-
1
-
-
0035930331
-
Recognition of specific dna sequences
-
Garvic CW, Wblberger C. Recognition of specific DNA sequences. Mol Cell 2001; 8:937
-
(2001)
Mol Cell
, vol.8
, pp. 937
-
-
Garvic, C.W.1
Wblberger, C.2
-
2
-
-
0029163078
-
Structure and function of dna methyltransferases
-
Cheng X. Structure and function of DNA methyltransferases. Annu Rev Biophys Biomol Struct 1995; 24:293.
-
(1995)
Annu Rev Biophys Biomol Struct
, vol.24
, pp. 293
-
-
Cheng, X.1
-
3
-
-
0035883736
-
Adomet-dependent méthylation, dna methyltransferases and base flipping
-
Cheng X, Roberts RJ. AdoMet-dependent méthylation, DNA methyltransferases and base flipping. Nucleic Acids Res 2001; 29:3784.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 3784
-
-
Cheng, X.1
Roberts, R.J.2
-
4
-
-
0037007175
-
Beyond watson and crick: Dna méthylation and molecular enzymology of dna methyltransferases
-
Jeltsch A. Beyond Watson and Crick: DNA méthylation and molecular enzymology of DNA methyltransferases. Chembiochem 2002; 3:274.
-
(2002)
Chembiochem
, vol.3
, pp. 274
-
-
Jeltsch, A.1
-
5
-
-
4444369924
-
Aminoacyl-trna synthetase complexes: Beyond translation
-
Lee SW, Cho BH, Park SG et al. Aminoacyl-tRNA synthetase complexes: beyond translation. J Cell Sci 2004; 117:3725.
-
(2004)
J Cell Sci
, vol.117
, pp. 3725
-
-
Lee, S.W.1
Cho, B.H.2
Park, S.G.3
-
6
-
-
0030787013
-
What structural features determine repair enzyme specificity and mechanism in chemically modified dna?
-
Singer B, Hang B. What structural features determine repair enzyme specificity and mechanism in chemically modified DNA? Chem Res Toxicol 1997; 10:713.
-
(1997)
Chem Res Toxicol
, vol.10
, pp. 713
-
-
Singer, B.1
Hang, B.2
-
7
-
-
0035883723
-
Structure and function of type ii restriction endonucleases
-
Pingoud A, Jeltsch A. Structure and function of type II restriction endonucleases. Nucleic Acids Res2001; 29:3705.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 3705
-
-
Pingoud, A.1
Jeltsch, A.2
-
8
-
-
0000127073
-
Sequence-specific recognition of double helical nucleic acids by proteins
-
Seeman NC, Rosenberg JM, Rich A. Sequence-specific recognition of double helical nucleic acids by proteins. Proc Natl Acad Sci USA 1976; 73:804.
-
(1976)
Proc Natl Acad Sci USA
, vol.73
, pp. 804
-
-
Seeman, N.C.1
Rosenberg, J.M.2
Rich, A.3
-
9
-
-
0034923498
-
Design and selection of novel cys2his2 zinc finger proteins
-
Pabo CO, Peisach E, Grant RA. Design and selection of novel Cys2His2 zinc finger proteins. Annu Rev Biochem 2001; 70:313.
-
(2001)
Annu Rev Biochem
, vol.70
, pp. 313
-
-
Pabo, C.O.1
Peisach, E.2
Grant, R.A.3
-
10
-
-
14244254584
-
Specificity changes in the evolution of type ii restriction endonucleases: A biochemical and bioinformatic analysis of restriction enzymes that recognize unrelated sequences
-
Pingoud V, Sudina A, Geyer H et al Specificity changes in the evolution of type II restriction endonucleases: a biochemical and bioinformatic analysis of restriction enzymes that recognize unrelated sequences. J Biol Chem 2005; 280:4289.
-
(2005)
J Biol Chem
, vol.280
, pp. 4289
-
-
Pingoud, V.1
Sudina, A.2
Geyer, H.3
-
11
-
-
41149161800
-
Identification of gatc- and ccgg-recognizing type ii reascs and their putative specificity-determining positions using scan2s—a novel motif scan algorithm with optional secondary structure constraints
-
Niv MY, Skrabanek L, Roberts RJ et al. Identification of GATC- and CCGG-recognizing Type II REascs and their putative specificity-determining positions using Scan2S—a novel motif scan algorithm with optional secondary structure constraints. Proteins 2008; 71:631.
