-
1
-
-
3943107573
-
Molecular mechanisms of mammalian DNA repair and the DNA damage checkpoints
-
Sancar, A., Lindsey-Boltz, L. A., Unsal-Kacmaz, K., and Linn, S. (2004) Molecular mechanisms of mammalian DNA repair and the DNA damage checkpoints, Annu. Rev. Biochem. 73, 39-85.
-
(2004)
Annu. Rev. Biochem.
, vol.73
, pp. 39-85
-
-
Sancar, A.1
Lindsey-Boltz, L.A.2
Unsal-Kacmaz, K.3
Linn, S.4
-
2
-
-
0024462459
-
Mechanism of DNA strand nicking at apurinic/apyrimidinic sites by Escherichia coli [formamidopyrimidine]DNA glycosylase
-
Bailly, V., Verly, W. G., O'Connor, T., and Laval, J. (1989) Mechanism of DNA strand nicking at apurinic/apyrimidinic sites by Escherichia coli [formamidopyrimidine]DNA glycosylase, Biochem. J. 262, 581-589.
-
(1989)
Biochem. J.
, vol.262
, pp. 581-589
-
-
Bailly, V.1
Verly, W.G.2
O'Connor, T.3
Laval, J.4
-
3
-
-
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. U.S.A. 88, 4690-4694.
-
(1991)
Proc. Natl. Acad. Sci. U.S.A.
, vol.88
, 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
-
4
-
-
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.
-
(1979)
Nucleic Acids Res.
, vol.6
, pp. 3673-3684
-
-
Chetsanga, C.J.1
Lindahl, T.2
-
5
-
-
0032836651
-
Initiation of base excision repair: Glycosylase mechanisms and structures
-
McCullough, A. K., Dodson, M. L., and Lloyd, R. S. (1999) Initiation of base excision repair: glycosylase mechanisms and structures, Annu. Rev. Biochem. 68, 255-285.
-
(1999)
Annu. Rev. Biochem.
, vol.68
, pp. 255-285
-
-
McCullough, A.K.1
Dodson, M.L.2
Lloyd, R.S.3
-
6
-
-
0030614471
-
2-terminal proline acts as a nucleophile in the glycosylase/AP-lyase reaction catalyzed by Escherichia coli formamidopyrimidine- DNA glycosylase (Fpg) protein
-
2-terminal proline acts as a nucleophile in the glycosylase/AP-lyase reaction catalyzed by Escherichia coli formamidopyrimidine- DNA glycosylase (Fpg) protein, J. Biol. Chem. 272, 5335-5341.
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 5335-5341
-
-
Zharkov, D.O.1
Rieger, R.A.2
Iden, C.R.3
Grollman, A.P.4
-
7
-
-
0037084112
-
Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate
-
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.
-
(2002)
EMBO J.
, vol.21
, 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
-
8
-
-
0037205477
-
Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNA
-
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.
-
(2002)
J. Biol. Chem.
, vol.277
, 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
-
9
-
-
0034254724
-
Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus 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.
-
(2000)
EMBO J.
, vol.19
, 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
-
10
-
-
0036294464
-
Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM
-
Fromme, J. C., and Verdine, G. L. (2002) Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM, Nat. Struct. Biol. 9, 544-552.
-
(2002)
Nat. Struct. Biol.
, vol.9
, pp. 544-552
-
-
Fromme, J.C.1
Verdine, G.L.2
-
11
-
-
0037124320
-
Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA
-
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.
-
(2002)
EMBO J.
, vol.21
, pp. 2854-2865
-
-
Serre, L.1
Pereira De Jesus, K.2
Boiteux, S.3
Zelwer, C.4
Castaing, B.5
-
12
-
-
12344315791
-
Solution-state NMR investigation of DNA binding interactions in Escherichia coli formamidopyrimidine-DNA glycosylase (Fpg): A dynamic description of the DNA/protein interface
-
Buchko, G. W., McAteer, K., Wallace, S. S., and Kennedy, M. A. (2005) Solution-state NMR investigation of DNA binding interactions in Escherichia coli formamidopyrimidine-DNA glycosylase (Fpg): a dynamic description of the DNA/protein interface, DNA Repair (Amsterdam) 4, 327-339.
