-
1
-
-
0036628726
-
Biological consequences of free radical-damaged DNA bases
-
DOI 10.1016/S0891-5849(02)00827-4, PII S0891584902008274
-
Wallace, S.S. (2002) Biological consequences of free radical-damaged DNA bases. Free Radic. Biol. Med., 33, 1-14. (Pubitemid 34681001)
-
(2002)
Free Radical Biology and Medicine
, vol.33
, Issue.1
, pp. 1-14
-
-
Wallace, S.S.1
-
3
-
-
10044268741
-
Base excision repair
-
DOI 10.1016/S0065-3233(04)69001-2, PII S0065323304690012, DNA Repair and Replication
-
Fromme, J.C. and Verdine, G.L. (2004) Base excision repair. Adv. Protein Chem., 69, 1-41. (Pubitemid 39600955)
-
(2004)
Advances in Protein Chemistry
, vol.69
, pp. 1-41
-
-
Fromme, J.C.1
Verdine, G.L.2
-
4
-
-
0004228157
-
-
2nd edn. American Society for Microbiology, Washington, DC
-
Friedberg, E.C., Walker, G.C., Siede, W., Wood, R.D., Schultz, R.A. and Ellenberger, T. (eds), (2006) DNA Repair and Mutagenesis, 2nd edn. American Society for Microbiology, Washington, DC.
-
(2006)
DNA Repair and Mutagenesis
-
-
Friedberg, E.C.1
Walker, G.C.2
Siede, W.3
Wood, R.D.4
Schultz, R.A.5
Ellenberger, T.6
-
5
-
-
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
-
6
-
-
0024531901
-
Facilitated target location in biological systems
-
von Hippel, P.H. and Berg, O.G. (1989) Facilitated target location in biological systems. J. Biol. Chem., 264, 675-678. (Pubitemid 19038039)
-
(1989)
Journal of Biological Chemistry
, vol.264
, Issue.2
, pp. 675-678
-
-
Von Hippel, P.H.1
Berg, O.G.2
-
7
-
-
0014945567
-
The lac repressoroperator interaction. 3. Kinetic studies
-
Riggs, A.D., Bourgeois, S. and Cohn, M. (1970) The lac repressoroperator interaction. 3. Kinetic studies. J. Mol. Biol., 53, 401-417.
-
(1970)
J. Mol. Biol.
, vol.53
, pp. 401-417
-
-
Riggs, A.D.1
Bourgeois, S.2
Cohn, M.3
-
8
-
-
24044492241
-
The DNA trackwalkers: Principles of lesion search and recognition by DNA glycosylases
-
DOI 10.1016/j.mrfmmm.2005.03.011, PII S0027510705001703
-
Zharkov, D.O. and Grollman, A.P. (2005) The DNA trackwalkers: principles of lesion search and recognition by DNA glycosylases. Mutat Res., 577, 24-54. (Pubitemid 41225488)
-
(2005)
Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis
, vol.577
, Issue.SPEC. ISS.
, pp. 24-54
-
-
Zharkov, D.O.1
Grollman, A.P.2
-
9
-
-
33645807371
-
A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA
-
Blainey, P.C., van Oijen, A.M., Banerjee, A., Verdine, G.L. and Xie, X.S. (2006) A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA. Proc. Natl Acad. Sci. USA, 103, 5752-5757.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 5752-5757
-
-
Blainey, P.C.1
Van Oijen, A.M.2
Banerjee, A.3
Verdine, G.L.4
Xie, X.S.5
-
10
-
-
71449094444
-
Nonspecifically bound proteins spin while diffusing along DNA
-
Blainey, P.C., Luo, G., Kou, S.C., Mangel, W.F., Verdine, G.L., Bagchi, B. and Xie, X.S. (2009) Nonspecifically bound proteins spin while diffusing along DNA. Nat. Struct. Mol. Biol., 16, 1224-1229.
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 1224-1229
-
-
Blainey, P.C.1
Luo, G.2
Kou, S.C.3
Mangel, W.F.4
Verdine, G.L.5
Bagchi, B.6
Xie, X.S.7
-
11
-
-
0026499118
-
Atomic structure of the DNA repair [4Fe-4S] enzyme endonuclease III
-
Kuo, C.F., McRee, D.E., Fisher, C.L., O'Handley, S.F., Cunningham, R.P. and Tainer, J.A. (1992) Atomic structure of the DNA repair [4Fe-4S] enzyme endonuclease III. Science, 258, 434-440.