-
(2008)
Proteins
, vol.71
, pp. 631
-
-
Niv, M.Y.1
Skrabanek, L.2
Roberts, R.J.3
-
12
-
-
14944374615
-
-
Pingoud A, ed., Heidelberg: Springer-Verlag
-
Jeltsch A. Urbanke C. In: Pingoud A, ed. Restriction Endonucleases, VoL 14. Heidelberg: Springer-Verlag, 2004:95.
-
(2004)
Restriction Endonucleases
, vol.14
, pp. 95
-
-
Jeltsch, A.1
Urbanke, C.2
-
13
-
-
0028782732
-
Pausing of the restriction endonuclease ecori during linear diffusion on dna
-
Jeltsch A, Alves J, Wolfes H et al Pausing of the restriction endonuclease EcoRI during linear diffusion on DNA. Biochemistry 1994; 33:10215.
-
(1994)
Biochemistry
, vol.33
, pp. 10215
-
-
Jeltsch, A.1
Alves, J.2
Wolfes, H.3
-
14
-
-
0032562139
-
Kinetic characterization of linear diffusion of the restriction endonuclease ecorv on dna
-
Jeltsch A, Pingoud A, Kinetic characterization of linear diffusion of the restriction endonuclease EcoRV on DNA. Biochemistry 1998; 37:2160.
-
(1998)
Biochemistry
, vol.37
, pp. 2160
-
-
Jeltsch, A.1
Pingoud, A.2
-
15
-
-
3042579602
-
How do site-specific dna-binding proteins find their targets?
-
Halford SE, Marko JE How do site-specific DNA-binding proteins find their targets? Nucleic Acids Res 2004; 32:3040.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 3040
-
-
Halford, S.E.1
Marko, J.E.2
-
16
-
-
34249932435
-
Probing transcription factor dynamics at the single-molecule level in a living cell
-
Elf J, Li GW, Xie XS. Probing transcription factor dynamics at the single-molecule level in a living cell. Science 2007; 316:1191.
-
(2007)
Science
, vol.316
, pp. 1191
-
-
Elf, J.1
Li, G.W.2
Xie, X.S.3
-
17
-
-
0036300777
-
The escherichia coli dam dna methyltransferase modifies dna in a highly processive reaction
-
Urig S, Gowher H, Hermann A et al The Escherichia coli dam DNA methyltransferase modifies DNA in a highly processive reaction. J Mol Biol 2002; 319:1085.
-
(2002)
J Mol Biol
, vol.319
, pp. 1085
-
-
Urig, S.1
Gowher, H.2
Hermann, A.3
-
18
-
-
0037424523
-
Bacteriophage t4 dam dna-(N6-adenine)-methyl-transferase. processivity and orientation to the méthylation target
-
Zinoviev W, Evdokimov AA, Malygin EG et al Bacteriophage T4 Dam DNA-(N6-adenine)-methyl-transferase. Processivity and orientation to the méthylation target. J Biol Chem 2003; 278:7829.
-
(2003)
J Biol Chem
, vol.278
, pp. 7829
-
-
Zinoviev, W.1
Evdokimov, A.A.2
Malygin, E.G.3
-
19
-
-
0024373679
-
Dna conformation and protein binding
-
Travers AA. DNA conformation and protein binding. Annu Rev Biochem 1989; 58:427.
-
(1989)
Annu Rev Biochem
, vol.58
, pp. 427
-
-
Travers, A.A.1
-
20
-
-
0026511656
-
The folding of an enzyme. I. theory of protein engineering analysis of stability and pathway of protein folding
-
Fersht AR, Matouschek A, Serrano L. The folding of an enzyme. I. Theory of protein engineering analysis of stability and pathway of protein folding. J Mol Biol 1992; 224:771.
-
(1992)
J Mol Biol
, vol.224
, pp. 771
-
-
Fersht, A.R.1
Matouschek, A.2
Serrano, L.3
-
21
-
-
4143112208
-
Bacteriophage t2dam and t4dam dna-[n6-adenine]-methyltransferases
-
Hattman S, Malygin EG. Bacteriophage T2Dam and T4Dam DNA-[N6-adenine]-methyltransferases. Prog Nucleic Acid Res Mol Biol 2004; 77:67.
-
(2004)
Prog Nucleic Acid Res Mol Biol
, vol.77
, pp. 67
-
-
Hattman, S.1
Malygin, E.G.2
-
22
-
-
0141507036
-
Structure of the bacteriophage t4 dna adenine methyltransferase
-
Yang Z, Horton JR, Zhou L et al Structure of the bacteriophage T4 DNA adenine methyltransferase. Nat Struct Biol 2003; 10:849.
