-
1
-
-
0027935994
-
Genetic toxicity of 2-acetylaminofluorene, 2-aminofluorene and some of their metabolites and model metabolites
-
Heflich,R.H. and Neft,R.E. (1994) Genetic toxicity of 2-acetylaminofluorene, 2-aminofluorene and some of their metabolites and model metabolites. Mutat. Res., 318, 73-114.
-
(1994)
Mutat. Res.
, vol.318
, pp. 73-114
-
-
Heflich, R.H.1
Neft, R.E.2
-
2
-
-
0026741527
-
Fifty years of research on N-acetyl-2-aminofluorene, one of the most versatile compounds in experimental cancer research
-
Kriek,E. (1992) Fifty years of research on N-acetyl-2-aminofluorene, one of the most versatile compounds in experimental cancer research. J. Cancer Res. Clin. Oncol., 118, 481-489.
-
(1992)
J. Cancer Res. Clin. Oncol.
, vol.118
, pp. 481-489
-
-
Kriek, E.1
-
3
-
-
0015408463
-
Persistent binding of a new reaction product of the carcinogen N-hydroxy-N-2-acetylaminofluorene with guanine in rat liver DNA in vivo
-
Kriek,E. (1972) Persistent binding of a new reaction product of the carcinogen N-hydroxy-N-2-acetylaminofluorene with guanine in rat liver DNA in vivo. Cancer Res., 32, 2042-2048.
-
(1972)
Cancer Res.
, vol.32
, pp. 2042-2048
-
-
Kriek, E.1
-
4
-
-
0018250654
-
Arylamidation and arylation by the carcinogen N-2-fluorenylacetamide: A sensitive and rapid radiochemical assay
-
Fuchs,R.P. (1978) Arylamidation and arylation by the carcinogen N-2-fluorenylacetamide: A sensitive and rapid radiochemical assay. Anal. Biochem., 91, 663-673.
-
(1978)
Anal. Biochem.
, vol.91
, pp. 663-673
-
-
Fuchs, R.P.1
-
5
-
-
0014798879
-
Coding and conformational properties of oligonucleotides modified with the carcinogen N-2-acetylaminofluorene
-
Grunberger,D., Nelson,J.H., Cantor,C.R. and Weinstein,I.B. (1970) Coding and conformational properties of oligonucleotides modified with the carcinogen N-2-acetylaminofluorene. Proc. Natl. Acad. Sci. USA, 66, 488-494.
-
(1970)
Proc. Natl. Acad. Sci. USA
, vol.66
, pp. 488-494
-
-
Grunberger, D.1
Nelson, J.H.2
Cantor, C.R.3
Weinstein, I.B.4
-
6
-
-
0343553081
-
Changes of stability and conformation of DNA following the covalent binding of a carcinogen
-
Fuchs,R. and Daune,M. (1971) Changes of stability and conformation of DNA following the covalent binding of a carcinogen. FEBS Lett., 14, 206-208.
-
(1971)
FEBS Lett.
, vol.14
, pp. 206-208
-
-
Fuchs, R.1
Daune, M.2
-
7
-
-
0015493818
-
Physical studies on deoxyribonucleic acid after covalent binding of a carcinogen
-
Fuchs,R. and Daune,M. (1972) Physical studies on deoxyribonucleic acid after covalent binding of a carcinogen. Biochemistry, 11, 2659-2666.
-
(1972)
Biochemistry
, vol.11
, pp. 2659-2666
-
-
Fuchs, R.1
Daune, M.2
-
8
-
-
0019275121
-
Sensitivity of the conformation of deoxyguanosine to binding at the C-8 position by N-acetylated and unacetylated 2-aminofluorene
-
Evans,F.E., Miller,D.W. and Beland,F.A. (1980) Sensitivity of the conformation of deoxyguanosine to binding at the C-8 position by N-acetylated and unacetylated 2-aminofluorene. Carcinogenesis, 1, 955-959.