-
(1992)
Science
, vol.258
, pp. 434-440
-
-
Kuo, C.F.1
McRee, D.E.2
Fisher, C.L.3
O'Handley, S.F.4
Cunningham, R.P.5
Tainer, J.A.6
-
12
-
-
0037925462
-
Structure of a trapped endonuclease III-DNA covalent intermediate
-
DOI 10.1093/emboj/cdg311
-
Fromme, J.C. and Verdine, G.L. (2003) Structure of a trapped endonuclease III-DNA covalent intermediate. EMBO J., 22, 3461-3471. (Pubitemid 36834876)
-
(2003)
EMBO Journal
, vol.22
, Issue.13
, pp. 3461-3471
-
-
Fromme, J.C.1
Verdine, G.L.2
-
13
-
-
0029119097
-
Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structure
-
Thayer, M.M., Ahern, H., Xing, D., Cunningham, R.P. and Tainer, J.A. (1995) Novel DNA binding motifs in the DNA repair enzyme endonuclease III crystal structure. EMBO J., 14, 4108-4120.
-
(1995)
EMBO J.
, vol.14
, pp. 4108-4120
-
-
Thayer, M.M.1
Ahern, H.2
Xing, D.3
Cunningham, R.P.4
Tainer, J.A.5
-
14
-
-
0017326701
-
Studies on Escherichia coli X ray endonuclease specificity. Roles of hydroxyl and reducing radicals in the production of DNA lesions
-
Armel, P.R., Strniste, G.F. and Wallace, S.S. (1977) Studies on Escherichia coli X-ray endonuclease specificity. Roles of hydroxyl and reducing radicals in the production of DNA lesions. Radiat Res., 69, 328-338. (Pubitemid 8053730)
-
(1977)
Radiation Research
, vol.69
, Issue.2
, pp. 328-338
-
-
Armel, P.R.1
Strniste, G.F.2
Wallace, S.S.3
-
15
-
-
0017381612
-
Endonuclease from Escherichia coli that acts specifically upon duplex DNA damaged by ultraviolet light, osmium tetroxide, acid, or X rays
-
Gates, F.T. and Linn, S. (1977) Endonuclease from Escherichia coli that acts specifically upon duplex DNA damaged by ultraviolet light, osmium tetroxide, acid, or X-rays. J. Biol. Chem., 252, 2802-2807. (Pubitemid 8096434)
-
(1977)
Journal of Biological Chemistry
, vol.252
, Issue.9
, pp. 2802-2807
-
-
Gates III, F.T.1
Linn, S.2
-
16
-
-
0021106244
-
Characterization of the Escherichia coli X-ray endonuclease, endonuclease III
-
Katcher, H.L. and Wallace, S.S. (1983) Characterization of the Escherichia coli X-ray endonuclease, endonuclease III. Biochemistry, 22, 4071-4081.
-
(1983)
Biochemistry
, vol.22
, pp. 4071-4081
-
-
Katcher, H.L.1
Wallace, S.S.2
-
17
-
-
0037205477
-
Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNA
-
DOI 10.1074/jbc.M202058200
-
Gilboa, R., Zharkov, D.O., Golan, G., Fernandes, A.S., Gerchman, S.E., Matz, E., Kycia, J.H., Grollman, A.P. and Shoham, G. (2002) Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNA. J. Biol. Chem., 277, 19811-19816. (Pubitemid 34967498)
-
(2002)
Journal of Biological Chemistry
, vol.277
, Issue.22
, pp. 19811-19816
-
-
Gilboa, R.1
Zharkov, D.O.2
Golan, G.3
Fernandes, A.S.4
Gerchman, S.E.5
Matz, E.6
Kycia, J.H.7
Grollman, A.P.8
Shoham, G.9
-
18
-
-
0037124320
-
Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA
-
DOI 10.1093/emboj/cdf304
-
Serre, L., Pereira de Jesus, K., Boiteux, S., Zelwer, C. and Castaing, B. (2002) Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA. EMBO J., 21, 2854-2865. (Pubitemid 34670370)
-
(2002)
EMBO Journal
, vol.21
, Issue.12
, pp. 2854-2865
-
-
Serre, L.1
De Jesus, K.P.2
Boiteux, S.3
Zelwer, C.4
Castaing, B.5
-
19
-
-
0034254724
-
Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermos thermophilus HB8
-
Sugahara, M., Mikawa, T., Kumasaka, T., Yamamoto, M., Kato, R., Fukuyama, K., Inoue, Y. and Kuramitsu, S. (2000) Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8. EMBO J., 19, 3857-3869. (Pubitemid 30608526)
-
(2000)
EMBO Journal
, vol.19
, Issue.15
, pp. 3857-3869
-
-
Sugahara, M.1
Mikawa, T.2
Kumasaka, T.3
Yamamoto, M.4
Kato, R.5
Fukuyama, K.6
Inoue, Y.7
Kuramitsu, S.8
-
20
-
-
0037084112
-
Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate
-
DOI 10.1093/emboj/21.4.789
-
Zharkov, D.O., Golan, G., Gilboa, R., Fernandes, A.S., Gerchman, S.E., Kycia, J.H., Rieger, R.A., Grollman, A.P. and Shoham, G. (2002) Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate. EMBO J., 21, 789-800. (Pubitemid 34174059)
-
(2002)
EMBO Journal
, vol.21
, Issue.4
, pp. 789-800
-
-
Zharkov, D.O.1
Golan, G.2
Gilboa, R.3
Fernandes, A.S.4
Gerchman, S.E.5
Kycia, J.H.6
Rieger, R.A.7
Grollman, A.P.8
Shoham, G.9
-
21
-
-
0021769936
-
Enzymatic excision from gamma-irradiated polydeoxyribonucleotides of adenine residues whose imidazole rings have been ruptured
-
Breimer, L.H. (1984) Enzymatic excision from gamma-irradiated polydeoxyribonucleotides of adenine residues whose imidazole rings have been ruptured. Nucleic Acids Res., 12, 6359-6367.