-
(2003)
Nat Struct Biol
, vol.10
, pp. 849
-
-
Yang, Z.1
Horton, J.R.2
Zhou, L.3
-
23
-
-
0023649944
-
The gatatc-modification enzyme ecorv is closely related to the gatc-recognizing methyltransferases dpnii and dam from
-
Lauster R, Kriebardis A, Guschlbauer W. The GATATC-modification enzyme EcoRV is closely related to the GATC-recognizing methyltransferases DpnII and dam from E. coli and phage T4. FEBS Lett1987; 220:167.
-
(1987)
E. Coli and Phage T4. FEBS Lett
, vol.220
, pp. 167
-
-
Lauster, R.1
Kriebardis, A.2
Guschlbauer, W.3
-
24
-
-
0024216392
-
The dna and s-adenosylmethionine-binding regions of ecodam and related methyltransferases
-
Guschlbauer W. The DNA and S-adenosylmethionine-binding regions of EcoDam and related methyltransferases. Gene 1988; 74:211.
-
(1988)
Gene
, vol.74
, pp. 211
-
-
Guschlbauer, W.1
-
25
-
-
18844448011
-
Transition from nonspecific to specific dna interactions along the substrate-recognition pathway of dam methyltransferase
-
Horton JR, Liebert K, Hattman S et al Transition from nonspecific to specific DNA interactions along the substrate-recognition pathway of dam methyltransferase. Cell 2005; 121:349.
-
(2005)
Cell
, vol.121
, pp. 349
-
-
Horton, J.R.1
Liebert, K.2
Hattman, S.3
-
26
-
-
0028010888
-
Hhal methyltransferase flips its target base out of the dna helix
-
Klimasauskas S, Kumar S, Roberts RJ et al. Hhal methyltransferase flips its target base out of the DNA helix. Cell 1994; 76:357.
-
(1994)
Cell
, vol.76
, pp. 357
-
-
Klimasauskas, S.1
Kumar, S.2
Roberts, R.J.3
-
27
-
-
0032538337
-
Crystal structure of a human alkylbase-dna repair enzyme complcxcd to dna: Mechanisms for nucleotide flipping and base excision
-
Lau AY, Scharer OD, Samson L et al. Crystal structure of a human alkylbase-DNA repair enzyme complcxcd to DNA: mechanisms for nucleotide flipping and base excision. Cell 1998; 95:249.
-
(1998)
Cell
, vol.95
, pp. 249
-
-
Lau, A.Y.1
Scharer, O.D.2
Samson, L.3
-
28
-
-
0034708226
-
Structural basis for recognition and repair of the endogenous mutagen 8-oxoguaninc in dna
-
Bruner SD, Norman DP, Verdine GL. Structural basis for recognition and repair of the endogenous mutagen 8-oxoguaninc in DNA. Nature 2000; 403:859.
-
(2000)
Nature
, vol.403
, pp. 859
-
-
Bruner, S.D.1
Norman, D.P.2
Verdine, G.L.3
-
29
-
-
0029068629
-
The crystal structure of flaelll methyltransferase convalendy complcxed to dna: An extrahelical cytosine and rearranged base pairing
-
Reinisch KM, Chen L, Verdine GL et al The crystal structure of Flaelll methyltransferase convalendy complcxed to DNA: an extrahelical cytosine and rearranged base pairing. Cell 1995; 82:143.
-
(1995)
Cell
, vol.82
, pp. 143
-
-
Reinisch, K.M.1
Chen, L.2
Verdine, G.L.3
-
30
-
-
0033544707
-
Recognition of a tg mismatch: The crystal structure of very short patch repair endonuclease in complex with a dna duplex
-
Tsutakawa SE, Jingami H, Morikawa K. Recognition of a TG mismatch: the crystal structure of very short patch repair endonuclease in complex with a DNA duplex. Cell 1999; 99:615.
-
(1999)
Cell
, vol.99
, pp. 615
-
-
Tsutakawa, S.E.1
Jingami, H.2
Morikawa, K.3
-
31
-
-
0036143789
-
Sequence selectivity and degeneracy of a restriction endonuclease mediated by dna intercalation
-
Horton NC, Domer LF and Pcrona JJ. Sequence selectivity and degeneracy of a restriction endonuclease mediated by DNA intercalation. Nat Struct Biol 2002; 9:42.
-
(2002)
Nat Struct Biol
, vol.9
, pp. 42
-
-
Horton, N.C.1
Domer, L.F.2
Pcrona, J.J.3
-
32
-
-
0037124320
-
Crystal structure of the lactococcus lactis formamidopyrim-idinc-dna glycosylase bound to an abasic site analogue-containing dna
-
Serre L, Pereira de Jesus K, Boiteux S et al. Crystal structure of the Lactococcus lactis formamidopyrim-idinc-DNA glycosylase bound to an abasic site analogue-containing DNA. EMBO J 2002; 21:2854.
