Siksnys, V. (2011) Degenerate sequence recognition by the monomeric restriction enzyme: single mutation converts BcnI into a strand-specific nicking endonuclease. Nucleic Acids Res., 39, 3744-3753.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 3744-3753
-
-
Kostiuk, G.1
Sasnauskas, G.2
Tamulaitiene, G.3
Siksnys, V.4
-
18
-
-
0037470599
-
The metal-independent type IIs restriction enzyme BfiI is a dimer that binds two DNA sites but has only one catalytic centre
-
Lagunavicius, A., Sasnauskas, G., Halford, S.E. and Siksnys, V. (2003) The metal-independent type IIs restriction enzyme BfiI is a dimer that binds two DNA sites but has only one catalytic centre. J. Mol. Biol., 326, 1051-1064.
-
(2003)
J. Mol. Biol.
, vol.326
, pp. 1051-1064
-
-
Lagunavicius, A.1
Sasnauskas, G.2
Halford, S.E.3
Siksnys, V.4
-
19
-
-
16244422033
-
Conversion of the tetrameric restriction endonuclease Bse634I into a dimer: Oligomeric structure-stability-function correlations
-
Zaremba, M., Sasnauskas, G., Urbanke, C. and Siksnys, V. (2005) Conversion of the tetrameric restriction endonuclease Bse634I into a dimer: oligomeric structure-stability-function correlations. J. Mol. Biol., 348, 459-478.
-
(2005)
J. Mol. Biol.
, vol.348
, pp. 459-478
-
-
Zaremba, M.1
Sasnauskas, G.2
Urbanke, C.3
Siksnys, V.4
-
20
-
-
0036386075
-
KyPlot - A user-oriented tool for statistical data analysis and visualization
-
Yoshioka, K. (2002) KyPlot - a user-oriented tool for statistical data analysis and visualization. CompStat., 17, 425-437.
-
(2002)
CompStat.
, vol.17
, pp. 425-437
-
-
Yoshioka, K.1
-
21
-
-
0034387984
-
One- and three-dimensional pathways for proteins to reach specific DNA sites
-
Stanford, N.P., Szczelkun, M.D., Marko, J.F. and Halford, S.E. (2000) One- and three-dimensional pathways for proteins to reach specific DNA sites. EMBO J., 19, 6546-6557.
-
(2000)
EMBO J.
, vol.19
, pp. 6546-6557
-
-
Stanford, N.P.1
Szczelkun, M.D.2
Marko, J.F.3
Halford, S.E.4
-
22
-
-
27644460480
-
Measurement of the contributions of 1D and 3D pathways to the translocation of a protein along DNA
-
Gowers, D.M., Wilson, G.G. and Halford, S.E. (2005) Measurement of the contributions of 1D and 3D pathways to the translocation of a protein along DNA. Proc. Natl Acad. Sci. USA, 102, 15883-15888.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 15883-15888
-
-
Gowers, D.M.1
Wilson, G.G.2
Halford, S.E.3
-
23
-
-
0022381905
-
Facilitated diffusion during catalysis by EcoRI endonuclease
-
Terry, B.J., Jack, W.E. and Modrich, P. (1985) Facilitated diffusion during catalysis by EcoRI endonuclease. Nonspecific interactions in EcoRI catalysis. J. Biol. Chem., 260, 13130-13137.
-
(1985)
Nonspecific Interactions in EcoRI Catalysis. J. Biol. Chem.
, vol.260
, pp. 13130-13137
-
-
Terry, B.J.1
Jack, W.E.2
Modrich, P.3
-
24
-
-
49449088997
-
Uracil DNA glycosylase uses DNA hopping and short-range sliding to trap extrahelical uracils
-
Porecha, R.H. and Stivers, J.T. (2008) Uracil DNA glycosylase uses DNA hopping and short-range sliding to trap extrahelical uracils. Proc. Natl Acad. Sci. USA, 105, 10791-10796.
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 10791-10796
-
-
Porecha, R.H.1
Stivers, J.T.2
-
25
-
-
77951113170
-
Hopping enables a DNA repair glycosylase to search both strands and bypass a bound protein
-
Hedglin, M. and O'Brien, P.J. (2010) Hopping enables a DNA repair glycosylase to search both strands and bypass a bound protein. ACS Chem. Biol., 5, 427-436.
-
(2010)
ACS Chem. Biol.
, vol.5
, pp. 427-436
-
-
Hedglin, M.1
O'Brien, P.J.2
-
26
-
-
68249117440
-
Escherichia coli DNA adenine methyltransferase: Intrasite processivity and substrate-induced dimerization and activation
-
Coffin, S.R. and Reich, N.O. (2009) Escherichia coli DNA adenine methyltransferase: intrasite processivity and substrate-induced dimerization and activation. Biochemistry, 48, 7399-7410.
-
(2009)
Biochemistry
, vol.48
, pp. 7399-7410
-
-
Coffin, S.R.1
Reich, N.O.2
-
27
-
-
3042579602
-
How do site-specific DNA-binding proteins find their targets?