-
(1984)
Nucleic Acids Res.
, vol.12
, pp. 6359-6367
-
-
Breimer, L.H.1
-
22
-
-
0018387063
-
Release of 7-methylguanine residues whose imidazole rings have been opened from damaged DNA by a DNA glycosylase from Escherichia coli
-
Chetsanga, C.J. and Lindahl, T. (1979) Release of 7-methylguanine residues whose imidazole rings have been opened from damaged DNA by a DNA glycosylase from Escherichia coli. Nucleic Acids Res., 6, 3673-3684. (Pubitemid 9237430)
-
(1979)
Nucleic Acids Research
, vol.6
, Issue.11
, pp. 3673-3684
-
-
Chetsanga, C.J.1
Lindahl, T.2
-
23
-
-
0026025356
-
An endonuclease activity of Escherichia coli that specifically removes 8-hydroxyguanine residues from DNA
-
Chung, M.H., Kasai, H., Jones, D.S., Inoue, H., Ishikawa, H., Ohtsuka, E. and Nishimura, S. (1991) An endonuclease activity of Escherichia coli that specifically removes 8-hydroxyguanine residues from DNA. Mutat Res., 254, 1-12.
-
(1991)
Mutat Res.
, vol.254
, pp. 1-12
-
-
Chung, M.H.1
Kasai, H.2
Jones, D.S.3
Inoue, H.4
Ishikawa, H.5
Ohtsuka, E.6
Nishimura, S.7
-
24
-
-
0025774845
-
8-Oxoguanine (8-hydroxyguanine) DNA glycosylase and its substrate specificity
-
Tchou, J., Kasai, H., Shibutani, S., Chung, M.H., Laval, J., Grollman, A.P. and Nishimura, S. (1991) 8-oxoguanine (8-hydroxyguanine) DNA glycosylase and its substrate specificity. Proc. Natl Acad. Sci. USA, 88, 4690-4694. (Pubitemid 21914607)
-
(1991)
Proceedings of the National Academy of Sciences of the United States of America
, vol.88
, Issue.11
, pp. 4690-4694
-
-
Tchou, J.1
Kasai, H.2
Shibutani, S.3
Chung, M.-H.4
Laval, J.5
Grollman, A.P.6
Nishimura, S.7
-
25
-
-
0028295382
-
Isolation and characterization of endonuclease VIII from Escherichia coli
-
Melamede, R.J., Hatahet, Z., Kow, Y.W., Ide, H. and Wallace, S.S. (1994) Isolation and characterization of endonuclease VIII from Escherichia coli. Biochemistry, 33, 1255-1264. (Pubitemid 24072458)
-
(1994)
Biochemistry
, vol.33
, Issue.5
, pp. 1255-1264
-
-
Melamede, R.J.1
Hatahet, Z.2
Kow, Y.W.3
Ide, H.4
Wallace, S.S.5
-
26
-
-
0031449806
-
Characterization of Escherichia coli endonuclease VIII
-
DOI 10.1074/jbc.272.51.32230
-
Jiang, D., Hatahet, Z., Melamede, R.J., Kow, Y.W. and Wallace, S.S. (1997) Characterization of Escherichia coli endonuclease VIII. J. Biol. Chem., 272, 32230-32239. (Pubitemid 28011900)
-
(1997)
Journal of Biological Chemistry
, vol.272
, Issue.51
, pp. 32230-32239
-
-
Jiang, D.1
Hatahet, Z.2
Melamede, R.J.3
Kow, Y.W.4
Wallace, S.S.5
-
27
-
-
0035339684
-
Repair of hydantoins, one electron oxidation product of 8-oxoguanine, by DNA glycosylases of Escherichia coli
-
Hazra, T.K., Muller, J.G., Manuel, R.C., Burrows, C.J., Lloyd, R.S. and Mitra, S. (2001) Repair of hydantoins, one electron oxidation product of 8-oxoguanine, by DNA glycosylases of Escherichia coli. Nucleic Acids Res., 29, 1967-1974. (Pubitemid 32433282)
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.9
, pp. 1967-1974
-
-
Hazra, T.K.1
Muller, J.G.2
Manuel, R.C.3
Burrows, C.J.4
Lloyd, R.S.5
Mitra, S.6
-
28
-
-
0034610403
-
Removal of hydantoin products of 8-oxoguanine oxidation by the Escherichia coli DNA repair enzyme, FPG
-
Leipold, M.D., Muller, J.G., Burrows, C.J. and David, S.S. (2000) Removal of hydantoin products of 8-oxoguanine oxidation by the Escherichia coli DNA repair enzyme, FPG. Biochemistry, 39, 14984-14992.