-
(2002)
EMBO J
, vol.21
, pp. 2854
-
-
Serre, L.1
Pereira De Jesus, K.2
Boiteux, S.3
-
33
-
-
0024459035
-
Single amino acid changes that alter the dna sequence specificity of the dna-[n6-adenine] methyltransferase (Dam) of bacteriophage t4
-
Miner Z, Schlagman SL, Hattman S. Single amino acid changes that alter the DNA sequence specificity of the DNA-[N6-adenine] methyltransferase (Dam) of bacteriophage T4. Nucleic Acids Res 1989; 17:8149.
-
(1989)
Nucleic Acids Res
, vol.17
, pp. 8149
-
-
Miner, Z.1
Schlagman, S.L.2
Hattman, S.3
-
34
-
-
33646088737
-
Structure and substrate recognition of the escherichia coli dna adenine methyltransferase
-
Horton JR, Liebert K, Bekes M et al Structure and substrate recognition of the Escherichia coli DNA adenine methyltransferase. J Mol Biol 2006; 358:559.
-
(2006)
J Mol Biol
, vol.358
, pp. 559
-
-
Horton, J.R.1
Liebert, K.2
Bekes, M.3
-
35
-
-
0032473571
-
Structural basis for muth activation in e.Coli mismatch repair and relationship of muth to restriction endonucleases
-
Ban C, Yang W. Structural basis for MutH activation in E.coli mismatch repair and relationship of MutH to restriction endonucleases. EMBO J 1998; 17:1526.
-
(1998)
EMBO J
, vol.17
, pp. 1526
-
-
Ban, C.1
Yang, W.2
-
36
-
-
3343009003
-
Stopped-flow and mutational analysis of base flipping by the escherichia coli dam dna-(Adenine-n6)-methyltransferase
-
Liebert K, Hermann A, Schlickenricder M et al. Stopped-flow and mutational analysis of base flipping by the Escherichia coli Dam DNA-(adenine-N6)-methyltransferase. J Mol Biol 2004; 341:443.
-
(2004)
J Mol Biol
, vol.341
, pp. 443
-
-
Liebert, K.1
Hermann, A.2
Schlickenricder, M.3
-
37
-
-
0032006084
-
The flavobacterium okeanokoites adenine-n6-speciflc dna-methyltransferase m.Foki is a tandem enzyme of two independent domains with very different kinetic properties
-
Leismann O, Roth M, Friedrich T et al. The Flavobacterium okeanokoites adenine-N6-speciflc DNA-methyltransferase M.FokI is a tandem enzyme of two independent domains with very different kinetic properties. Eur J Biochem 1998; 251:899.
-
(1998)
Eur J Biochem
, vol.251
, pp. 899
-
-
Leismann, O.1
Roth, M.2
Friedrich, T.3
-
38
-
-
0034648019
-
Specificity of dna binding and méthylation by the m.Foki dna methyltransferase
-
Friedrich T, Fatemi M, Gowhar H et al Specificity of DNA binding and méthylation by the M.FokI DNA methyltransferase. Biochim Biophys Acta 2000; 1480:145.
-
(2000)
Biochim Biophys Acta
, vol.1480
, pp. 145
-
-
Friedrich, T.1
Fatemi, M.2
Gowhar, H.3
-
39
-
-
0024284344
-
The cloning, purification and characterization of the eco rv modification methylase
-
Nwosu VU, Connolly BA, Halford SE et al The cloning, purification and characterization of the Eco RV modification methylase. Nucleic Acids Res 1988; 16:3705.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 3705
-
-
Nwosu, V.U.1
Connolly, B.A.2
Halford, S.E.3
-
40
-
-
0032504248
-
Functional roles of conserved amino acid residues in dna methyltransferases investigated by site-directed mutagenesis of the ecorv adcnine-n6-mcthyltransferase
-
Roth M, Helm-Kruse S, Friedrich T et al. Functional roles of conserved amino acid residues in DNA methyltransferases investigated by site-directed mutagenesis of the EcoRV adcnine-N6-mcthyltransferase. J Biol Chem 1998; 273:17333.