-
(2005)
DNA Repair (Amsterdam)
, vol.4
, pp. 327-339
-
-
Buchko, G.W.1
McAteer, K.2
Wallace, S.S.3
Kennedy, M.A.4
-
13
-
-
1042301371
-
Substrate discrimination by forrnamidopyrimidine-DNA glycosylase: A mutational analysis
-
Zaika, E. I., Perlow, R. A., Matz, E., Broyde, S., Gilboa, R., Grollman, A. P., and Zharkov, D. O. (2004) Substrate discrimination by forrnamidopyrimidine-DNA glycosylase: a mutational analysis, J. Biol. Chem. 279, 4849-4861.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 4849-4861
-
-
Zaika, E.I.1
Perlow, R.A.2
Matz, E.3
Broyde, S.4
Gilboa, R.5
Grollman, A.P.6
Zharkov, D.O.7
-
14
-
-
3342891076
-
Insights into the DNA repair process by the formamidopyrimidine-DNA glycosylase investigated by molecular dynamics
-
Amara, P., Serre, L., Castaing, B., and Thomas, A. (2004) Insights into the DNA repair process by the formamidopyrimidine-DNA glycosylase investigated by molecular dynamics, Protein Sci. 13, 2009-2021.
-
(2004)
Protein Sci.
, vol.13
, pp. 2009-2021
-
-
Amara, P.1
Serre, L.2
Castaing, B.3
Thomas, A.4
-
15
-
-
11144256241
-
Substrate discrimination by formamidopyrimidine-DNA glycosylase: Distinguishing interactions within the active site
-
Perlow-Poehnelt, R. A., Zharkov, D. O., Grollman, A. P., and Broyde, S. (2004) Substrate discrimination by formamidopyrimidine-DNA glycosylase: distinguishing interactions within the active site, Biochemistry 43, 16092-16105.
-
(2004)
Biochemistry
, vol.43
, pp. 16092-16105
-
-
Perlow-Poehnelt, R.A.1
Zharkov, D.O.2
Grollman, A.P.3
Broyde, S.4
-
16
-
-
0028305008
-
Substrate specificity of Fpg protein. Recognition and cleavage of oxidatively damaged DNA
-
Tchou, J., Bodepudi, V., Shibutani, S., Antoshechkin, I., Miller, J., Grollman, A. P., and Johnson, F. (1994) Substrate specificity of Fpg protein. Recognition and cleavage of oxidatively damaged DNA, J. Biol. Chem. 269, 15318-15324.
-
(1994)
J. Biol. Chem.
, vol.269
, pp. 15318-15324
-
-
Tchou, J.1
Bodepudi, V.2
Shibutani, S.3
Antoshechkin, I.4
Miller, J.5
Grollman, A.P.6
Johnson, F.7
-
17
-
-
0037129958
-
Thermodynamic, kinetic, and structural basis for recognition and repair of 8-oxoguanine in DNA by Fpg protein from Escherichia coli
-
Ishchenko, A. A., Vasilenko, N. L., Sinitsina, O. I., Yamkovoy, V. I., Fedorova, O. S., Douglas, K. T., and Nevinsky, G. A. (2002) Thermodynamic, kinetic, and structural basis for recognition and repair of 8-oxoguanine in DNA by Fpg protein from Escherichia coli, Biochemistry 41, 7540-7548.
-
(2002)
Biochemistry
, vol.41
, pp. 7540-7548
-
-
Ishchenko, A.A.1
Vasilenko, N.L.2
Sinitsina, O.I.3
Yamkovoy, V.I.4
Fedorova, O.S.5
Douglas, K.T.6
Nevinsky, G.A.7
-
18
-
-
0037022175
-
Stopped-flow kinetic studies of the interaction between Escherichia coli Fpg protein and DNA substrates
-
Fedorova, O. S., Nevinsky, G. A., Koval, V. V., Ishchenko, A. A., Vasilenko, N. L., and Douglas, K. T. (2002) Stopped-flow kinetic studies of the interaction between Escherichia coli Fpg protein and DNA substrates, Biochemistry 41, 1520-1528.
-
(2002)
Biochemistry
, vol.41
, pp. 1520-1528
-
-
Fedorova, O.S.1
Nevinsky, G.A.2
Koval, V.V.3
Ishchenko, A.A.4
Vasilenko, N.L.5
Douglas, K.T.6
-
19
-
-
0142187125
-
Structural characterization of the Fpg family of DNA glycosylases
-
Zharkov, D. O., Shoham, G., and Grollman, A. P. (2003) Structural characterization of the Fpg family of DNA glycosylases, DNA Repair (Amsterdam) 2, 839-862.