-
(2000)
Biochemistry
, vol.39
, pp. 14984-14992
-
-
Leipold, M.D.1
Muller, J.G.2
Burrows, C.J.3
David, S.S.4
-
29
-
-
77955562545
-
Structural dynamics in DNA damage signaling and repair
-
Perry, J.J., Cotner-Gohara, E., Ellenberger, T. and Tainer, J.A. (2010) Structural dynamics in DNA damage signaling and repair. Curr. Opin. Struct. Biol., 20, 283-294.
-
(2010)
Curr. Opin. Struct. Biol.
, vol.20
, pp. 283-294
-
-
Perry, J.J.1
Cotner-Gohara, E.2
Ellenberger, T.3
Tainer, J.A.4
-
30
-
-
33847673237
-
The intricate structural chemistry of base excision repair machinery: Implications for DNA damage recognition, removal, and repair
-
DOI 10.1016/j.dnarep.2006.10.004, PII S1568786406003144, Repair of small base lesions in DNA-from molecular biology to phenotype
-
Hitomi, K., Iwai, S. and Tainer, J.A. (2007) The intricate structural chemistry of base excision repair machinery: implications for DNA damage recognition, removal, and repair. DNA Repair, 6, 410-428. (Pubitemid 46357681)
-
(2007)
DNA Repair
, vol.6
, Issue.4
, pp. 410-428
-
-
Hitomi, K.1
Iwai, S.2
Tainer, J.A.3
-
31
-
-
38049110204
-
Structure and mechanism for DNA lesion recognition
-
Yang, W. (2008) Structure and mechanism for DNA lesion recognition. Cell Res., 18, 184-197.
-
(2008)
Cell Res.
, vol.18
, pp. 184-197
-
-
Yang, W.1
-
32
-
-
24044460415
-
DNA base damage recognition and removal: New twists and grooves
-
DOI 10.1016/j.mrfmmm.2005.03.012, PII S0027510705001715
-
Huffman, J.L., Sundheim, O. and Tainer, J.A. (2005) DNA base damage recognition and removal: new twists and grooves. Mutat Res., 577, 55-76. (Pubitemid 41225489)
-
(2005)
Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis
, vol.577
, Issue.SPEC. ISS.
, pp. 55-76
-
-
Huffman, J.L.1
Sundheim, O.2
Tainer, J.A.3
-
33
-
-
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
-
34
-
-
33644511436
-
Structure of a DNA glycosylase searching for lesions
-
Banerjee, A., Santos, W.L. and Verdine, G.L. (2006) Structure of a DNA glycosylase searching for lesions. Science, 311, 1153-1157.
-
(2006)
Science
, vol.311
, pp. 1153-1157
-
-
Banerjee, A.1
Santos, W.L.2
Verdine, G.L.3
-
35
-
-
74049108184
-
Entrapment and structure of an extrahelical guanine attempting to enter the active site of a bacterial DNA glycosylase, MutM
-
Qi, Y., Spong, M.C., Nam, K., Karplus, M. and Verdine, G.L. (2010) Entrapment and structure of an extrahelical guanine attempting to enter the active site of a bacterial DNA glycosylase, MutM. J. Biol. Chem., 285, 1468-1478.
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 1468-1478
-
-
Qi, Y.1
Spong, M.C.2
Nam, K.3
Karplus, M.4
Verdine, G.L.5
-
36
-
-
33745200736
-
Oxidative DNA glycosylases: Recipes from cloning to characterization
-
Bandaru, V., Blaisdell, J.O. and Wallace, S.S. (2006) Oxidative DNA glycosylases: recipes from cloning to characterization. Methods Enzymol., 408, 15-33.