-
Halford, S.E. and Marko, J.F. (2004) How do site-specific DNA-binding proteins find their targets? Nucleic Acids Res., 32, 3040-3052.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 3040-3052
-
-
Halford, S.E.1
Marko, J.F.2
-
28
-
-
0038652096
-
How the BfiI restriction enzyme uses one active site to cut two DNA strands
-
Sasnauskas, G., Halford, S.E. and Siksnys, V. (2003) How the BfiI restriction enzyme uses one active site to cut two DNA strands. Proc. Natl Acad. Sci. USA, 100, 6410-6415.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 6410-6415
-
-
Sasnauskas, G.1
Halford, S.E.2
Siksnys, V.3
-
29
-
-
65549171477
-
An end to 40 years of mistakes in DNA-protein association kinetics?
-
Halford, S.E. (2009) An end to 40 years of mistakes in DNA-protein association kinetics? Biochem. Soc. Trans., 37, 343-348.
-
(2009)
Biochem. Soc. Trans.
, vol.37
, pp. 343-348
-
-
Halford, S.E.1
-
30
-
-
0020160863
-
Involvement of outside DNA sequences in the major kinetic path by which EcoRI endonuclease locates and leaves its recognition sequence
-
Jack, W.E., Terry, B.J. and Modrich, P. (1982) Involvement of outside DNA sequences in the major kinetic path by which EcoRI endonuclease locates and leaves its recognition sequence. Proc. Natl Acad. Sci. USA, 79, 4010-4014.
-
(1982)
Proc. Natl Acad. Sci. USA
, vol.79
, pp. 4010-4014
-
-
Jack, W.E.1
Terry, B.J.2
Modrich, P.3
-
31
-
-
0023034951
-
Differences in the kinetic properties of BamHI endonuclease and methylase with linear DNA substrates
-
Nardone, G., George, J. and Chirikjian, J.G. (1986) Differences in the kinetic properties of BamHI endonuclease and methylase with linear DNA substrates. J. Biol. Chem., 261, 12128-12133.
-
(1986)
J. Biol. Chem.
, vol.261
, pp. 12128-12133
-
-
Nardone, G.1
George, J.2
Chirikjian, J.G.3
-
32
-
-
47249153641
-
Sliding and jumping of single EcoRV restriction enzymes on non-cognate DNA
-
Bonnet, I., Biebricher, A., Porte, P.L., Loverdo, C., Benichou, O., Voituriez, R., Escude, C., Wende, W., Pingoud, A. and Desbiolles, P. (2008) Sliding and jumping of single EcoRV restriction enzymes on non-cognate DNA. Nucleic Acids Res., 36, 4118-4127.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 4118-4127
-
-
Bonnet, I.1
Biebricher, A.2
Porte, P.L.3
Loverdo, C.4
Benichou, O.5
Voituriez, R.6
Escude, C.7
Wende, W.8
Pingoud, A.9
Desbiolles, P.10
-
33
-
-
0021844161
-
Linear diffusion of restriction endonucleases on DNA
-
Ehbrecht, H.J., Pingoud, A., Urbanke, C., Maass, G. and Gualerzi, C. (1985) Linear diffusion of restriction endonucleases on DNA. J. Biol. Chem., 260, 6160-6166.
-
(1985)
J. Biol. Chem.
, vol.260
, pp. 6160-6166
-
-
Ehbrecht, H.J.1
Pingoud, A.2
Urbanke, C.3
Maass, G.4
Gualerzi, C.5
-
34
-
-
0037451299
-
Protein motion from non-specific to specific DNA by three-dimensional routes aided by supercoiling
-
Gowers, D.M. and Halford, S.E. (2003) Protein motion from non-specific to specific DNA by three-dimensional routes aided by supercoiling. EMBO J., 22, 1410-1418.
-
(2003)
EMBO J.
, vol.22
, pp. 1410-1418
-
-
Gowers, D.M.1
Halford, S.E.2
-
35
-
-
0030067414
-
Accurate scanning of the BssHII endonuclease in search for its DNA cleavage site
-
Berkhout, B. and van Wamel, J. (1996) Accurate scanning of the BssHII endonuclease in search for its DNA cleavage site. J. Biol. Chem., 271, 1837-1840.
-
(1996)
J. Biol. Chem.
, vol.271
, pp. 1837-1840
-
-
Berkhout, B.1
Van Wamel, J.2
-
36
-
-
0019887628
-
Diffusion-driven mechanisms of protein translocation on nucleic acids. 1. Models and theory
-
Berg, O.G., Winter, R.B. and von Hippel, P.H. (1981) Diffusion-driven mechanisms of protein translocation on nucleic acids. 1. Models and theory. Biochemistry, 20, 6929-6948.