-
(1980)
Carcinogenesis
, vol.1
, pp. 955-959
-
-
Evans, F.E.1
Miller, D.W.2
Beland, F.A.3
-
9
-
-
0027457947
-
Structural characterization of an N-acetyl-2-aminofluorene (AAF) modified DNA oligomer by NMR, energy minimization, and molecular dynamics
-
O'Handley,S.F., Sanford,D.G., Xu,R., Lester,C.C., Hingerty,B.E., Broyde,S. and Krugh,T.R. (1993) Structural characterization of an N-acetyl-2-aminofluorene (AAF) modified DNA oligomer by NMR, energy minimization, and molecular dynamics. Biochemistry, 32, 2481-2497.
-
(1993)
Biochemistry
, vol.32
, pp. 2481-2497
-
-
O'Handley, S.F.1
Sanford, D.G.2
Xu, R.3
Lester, C.C.4
Hingerty, B.E.5
Broyde, S.6
Krugh, T.R.7
-
10
-
-
0028148841
-
NMR evidence of the stabilisation by the carcinogen N-2-acetylaminofluorene of a frameshift mutagenesis intermediate
-
Milhe,C., Dhalluin,C., Fuchs,R.P. and Lefevre,J.F. (1994) NMR evidence of the stabilisation by the carcinogen N-2-acetylaminofluorene of a frameshift mutagenesis intermediate. Nucleic Acids Res., 22,4646-4652.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4646-4652
-
-
Milhe, C.1
Dhalluin, C.2
Fuchs, R.P.3
Lefevre, J.F.4
-
11
-
-
0031800438
-
Nuclear magnetic resonance solution structures of covalent aromatic amine-DNA adducts and their mutagenic relevance
-
Patel,D.J., Mao,B., Gu,Z., Hingerty,B.E., Gorin,A., Basu,A.K. and Broyde,S. (1998) Nuclear magnetic resonance solution structures of covalent aromatic amine-DNA adducts and their mutagenic relevance. Chem. Res. Toxicol., 11, 391-407.
-
(1998)
Chem. Res. Toxicol.
, vol.11
, pp. 391-407
-
-
Patel, D.J.1
Mao, B.2
Gu, Z.3
Hingerty, B.E.4
Gorin, A.5
Basu, A.K.6
Broyde, S.7
-
12
-
-
9644265249
-
Dynamic conformational heterogeneities of carcinogen-DNA adducts and their mutagenic relevance
-
Cho,B.P. (2004) Dynamic conformational heterogeneities of carcinogen-DNA adducts and their mutagenic relevance. J. Environ. Sci. Health C Environ. Carcinog. Ecotoxicol. Rev., 22, 57-90.
-
(2004)
J. Environ. Sci. Health C Environ. Carcinog. Ecotoxicol. Rev.
, vol.22
, pp. 57-90
-
-
Cho, B.P.1
-
13
-
-
0028323638
-
NMR structural studies of a 15-mer DNA duplex from a ras protooncogene modified with the carcinogen 2-aminofluorene: Conformational heterogeneity
-
Cho,B.P., Beland,F.A. and Marques,M.M. (1994) NMR structural studies of a 15-mer DNA duplex from a ras protooncogene modified with the carcinogen 2-aminofluorene: Conformational heterogeneity. Biochemistry, 33, 1373-1384.
-
(1994)
Biochemistry
, vol.33
, pp. 1373-1384
-
-
Cho, B.P.1
Beland, F.A.2
Marques, M.M.3
-
14
-
-
0030704249
-
8-dG adduct opposite a -2 deletion site in the NarI hot spot sequence context
-
8-dG adduct opposite a -2 deletion site in the NarI hot spot sequence context. Biochemistry, 36, 14479-14490.