-
(2006)
Methods Enzymol.
, vol.408
, pp. 15-33
-
-
Bandaru, V.1
Blaisdell, J.O.2
Wallace, S.S.3
-
37
-
-
34247133810
-
Rapid determination of the active fraction of DNA repair glycosylases: A novel fluorescence assay for trapped intermediates
-
DOI 10.1093/nar/gkm021
-
Blaisdell, J.O. and Wallace, S.S. (2007) Rapid determination of the active fraction of DNA repair glycosylases: a novel fluorescence assay for trapped intermediates. Nucleic Acids Res., 35, 1601-1611. (Pubitemid 46592880)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.5
, pp. 1601-1611
-
-
Blaisdell, J.O.1
Wallace, S.S.2
-
38
-
-
63549135744
-
Plant and fungal Fpg homologs are formamidopyrimidine DNA glycosylases but not 8-oxoguanine DNA glycosylases
-
Kathe, S.D., Barrantes-Reynolds, R., Jaruga, P., Newton, M.R., Burrows, C.J., Bandaru, V., Dizdaroglu, M., Bond, J.P. and Wallace, S.S. (2009) Plant and fungal Fpg homologs are formamidopyrimidine DNA glycosylases but not 8-oxoguanine DNA glycosylases. DNA Repair, 8, 643-653.
-
(2009)
DNA Repair
, vol.8
, pp. 643-653
-
-
Kathe, S.D.1
Barrantes-Reynolds, R.2
Jaruga, P.3
Newton, M.R.4
Burrows, C.J.5
Bandaru, V.6
Dizdaroglu, M.7
Bond, J.P.8
Wallace, S.S.9
-
39
-
-
77649264800
-
Collaborative dynamic DNA scanning by nucleotide excision repair proteins investigated by single-molecule imaging of quantum-dot-labeled proteins
-
Kad, N.M., Wang, H., Kennedy, G.G., Warshaw, D.M. and Van Houten, B. (2010) Collaborative dynamic DNA scanning by nucleotide excision repair proteins investigated by single-molecule imaging of quantum-dot-labeled proteins. Mol. Cell, 37, 702-713.
-
(2010)
Mol. Cell
, vol.37
, pp. 702-713
-
-
Kad, N.M.1
Wang, H.2
Kennedy, G.G.3
Warshaw, D.M.4
Van Houten, B.5
-
40
-
-
0025222347
-
Bead movement by single kinesin molecules studied with optical tweezers
-
Block, S.M., Goldstein, L.S. and Schnapp, B.J. (1990) Bead movement by single kinesin molecules studied with optical tweezers. Nature, 348, 348-352. (Pubitemid 120029107)
-
(1990)
Nature
, vol.348
, Issue.6299
, pp. 348-352
-
-
Block, S.M.1
Goldsteint, L.S.B.2
Schnapp, B.J.3
-
41
-
-
26444477373
-
Automatic tracking of individual fluorescence particles: Application to the study of chromosome dynamics
-
DOI 10.1109/TIP.2005.852787
-
Sage, D., Neumann, F.R., Hediger, F., Gasser, S.M. and Unser, M. (2005) Automatic tracking of individual fluorescence particles: application to the study of chromosome dynamics. IEEE Trans. Image Process., 14, 1372-1383. (Pubitemid 41430899)
-
(2005)
IEEE Transactions on Image Processing
, vol.14
, Issue.9
, pp. 1372-1383
-
-
Sage, D.1
Neumann, F.R.2
Hediger, F.3
Gasser, S.M.4
Unser, M.5
-
42
-
-
33847127435
-
Simulations of complex particle transport in heterogeneous active liquids
-
DOI 10.1007/s10404-006-0117-4
-
Weihs, D., Teitell, M.A. and Mason, T.G. (2007) Simulations of complex particle transport in heterogeneous active liquids. Microfluid Nanofluidics, 3, 227-237. (Pubitemid 46291421)
-
(2007)
Microfluidics and Nanofluidics
, vol.3
, Issue.2
, pp. 227-237
-
-
Weihs, D.1
Teitell, M.A.2
Mason, T.G.3
-
44
-
-
0029079876
-
Characterization of the binding of YO to [poly(dA-dT)]2 and [poly(dG-dC)] 2, and of the fluorescent properties of YO and YOYO complexed with the polynucleotides and double-stranded DNA
-
Larsson, A., Carlsson, C. and Jonsson, M. (1995) Characterization of the binding of YO to [poly(dA-dT)]2 and [poly(dG-dC)]2, and of the fluorescent properties of YO and YOYO complexed with the polynucleotides and double-stranded DNA. Biopolymers, 36, 153-167.