-
(2003)
DNA Repair (Amsterdam)
, vol.2
, pp. 839-862
-
-
Zharkov, D.O.1
Shoham, G.2
Grollman, A.P.3
-
20
-
-
2342487278
-
Pre-steady-state kinetics shows differences in processing of various DNA lesions by Escherichia coli formamidopyrimidine-DNA glycosylase
-
Koval, V. V., Kuznetsov, N. A., Zharkov, D. O., Ishchenko, A. A., Douglas, K. T., Nevinsky, G. A., and Fedorova, O. S. (2004) Pre-steady-state kinetics shows differences in processing of various DNA lesions by Escherichia coli formamidopyrimidine-DNA glycosylase, Nucleic Acids Res. 32, 926-935.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 926-935
-
-
Koval, V.V.1
Kuznetsov, N.A.2
Zharkov, D.O.3
Ishchenko, A.A.4
Douglas, K.T.5
Nevinsky, G.A.6
Fedorova, O.S.7
-
21
-
-
0030053998
-
3′- and 5′-strand cleavage reactions catalyzed by the Fpg protein from Escherichia coli occur via successive beta- and delta-elimination mechanisms, respectively
-
Bhagwat, M., and Gerlt, J. A. (1996) 3′- and 5′-strand cleavage reactions catalyzed by the Fpg protein from Escherichia coli occur via successive beta- and delta-elimination mechanisms, respectively, Biochemistry 35, 659-665.
-
(1996)
Biochemistry
, vol.35
, pp. 659-665
-
-
Bhagwat, M.1
Gerlt, J.A.2
-
22
-
-
0034642221
-
Involvement of phylogenetically conserved acidic amino acid residues in catalysis by an oxidative DNA damage enzyme formamidopyrimidine glycosylase
-
Lavrukhin, O. V., and Lloyd, R. S. (2000) Involvement of phylogenetically conserved acidic amino acid residues in catalysis by an oxidative DNA damage enzyme formamidopyrimidine glycosylase, Biochemistry 39, 15266-15271.
-
(2000)
Biochemistry
, vol.39
, pp. 15266-15271
-
-
Lavrukhin, O.V.1
Lloyd, R.S.2
-
23
-
-
0037169522
-
Determination of active site residues in Escherichia coli endonuclease VIII
-
Burgess, S., Jaruga, P., Dodson, M. L., Dizdaroglu, M., and Lloyd, R. S. (2002) Determination of active site residues in Escherichia coli endonuclease VIII, J. Biol. Chem. 277, 2938-2944.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 2938-2944
-
-
Burgess, S.1
Jaruga, P.2
Dodson, M.L.3
Dizdaroglu, M.4
Lloyd, R.S.5
-
24
-
-
0032403120
-
Role of lysine-57 in the catalytic activities of Escherichia coli formamidopyrimidine-DNA glycosylase (Fpg protein)
-
Sidorkina, O. M., and Laval, J. (1998) Role of lysine-57 in the catalytic activities of Escherichia coli formamidopyrimidine-DNA glycosylase (Fpg protein), Nucleic Acids Res. 26, 5351-5357.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 5351-5357
-
-
Sidorkina, O.M.1
Laval, J.2
-
25
-
-
0942298124
-
Role of His-16 in turnover of T4 pyrimidine dimer glycosylase
-
Meador, M. G., Rajagopalan, L., Lloyd, R. S., and Dodson, M. L. (2004) Role of His-16 in turnover of T4 pyrimidine dimer glycosylase, J. Biol. Chem. 279, 3348-3353.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 3348-3353
-
-
Meador, M.G.1
Rajagopalan, L.2
Lloyd, R.S.3
Dodson, M.L.4
-
26
-
-
0345983583
-
-
(Leontes, N. B., and J. SantaLucia, J., Eds.), American Chemical Society, Washington, DC
-
Macke, T., and Case, D. A. (1998) in Molecular Modeling of Nucleic Acids (Leontes, N. B., and J. SantaLucia, J., Eds.) pp 379-393, American Chemical Society, Washington, DC.
-
(1998)
Molecular Modeling of Nucleic Acids
, pp. 379-393
-
-
Macke, T.1
Case, D.A.2
-
27
-
-
0026244229
-
MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
-
Kraulis, P. (1991) MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures, J. Appl. Crystallogr. 24, 946-950.
-
(1991)
J. Appl. Crystallogr.
, vol.24
, pp. 946-950
-
-
Kraulis, P.1
-
28
-
-
0030815133
-
Raster3D: Photorealistic molecular graphics
-
Merritt, E. A., and Bacon, D. J. (1997) Raster3D: Photorealistic molecular graphics, Methods Emzymol. 277, 505-524.
-
(1997)
Methods Emzymol.
, vol.277
, pp. 505-524
-
-
Merritt, E.A.1
Bacon, D.J.2
|