-
(1997)
Biochemistry
, vol.36
, pp. 14479-14490
-
-
Mao, B.1
Gorin, A.2
Gu, Z.3
Hingerty, B.E.4
Broyde, S.5
Patel, D.J.6
-
15
-
-
0030667581
-
8-dG adduct positioned at a template-primer junction
-
8-dG adduct positioned at a template-primer junction. Biochemistry, 36, 14491-14501.
-
(1997)
Biochemistry
, vol.36
, pp. 14491-14501
-
-
Mao, B.1
Gu, Z.2
Gorin, A.3
Hingerty, B.E.4
Broyde, S.5
Patel, D.J.6
-
18
-
-
0020854692
-
Conformation of 2-aminofluorene-modified DNA
-
Broyde,S. and Hingerty,B. (1983) Conformation of 2-aminofluorene-modified DNA. Biopolymers, 22, 2423-2441.
-
(1983)
Biopolymers
, vol.22
, pp. 2423-2441
-
-
Broyde, S.1
Hingerty, B.2
-
19
-
-
0020488853
-
Conformation of the deoxydinucleoside monophosphate dCpdG modified at carbon 8 of guanine with 2-(acetylamino)fluorene
-
Hingerty,B. and Broyde,S. (1982) Conformation of the deoxydinucleoside monophosphate dCpdG modified at carbon 8 of guanine with 2-(acetylamino)fluorene. Biochemistry, 21, 3243-3252.
-
(1982)
Biochemistry
, vol.21
, pp. 3243-3252
-
-
Hingerty, B.1
Broyde, S.2
-
20
-
-
0028294041
-
Conformation of amine-modified DNA: 2-aminofluorene- and 2-(acetylamino) fluorene-modified deoxydinucleoside monophosphates with all possible nearest neighbors. A comparison of search and optimization methods
-
Shapiro,R., Sidawi,D., Miao,Y.S., Hingerty,B.E., Schmidt,K.E., Moskowitz,J. and Broyde,S. (1994) Conformation of amine-modified DNA: 2-aminofluorene- and 2-(acetylamino)fluorene-modified deoxydinucleoside monophosphates with all possible nearest neighbors. A comparison of search and optimization methods. Chem. Res. Toxicol., 7, 239-253.
-
(1994)
Chem. Res. Toxicol.
, vol.7
, pp. 239-253
-
-
Shapiro, R.1
Sidawi, D.2
Miao, Y.S.3
Hingerty, B.E.4
Schmidt, K.E.5
Moskowitz, J.6
Broyde, S.7
-
21
-
-
9644276853
-
Observing translesion synthesis of an aromatic amine DNA adduct by a high-fidelity DNA polymerase
-
Hsu,G.W., Kiefer,J.R., Burnouf,D., Becherel,O.J., Fuchs,R.P. and Beese,L.S. (2004) Observing translesion synthesis of an aromatic amine DNA adduct by a high-fidelity DNA polymerase. J. Biol. Chem., 279, 50280-50285.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 50280-50285
-
-
Hsu, G.W.1
Kiefer, J.R.2
Burnouf, D.3
Becherel, O.J.4
Fuchs, R.P.5
Beese, L.S.6
-
22
-
-
0028039973
-
Use of single-turnover kinetics to study bulky adduct bypass by T7 DNA polymerase
-
Lindsley,J.E. and Fuchs,R.P. (1994) Use of single-turnover kinetics to study bulky adduct bypass by T7 DNA polymerase. Biochemistry, 33, 764-772.
-
(1994)
Biochemistry
, vol.33
, pp. 764-772
-
-
Lindsley, J.E.1
Fuchs, R.P.2
-
23
-
-
0027196408
-
On the mechanism of frameshift (deletion) mutagenesis in vitro
-
Shibutani,S. and Grollman,A.P. (1993) On the mechanism of frameshift (deletion) mutagenesis in vitro. J. Biol. Chem., 268, 11703-11710.