-
(1995)
Biopolymers
, vol.36
, pp. 153-167
-
-
Larsson, A.1
Carlsson, C.2
Jonsson, M.3
-
45
-
-
34248531126
-
Triplet fraction buildup effect of the DNA-YOYO complex studied with fluorescence correlation spectroscopy
-
DOI 10.1016/j.ab.2007.03.040, PII S0003269707002023
-
Shimizu, M., Sasaki, S. and Kinjo, M. (2007) Triplet fraction buildup effect of the DNA-YOYO complex studied with fluorescence correlation spectroscopy. Anal. Biochem., 366, 87-92. (Pubitemid 46764293)
-
(2007)
Analytical Biochemistry
, vol.366
, Issue.1
, pp. 87-92
-
-
Shimizu, M.1
Sasaki, S.2
Kinjo, M.3
-
46
-
-
0034246534
-
Imaging of DNA molecules by scanning near-field microscope
-
Muramatsu, H., Homma, K., Yamamoto, N., Wang, J., Sakata-Sogawa, K. and Shimamoto, N. (2000) Imaging of DNA molecules by scanning near-field microscope. Mater. Sci. Eng., 12, 29-32.
-
(2000)
Mater. Sci. Eng.
, vol.12
, pp. 29-32
-
-
Muramatsu, H.1
Homma, K.2
Yamamoto, N.3
Wang, J.4
Sakata-Sogawa, K.5
Shimamoto, N.6
-
47
-
-
47249153641
-
Sliding and jumping of single EcoRV restriction enzymes on non-cognate DNA
-
DOI 10.1093/nar/gkn376
-
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. (Pubitemid 351984827)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.12
, pp. 4118-4127
-
-
Bonnet, I.1
Biebricher, A.2
Porte, P.3
Loverdo, C.4
Benichou, O.5
Voituriez, R.6
Escude, C.7
Wende, W.8
Pingoud, A.9
Desbiolles, P.10
-
48
-
-
33746649820
-
Single molecule measurements of repressor protein 1D diffusion on DNA
-
Wang, Y.M., Austin, R.H. and Cox, E.C. (2006) Single molecule measurements of repressor protein 1D diffusion on DNA. Phys. Rev. Lett., 97, 048302.
-
(2006)
Phys. Rev. Lett.
, vol.97
, pp. 048302
-
-
Wang, Y.M.1
Austin, R.H.2
Cox, E.C.3
-
49
-
-
34547138714
-
Single-molecule analysis of 1D diffusion and transcription elongation of T7 RNA polymerase along individual stretched DNA molecules
-
DOI 10.1093/nar/gkm332
-
Kim, J.H. and Larson, R.G. (2007) Single-molecule analysis of 1D diffusion and transcription elongation of T7 RNA polymerase along individual stretched DNA molecules. Nucleic Acids Res., 35, 3848-3858. (Pubitemid 47244676)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.11
, pp. 3848-3858
-
-
Kim, J.H.1
Larson, R.G.2
-
50
-
-
0027749617
-
Visualization of single molecules of RNA polymerase sliding along DNA
-
Kabata, H., Kurosawa, O., Arai, I., Washizu, M., Margarson, S.A., Glass, R.E. and Shimamoto, N. (1993) Visualization of single molecules of RNA polymerase sliding along DNA. Science, 262, 1561-1563. (Pubitemid 24036111)
-
(1993)
Science
, vol.262
, Issue.5139
, pp. 1561-1563
-
-
Kabata, H.1
Kurosawa, O.2
Arai, I.3
Washizu, M.4
Margarson, S.A.5
Glass, R.E.6
Shimamoto, N.7
-
51
-
-
31944435731
-
Long-distance lateral diffusion of human Rad51 on double-stranded DNA
-
DOI 10.1073/pnas.0508366103
-
Graneli, A., Yeykal, C.C., Robertson, R.B. and Greene, E.C. (2006) Long-distance lateral diffusion of human Rad51 on double-stranded DNA. Proc. Natl Acad. Sci. USA, 103, 1221-1226. (Pubitemid 43191146)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.5
, pp. 1221-1226
-
-
Graneli, A.1
Yeykal, C.C.2
Robertson, R.B.3
Greene, E.C.4
-
52
-
-
35649018595
-
Dynamic basis for one-dimensional DNA scanning by the mismatch repair complex Msh2-Msh6
-
DOI 10.1016/j.molcel.2007.09.008, PII S1097276507006181
-