-
(1998)
J Biol Chem
, vol.273
, pp. 17333
-
-
Roth, M.1
Helm-Kruse, S.2
Friedrich, T.3
-
41
-
-
0035909057
-
How does a dna interacting enzyme change its specificity during molecular evolution? A site-directed mutagenesis study at the dna binding site of the dna-(adenine-n6)-methyltransferase ecorv
-
Beck C, Cranz S, Solmaz M et al. How does a DNA interacting enzyme change its specificity during molecular evolution? A site-directed mutagenesis study at the DNA binding site of the DNA-(adenine-N6)-methyltransferase EcoRV. Biochemistry 2001; 40:10956.
-
(2001)
Biochemistry
, vol.40
, pp. 10956
-
-
Beck, C.1
Cranz, S.2
Solmaz, M.3
-
42
-
-
0037016053
-
Probing the dna interface of the ecorv dna-(Adeninc-n6)-mcthyltransferase by site-directed mutagenesis, fluorescence spectroscopy and uv cross-linking
-
Beck C, Jeltsch A. Probing the DNA interface of the EcoRV DNA-(adeninc-N6)-mcthyltransferase by site-directed mutagenesis, fluorescence spectroscopy and UV cross-linking. Biochemistry 2002; 41:14103.
-
(2002)
Biochemistry
, vol.41
, pp. 14103
-
-
Beck, C.1
Jeltsch, A.2
-
43
-
-
37549014569
-
The m.Ecorv dna-(adenine n6)-methyltransferase uses dna bending for recognition of an expanded ecodam recognition site
-
Jurkowski TP, Anspach N, Kulishova L et al. The M.EcoRV DNA-(adenine N6)-methyltransferase uses DNA bending for recognition of an expanded EcoDam recognition site. J Biol Chem 2007; 282:36942.
-
(2007)
J Biol Chem
, vol.282
, pp. 36942
-
-
Jurkowski, T.P.1
Anspach, N.2
Kulishova, L.3
-
44
-
-
0030059614
-
The ecorv modification methylase causes considerable bending of dna upon binding to its recognition sequence gatatc
-
Cal S, Connolly BA. The EcoRV modification methylase causes considerable bending of DNA upon binding to its recognition sequence GATATC. J Biol Chem 1996; 271:1008.
-
(1996)
J Biol Chem
, vol.271
, pp. 1008
-
-
Cal, S.1
Connolly, B.A.2
-
45
-
-
0027159254
-
The crystal structure of ecorv endonuclease and of its complexes with cognate and noncognate dna fragments
-
Winkler FK, Banner DW, Oefner C et al. The crystal structure of EcoRV endonuclease and of its complexes with cognate and noncognate DNA fragments. EMBO J 1993; 12:1781.
-
(1993)
EMBO J
, vol.12
, pp. 1781
-
-
Winkler, F.K.1
Banner, D.W.2
Oefner, C.3
-
46
-
-
33646813662
-
Nucleotide flips determine the specificity of the ecll81d restriction endonuclease
-
Bochtler M, Szczepanowski RH, Tamulaitis G et al Nucleotide flips determine the specificity of the Ecll81d restriction endonuclease. EMBO J 2006; 25:2219
-
(2006)
EMBO J
, vol.25
, pp. 2219
-
-
Bochtler, M.1
Szczepanowski, R.H.2
Tamulaitis, G.3
-
47
-
-
18944385960
-
Implications for switching restriction enzyme specificities from the structure of bstyi bound to a bglll dna sequence
-
Townson SA, Samuelson JC, Xu SY et al. Implications for switching restriction enzyme specificities from the structure of BstYI bound to a Bglll DNA sequence. Structure 2005; 13:791.
-
(2005)
Structure
, vol.13
, pp. 791
-
-
Townson, S.A.1
Samuelson, J.C.2
Xu, S.Y.3
-
48
-
-
3142657230
-
Structure and flexibility adaptation in nonspecific and specific protein-dna complexes
-
Kalodimos CG, Bins N, Bonvin AM et al. Structure and flexibility adaptation in nonspecific and specific protein-DNA complexes. Science 2004; 305:386.
-
(2004)
Science
, vol.305
, pp. 386
-
-
Kalodimos, C.G.1
Bins, N.2
Bonvin, A.M.3
-
49
-
-
34547929793
-
Two alternative conformations of s-adenosyl-l-homocysteinc bound to escherichia coli dna adenine methyltransfèrase and the implication of conformational changes in regulating the catalytic cycle
-
Liebert K, Horton JR, Chahar S et al. Two alternative conformations of S-adenosyl-L-homocysteinc bound to Escherichia coli DNA adenine methyltransfèrase and the implication of conformational changes in regulating the catalytic cycle. J Biol Chem 2007; 282:22848.
-
(2007)
J Biol Chem
, vol.282
, pp. 22848
-
-
Liebert, K.1
Horton, J.R.2
Chahar, S.3
|