-
(1993)
J. Biol. Chem.
, vol.268
, pp. 11703-11710
-
-
Shibutani, S.1
Grollman, A.P.2
-
24
-
-
0032168923
-
Mutagenic specificity of (acetylamino)fluorene-derived DNA adducts in mammalian cells
-
Shibutani,S., Suzuki,N. and Grollman,A.P. (1998) Mutagenic specificity of (acetylamino)fluorene-derived DNA adducts in mammalian cells. Biochemistry, 37, 12034-12041.
-
(1998)
Biochemistry
, vol.37
, pp. 12034-12041
-
-
Shibutani, S.1
Suzuki, N.2
Grollman, A.P.3
-
25
-
-
0035909805
-
Translesional synthesis past acetylaminofluorene-derived DNA adducts catalyzed by human DNA polymerase kappa and Escherichia coli DNA polymerase IV
-
Suzuki,N., Ohashi,E., Hayashi,K., Ohmori,H., Grollman,A.P. and Shibutani,S. (2001) Translesional synthesis past acetylaminofluorene-derived DNA adducts catalyzed by human DNA polymerase kappa and Escherichia coli DNA polymerase IV. Biochemistry, 40, 15176-15183.
-
(2001)
Biochemistry
, vol.40
, pp. 15176-15183
-
-
Suzuki, N.1
Ohashi, E.2
Hayashi, K.3
Ohmori, H.4
Grollman, A.P.5
Shibutani, S.6
-
26
-
-
0035890599
-
Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): An archaeal DinB-like DNA polymerase with lesion-bypass properties akin to eukaryotic polη
-
Boudsocq,F., Iwai,S., Hanaoka,F. and Woodgate,R. (2001) Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4): An archaeal DinB-like DNA polymerase with lesion-bypass properties akin to eukaryotic polη. Nucleic Acids Res., 29, 4607-4616.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 4607-4616
-
-
Boudsocq, F.1
Iwai, S.2
Hanaoka, F.3
Woodgate, R.4
-
27
-
-
0035865924
-
Response of human DNA polymerase iota to DNA lesions
-
Zhang,Y., Yuan,F., Wu,X., Taylor,J.S. and Wang,Z. (2001) Response of human DNA polymerase iota to DNA lesions. Nucleic Acids Res., 29, 928-935.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 928-935
-
-
Zhang, Y.1
Yuan, F.2
Wu, X.3
Taylor, J.S.4
Wang, Z.5
-
28
-
-
0034660259
-
Mechanisms of accurate translesion synthesis by human DNA polymerase η
-
Masutani,C., Kusumoto,R., Iwai,S. and Hanaoka,F. (2000) Mechanisms of accurate translesion synthesis by human DNA polymerase η. EMBO J., 19, 3100-3109.
-
(2000)
EMBO J.
, vol.19
, pp. 3100-3109
-
-
Masutani, C.1
Kusumoto, R.2
Iwai, S.3
Hanaoka, F.4
-
29
-
-
0021770914
-
A role for DNA polymerase in the specificity of nucleotide incorporation opposite N-acetyl-2-aminofluorene adducts
-
Rabkin,S.D. and Strauss,B.S. (1984) A role for DNA polymerase in the specificity of nucleotide incorporation opposite N-acetyl-2-aminofluorene adducts. J. Mol. Biol., 178,569-594.
-
(1984)
J. Mol. Biol.
, vol.178
, pp. 569-594
-
-
Rabkin, S.D.1
Strauss, B.S.2
-
30
-
-
0034677798
-
Specificity of DNA lesion bypass by the yeast DNA polymerase η
-
Yuan,F., Zhang,Y., Rajpal,D.K., Wu,X., Guo,D., Wang,M., Taylor,J.S. and Wang,Z. (2000) Specificity of DNA lesion bypass by the yeast DNA polymerase η. J. Biol. Chem., 275, 8233-8239.