Gorman, J., Chowdhury, A., Surtees, J.A., Shimada, J., Reichman, D.R., Alani, E. and Greene, E.C. (2007) Dynamic basis for one-dimensional DNA scanning by the mismatch repair complex Msh2-Msh6. Mol. Cell, 28, 359-370. (Pubitemid 350030566)
-
(2007)
Molecular Cell
, vol.28
, Issue.3
, pp. 359-370
-
-
Gorman, J.1
Chowdhury, A.2
Surtees, J.A.3
Shimada, J.4
Reichman, D.R.5
Alani, E.6
Greene, E.C.7
-
53
-
-
27744475701
-
Anomalous diffusion of proteins due to molecular crowding
-
DOI 10.1529/biophysj.104.051078
-
Banks, D.S. and Fradin, C. (2005) Anomalous diffusion of proteins due to molecular crowding. Biophys. J., 89, 2960-2971. (Pubitemid 41636053)
-
(2005)
Biophysical Journal
, vol.89
, Issue.5
, pp. 2960-2971
-
-
Banks, D.S.1
Fradin, C.2
-
54
-
-
0028140412
-
Anomalous diffusion due to obstacles: A Monte Carlo study
-
Saxton, M.J. (1994) Anomalous diffusion due to obstacles: a Monte Carlo study. Biophys. J., 66, 394-401. (Pubitemid 24058459)
-
(1994)
Biophysical Journal
, vol.66
, Issue.2
, pp. 394-401
-
-
Saxton, M.J.1
-
55
-
-
0346435086
-
DNA lesion recognition by the bacterial repair enzyme MutM
-
DOI 10.1074/jbc.M307768200
-
Fromme, J.C. and Verdine, G.L. (2003) DNA lesion recognition by the bacterial repair enzyme MutM. J. Biol. Chem., 278, 51543-51548. (Pubitemid 38020397)
-
(2003)
Journal of Biological Chemistry
, vol.278
, Issue.51
, pp. 51543-51548
-
-
Fromme, J.C.1
Verdine, G.L.2
-
56
-
-
50149091510
-
Correlated cleavage of damaged DNA by bacterial and human 8-oxoguanine-DNA glycosylases
-
Sidorenko, V.S. and Zharkov, D.O. (2008) Correlated cleavage of damaged DNA by bacterial and human 8-oxoguanine-DNA glycosylases. Biochemistry, 47, 8970-8976.
-
(2008)
Biochemistry
, vol.47
, pp. 8970-8976
-
-
Sidorenko, V.S.1
Zharkov, D.O.2
-
57
-
-
0031149139
-
How do DNA repair proteins locate damaged bases in the genome?
-
Verdine, G.L. and Bruner, S.D. (1997) How do DNA repair proteins locate damaged bases in the genome? Chem. Biol., 4, 329-334. (Pubitemid 27276850)
-
(1997)
Chemistry and Biology
, vol.4
, Issue.5
, pp. 329-334
-
-
Verdine, G.L.1
Bruner, S.D.2
-
58
-
-
16544386633
-
Dynamic opening of DNA during the enzymatic search for a damaged base
-
Cao, C., Jiang, Y.L., Stivers, J.T. and Song, F. (2004) Dynamic opening of DNA during the enzymatic search for a damaged base. Nat. Struct. Mol. Biol., 11, 1230-1236.
-
(2004)
Nat. Struct. Mol. Biol.
, vol.11
, pp. 1230-1236
-
-
Cao, C.1
Jiang, Y.L.2
Stivers, J.T.3
Song, F.4
-
59
-
-
75749095948
-
Real-time studies of conformational dynamics of the repair enzyme E. coli formamidopyrimidine-DNA glycosylase and its DNA complexes during catalytic cycle
-
Koval, V.V., Kuznetsov, N.A., Ishchenko, A.A., Saparbaev, M.K. and Fedorova, O.S. (2010) Real-time studies of conformational dynamics of the repair enzyme E. coli formamidopyrimidine-DNA glycosylase and its DNA complexes during catalytic cycle. Mutat. Res., 685, 3-10.
-
(2010)
Mutat. Res.
, vol.685
, pp. 3-10
-
-
Koval, V.V.1
Kuznetsov, N.A.2
Ishchenko, A.A.3
Saparbaev, M.K.4
Fedorova, O.S.5
-
60
-
-
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
-
61
-
-
44949217503
-
Diffusion constant of a nonspecifically bound protein undergoing curvilinear motion along DNA
-
Bagchi, B., Blainey, P.C. and Xie, X.S. (2008) Diffusion constant of a nonspecifically bound protein undergoing curvilinear motion along DNA. J. Phys. Chem. B, 112, 6282-6284.