-
(1981)
Biochemistry
, vol.20
, pp. 6929-6948
-
-
Berg, O.G.1
Winter, R.B.2
Von Hippel, P.H.3
-
37
-
-
0033616705
-
Plasmid DNA cleavage by MunI restriction enzyme: Single-turnover and steady-state kinetic analysis
-
Sasnauskas, G., Jeltsch, A., Pingoud, A. and Siksnys, V. (1999) Plasmid DNA cleavage by MunI restriction enzyme: single-turnover and steady-state kinetic analysis. Biochemistry, 38, 4028-4036.
-
(1999)
Biochemistry
, vol.38
, pp. 4028-4036
-
-
Sasnauskas, G.1
Jeltsch, A.2
Pingoud, A.3
Siksnys, V.4
-
38
-
-
0034613269
-
Novel subtype of type IIs restriction enzymes. BfiI endonuclease exhibits similarities to the EDTA-resistant nuclease Nuc of Salmonella typhimurium
-
Sapranauskas, R., Sasnauskas, G., Lagunavicius, A., Vilkaitis, G., Lubys, A. and Siksnys, V. (2000) Novel subtype of type IIs restriction enzymes. BfiI endonuclease exhibits similarities to the EDTA-resistant nuclease Nuc of Salmonella typhimurium. J. Biol. Chem., 275, 30878-30885.
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 30878-30885
-
-
Sapranauskas, R.1
Sasnauskas, G.2
Lagunavicius, A.3
Vilkaitis, G.4
Lubys, A.5
Siksnys, V.6
-
39
-
-
0032555294
-
DNA excision by the Sfi i restriction endonuclease
-
Nobbs, T.J., Szczelkun, M.D., Wentzell, L.M. and Halford, S.E. (1998) DNA excision by the Sfi I restriction endonuclease. J. Mol. Biol., 281, 419-432.
-
(1998)
J. Mol. Biol.
, vol.281
, pp. 419-432
-
-
Nobbs, T.J.1
Szczelkun, M.D.2
Wentzell, L.M.3
Halford, S.E.4
-
40
-
-
0030985132
-
Rapid-reaction analysis of plasmid DNA cleavage by the EcoRV restriction endonuclease
-
Erskine, S.G., Baldwin, G.S. and Halford, S.E. (1997) Rapid-reaction analysis of plasmid DNA cleavage by the EcoRV restriction endonuclease. Biochemistry, 36, 7567-7576.
-
(1997)
Biochemistry
, vol.36
, pp. 7567-7576
-
-
Erskine, S.G.1
Baldwin, G.S.2
Halford, S.E.3
-
41
-
-
17144381324
-
Structure of HinP1I endonuclease reveals a striking similarity to the monomeric restriction enzyme MspI
-
Yang, Z., Horton, J.R., Maunus, R., Wilson, G.G., Roberts, R.J. and Cheng, X. (2005) Structure of HinP1I endonuclease reveals a striking similarity to the monomeric restriction enzyme MspI. Nucleic Acids Res., 33, 1892-1901.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 1892-1901
-
-
Yang, Z.1
Horton, J.R.2
Maunus, R.3
Wilson, G.G.4
Roberts, R.J.5
Cheng, X.6
-
42
-
-
4444373591
-
An asymmetric complex of restriction endonuclease MspI on its palindromic DNA recognition site
-
Xu, Q.S., Kucera, R.B., Roberts, R.J. and Guo, H.C. (2004) An asymmetric complex of restriction endonuclease MspI on its palindromic DNA recognition site. Structure, 12, 1741-1747.
-
(2004)
Structure
, vol.12
, pp. 1741-1747
-
-
Xu, Q.S.1
Kucera, R.B.2
Roberts, R.J.3
Guo, H.C.4
-
43
-
-
33644851082
-
DNA nicking by HinP1I endonuclease: Bending, base flipping and minor groove expansion
-
Horton, J.R., Zhang, X., Maunus, R., Yang, Z., Wilson, G.G., Roberts, R.J. and Cheng, X. (2006) DNA nicking by HinP1I endonuclease: bending, base flipping and minor groove expansion. Nucleic Acids Res., 34, 939-948.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 939-948
-
-
Horton, J.R.1
Zhang, X.2
Maunus, R.3
Yang, Z.4
Wilson, G.G.5
Roberts, R.J.6
Cheng, X.7
-
44
-
-
78651301785
-
BspRI restriction endonuclease: Cloning, expression in Escherichia coli and sequential cleavage mechanism
-
Rasko, T., Der, A., Klement, E., Slaska-Kiss, K., Posfai, E., Medzihradszky, K.F., Marshak, D.R., Roberts, R.J. and Kiss, A. (2010) BspRI restriction endonuclease: cloning, expression in Escherichia coli and sequential cleavage mechanism. Nucleic Acids Res., 38, 7155-7166.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 7155-7166
-
-
Rasko Der T, A.1
Klement, E.2
Slaska-Kiss, K.3
Posfai, E.4
Medzihradszky, K.F.5
Marshak, D.R.6
Roberts, R.J.7
Kiss, A.8
|