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 8233-8239
-
-
Yuan, F.1
Zhang, Y.2
Rajpal, D.K.3
Wu, X.4
Guo, D.5
Wang, M.6
Taylor, J.S.7
Wang, Z.8
-
31
-
-
0028301677
-
Effect of single DNA lesions on in vitro replication with DNA polymerase III holoenzyme. Comparison with other polymerases
-
Belguise-Valladier,P., Maki,H., Sekiguchi,M. and Fuchs,R.P. (1994) Effect of single DNA lesions on in vitro replication with DNA polymerase III holoenzyme. Comparison with other polymerases. J. Mol. Biol., 236, 151-164.
-
(1994)
J. Mol. Biol.
, vol.236
, pp. 151-164
-
-
Belguise-Valladier, P.1
Maki, H.2
Sekiguchi, M.3
Fuchs, R.P.4
-
32
-
-
9744237198
-
2-yl) -2-acetylaminofluorene, a persistent acetylaminofluorene-derived DNA adduct in mammalian cells
-
2-yl)-2-acetylaminofluorene, a persistent acetylaminofluorene-derived DNA adduct in mammalian cells. Biochemistry, 43, 15005-15013.
-
(2004)
Biochemistry
, vol.43
, pp. 15005-15013
-
-
Yasui, M.1
Dong, H.2
Bonala, R.R.3
Suzuki, N.4
Ohmori, H.5
Hanaoka, F.6
Johnson, F.7
Grollman, A.P.8
Shibutani, S.9
-
33
-
-
0039547559
-
Single adduct mutagenesis: Strong effect of the position of a single acetylaminofluorene adduct within a mutation hot spot
-
Burnouf,D., Koehl,P. and Fuchs,R.P. (1989) Single adduct mutagenesis: strong effect of the position of a single acetylaminofluorene adduct within a mutation hot spot. Proc. Natl Acad. Sci. USA, 86, 4147-4151.
-
(1989)
Proc. Natl Acad. Sci. USA
, vol.86
, pp. 4147-4151
-
-
Burnouf, D.1
Koehl, P.2
Fuchs, R.P.3
-
34
-
-
0025326603
-
N-acetoxy-N-acetyl-2-aminofluorene-induced mutagenesis in the lacI gene of Escherichia coli
-
Schaaper,R.M., Koffel-Schwartz,N. and Fuchs,R.P. (1990) N-acetoxy-N-acetyl-2-aminofluorene-induced mutagenesis in the lacI gene of Escherichia coli. Carcinogenesis, 11, 1087-1095.
-
(1990)
Carcinogenesis
, vol.11
, pp. 1087-1095
-
-
Schaaper, R.M.1
Koffel-Schwartz, N.2
Fuchs, R.P.3
-
35
-
-
10844259915
-
Mechanism of frameshift (deletion) generated by acetylaminofluorene-derived DNA adducts in vitro
-
Shibutani,S., Suzuki,N. and Grollman,A.P. (2004) Mechanism of frameshift (deletion) generated by acetylaminofluorene-derived DNA adducts in vitro. Biochemistry, 43, 15929-15935.
-
(2004)
Biochemistry
, vol.43
, pp. 15929-15935
-
-
Shibutani, S.1
Suzuki, N.2
Grollman, A.P.3
-
36
-
-
0029155015
-
Frequency and fidelity of translesion synthesis of site-specific N-2-acetylaminofluorene adducts during DNA replication in a human cell extract
-
Thomas,D.C., Veaute,X., Fuchs,R.P. and Kunkel,T.A. (1995) Frequency and fidelity of translesion synthesis of site-specific N-2-acetylaminofluorene adducts during DNA replication in a human cell extract. J. Biol. Chem., 270, 21226-21233.