-
(2008)
J. Phys. Chem. B
, vol.112
, pp. 6282-6284
-
-
Bagchi, B.1
Blainey, P.C.2
Xie, X.S.3
-
62
-
-
0018472170
-
The one-dimensional diffusion coefficient of proteins absorbed on DNA. Hydrodynamic considerations
-
Schurr, J.M. (1979) The one-dimensional diffusion coefficient of proteins absorbed on DNA. Hydrodynamic considerations. Biophys. Chem., 9, 413-414.
-
(1979)
Biophys. Chem.
, vol.9
, pp. 413-414
-
-
Schurr, J.M.1
-
63
-
-
7744241509
-
A model of sequence-dependent protein diffusion along DNA
-
DOI 10.1023/B:JOBP.0000046728.51620.14
-
Barbi, M., Place, C., Popkov, V. and Salerno, M. (2004) A model of sequence-dependent protein diffusion along DNA. J. Biol. Phys., 30, 203-226. (Pubitemid 39463216)
-
(2004)
Journal of Biological Physics
, vol.30
, Issue.3
, pp. 203-226
-
-
Barbi, M.1
Place, C.2
Popkov, V.3
Salerno, M.4
-
64
-
-
0030050141
-
Anomalous diffusion due to binding: A Monte Carlo study
-
Saxton, M.J. (1996) Anomalous diffusion due to binding: a Monte Carlo study. Biophys. J., 70, 1250-1262. (Pubitemid 26073038)
-
(1996)
Biophysical Journal
, vol.70
, Issue.3
, pp. 1250-1262
-
-
Saxton, M.J.1
-
67
-
-
10044223573
-
Kinetics of protein-DNA interaction: Facilitated target location in sequence-dependent potential
-
DOI 10.1529/biophysj.104.050765
-
Slutsky, M. and Mirny, L.A. (2004) Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential. Biophys. J., 87, 4021-4035. (Pubitemid 39602906)
-
(2004)
Biophysical Journal
, vol.87
, Issue.6
, pp. 4021-4035
-
-
Slutsky, M.1
Mirny, L.A.2
-
68
-
-
0041821716
-
Single-molecule kinetics of λ exonuclease reveal base dependence and dynamic disorder
-
DOI 10.1126/science.1084387
-
van Oijen, A.M., Blainey, P.C., Crampton, D.J., Richardson, C.C., Ellenberger, T. and Xie, X.S. (2003) Single-molecule kinetics of lambda exonuclease reveal base dependence and dynamic disorder. Science, 301, 1235-1238. (Pubitemid 37052212)
-
(2003)
Science
, vol.301
, Issue.5637
, pp. 1235-1238
-
-
Van Oijen, A.M.1
Blainey, P.C.2
Crampton, D.J.3
Richardson, C.C.4
Ellenberger, T.5
Xie, X.S.6
-
69
-
-
0028342951
-
Repair of oxidative damage to DNA: Enzymology and biology
-
Demple, B. and Harrison, L. (1994) Repair of oxidative damage to DNA: enzymology and biology. Annu. Rev. Biochem., 63, 915-948. (Pubitemid 24218652)
-
(1994)
Annual Review of Biochemistry
, vol.63
, pp. 915-948
-
-
Demple, B.1
Harrison, L.2
-
70
-
-
58149089147
-
Crystallographic analysis of a sex-specific enhancer element: Sequence-dependent DNA structure, hydration, and dynamics
-
Narayana, N. and Weiss, M.A. (2009) Crystallographic analysis of a sex-specific enhancer element: sequence-dependent DNA structure, hydration, and dynamics. J. Mol. Biol., 385, 469-490.
-
(2009)
J. Mol. Biol.
, vol.385
, pp. 469-490
-
-
Narayana, N.1
Weiss, M.A.2
-
71
-
-
17944380435
-
Crystal structure of a neutralizing human IgG against HIV-1: A template for vaccine design
-
DOI 10.1126/science.1061692
-
Saphire, E.O., Parren, P.W., Pantophlet, R., Zwick, M.B., Morris, G.M., Rudd, P.M., Dwek, R.A., Stanfield, R.L., Burton, D.R. and Wilson, I.A. (2001) Crystal structure of a neutralizing human IGG against HIV-1: a template for vaccine design. Science, 293, 1155-1159. (Pubitemid 32758099)
-
(2001)
Science
, vol.293
, Issue.5532
, pp. 1155-1159
-
-
Saphire, E.O.1
Parren, P.W.H.I.2
Pantophlet, R.3
Zwick, M.B.4
Morris, G.M.5
Rudd, P.M.6
Dwek, R.A.7
Stanfield, R.L.8
Burton, D.R.9
Wilson, I.A.10
|