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 21226-21233
-
-
Thomas, D.C.1
Veaute, X.2
Fuchs, R.P.3
Kunkel, T.A.4
-
37
-
-
0028129950
-
Mutagenic replication in human cell extracts of DNA containing site-specific N-2-acetylaminofluorene adducts
-
Thomas,D.C., Veaute,X., Kunkel,T.A. and Fuchs,R.P. (1994) Mutagenic replication in human cell extracts of DNA containing site-specific N-2-acetylaminofluorene adducts. Proc. Natl Acad. Sci. USA, 91, 7752-7756.
-
(1994)
Proc. Natl Acad. Sci. USA
, vol.91
, pp. 7752-7756
-
-
Thomas, D.C.1
Veaute, X.2
Kunkel, T.A.3
Fuchs, R.P.4
-
38
-
-
27944479681
-
Mechanism for N-acetyl-2-aminofluorene-induced frameshift mutagenesis by Escherichia coli DNA polymerase I (Klenow fragment)
-
Gill,J.P. and Romano,L.J. (2005) Mechanism for N-acetyl-2-aminofluorene-induced frameshift mutagenesis by Escherichia coli DNA polymerase I (Klenow fragment). Biochemistry, 44, 15387-15395.
-
(2005)
Biochemistry
, vol.44
, pp. 15387-15395
-
-
Gill, J.P.1
Romano, L.J.2
-
39
-
-
26444528004
-
Human DNA polymerase iota Incorporates dCTP opposite template G via a G.C+ Hoogsteen base pair
-
Nair,D.T., Johnson,R.E., Prakash,L., Prakash,S. and Aggarwal,A.K. (2005) Human DNA polymerase iota Incorporates dCTP opposite template G via a G.C+ Hoogsteen base pair. Structure, 13, 1569-1577.
-
(2005)
Structure
, vol.13
, pp. 1569-1577
-
-
Nair, D.T.1
Johnson, R.E.2
Prakash, L.3
Prakash, S.4
Aggarwal, A.K.5
-
40
-
-
3142674288
-
Replication by human DNA polymerase iota occurs by Hoogsteen base-pairing
-
Nair,D.T., Johnson,R.E., Prakash,S., Prakash,L. and Aggarwal,A.K. (2004) Replication by human DNA polymerase iota occurs by Hoogsteen base-pairing. Nature, 430, 377-380.
-
(2004)
Nature
, vol.430
, pp. 377-380
-
-
Nair, D.T.1
Johnson, R.E.2
Prakash, S.3
Prakash, L.4
Aggarwal, A.K.5
-
41
-
-
25844440534
-
Rev1 employs a novel mechanism of DNA synthesis using a protein template
-
Nair,D.T., Johnson,R.E., Prakash,L., Prakash,S. and Aggarwal,A.K. (2005) Rev1 employs a novel mechanism of DNA synthesis using a protein template. Science, 309, 2219-2222.
-
(2005)
Science
, vol.309
, pp. 2219-2222
-
-
Nair, D.T.1
Johnson, R.E.2
Prakash, L.3
Prakash, S.4
Aggarwal, A.K.5
-
42
-
-
0035812849
-
Crystal structure of a Y-family DNA polymerase in action: A mechanism for error-prone and lesion-bypass replication
-
Ling,H., Boudsocq,F., Woodgate,R. and Yang,W. (2001) Crystal structure of a Y-family DNA polymerase in action: A mechanism for error-prone and lesion-bypass replication. Cell, 107, 91-102.
-
(2001)
Cell
, vol.107
, pp. 91-102
-
-
Ling, H.1
Boudsocq, F.2
Woodgate, R.3
Yang, W.4
-
43
-
-
27144542782
-
Fidelity of Dpo4: Effect of metal ions, nucleotide selection and pyrophosphorolysis
-
Vaisman,A., Ling,H., Woodgate,R. and Yang,W,. (2005) Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis. EMBO J., 24, 2957-2967.
-
(2005)
EMBO J.
, vol.24
, pp. 2957-2967
-
-
Vaisman, A.1
Ling, H.2
Woodgate, R.3
Yang, W.4
-
44
-
-
0025887465
-
Strong sequence-dependent polymorphism in adduct-induced DNA structure: Analysis of single N-2-acetylaminofluorene residues bound within the NarI mutation hot spot
-
Belguise-Valladier,P. and Fuchs,R.P. (1991) Strong sequence-dependent polymorphism in adduct-induced DNA structure: Analysis of single N-2-acetylaminofluorene residues bound within the NarI mutation hot spot. Biochemistry, 30, 10091-10100.
-
(1991)
Biochemistry
, vol.30
, pp. 10091-10100
-
-
Belguise-Valladier, P.1
Fuchs, R.P.2
-
45
-
-
1442355023
-
Crystal structure of a benzo[a]pyrene diol epoxide adduct in a ternary complex with a DNA polymerase
-
Ling,H., Sayer,J.M., Plosky,B.S., Yagi,H., Boudsocq,F., Woodgate,R., Jerina,D.M. and Yang,W. (2004) Crystal structure of a benzo[a]pyrene diol epoxide adduct in a ternary complex with a DNA polymerase. Proc. Natl. Acad. Sci. USA, 101, 2265-2269.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 2265-2269
-
-
Ling, H.1
Sayer, J.M.2
Plosky, B.S.3
Yagi, H.4
Boudsocq, F.5
Woodgate, R.6
Jerina, D.M.7
Yang, W.8
-
46
-
-
0033954256
-
The Protein Data Bank
-
Berman,H.M., Westbrook,J., Feng,Z., Gilliland,G., Bhat,T.N., Weissig,H., Shindyalov,I.N. and Bourne,P.E. (2000) The Protein Data Bank. Nucleic Acids Res., 28, 235-242.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
47
-
-
0038114972
-
13NO
-
13NO. Acta Crystallogr. C Cryst. Struct. Commun., 9, 515-518.
-
(1980)
Acta Crystallogr. C Cryst. Struct. Commun.
, vol.9
, pp. 515-518
-
-
van Meerssche, M.1
Germain, G.2
Declercq, J.-P.3
Touillaux, R.4
Roberfroid, M.5
Razzouk, C.6
-
48
-
-
0041864009
-
Replication of a cis-syn thymine dimer at atomic resolution
-
Ling,H., Boudsocq,F., Plosky,B.S., Woodgate,R. and Yang,W. (2003) Replication of a cis-syn thymine dimer at atomic resolution, Nature, 424, 1083-1087.
-
(2003)
Nature
, vol.424
, pp. 1083-1087
-
-
Ling, H.1
Boudsocq, F.2
Plosky, B.S.3
Woodgate, R.4
Yang, W.5
-
49
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins
-
Duan,Y., Wu,C., Chowdhury,S., Lee,M.C., Xiong,G., Zhang,W., Yang,R., Cieplak,P., Luo,R. and Lee,T. (2003) A point-charge force field for molecular mechanics simulations of proteins. J. Comput. Chem., 24, 1999-2012.
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1999-2012
-
-
Duan, Y.1
Wu, C.2
Chowdhury, S.3
Lee, M.C.4
Xiong, G.5
Zhang, W.6
Yang, R.7
Cieplak, P.8
Luo, R.9
Lee, T.10
-
50
-
-
0029011701
-
A second generation force field for the simulation of proteins, nucleic acids, and organic molecules
-
Cornell,W.D., Cieplak,P., Bayly,C.I., Gould,I.R., Merz,K.M., Ferguson,D.M., Spellmeyer,D.C., Fox,T., Caldwell,J.W. and Kollman,P.A. (1995) A second generation force field for the simulation of proteins, nucleic acids, and organic molecules. J. Am. Chem. Soc., 117, 5179-5197.
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Merz, K.M.5
Ferguson, D.M.6
Spellmeyer, D.C.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
51
-
-
0032922174
-
A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat
-
Cheatham,T.E.,III, Cieplak,P. and Kollman,P.A. (1999) A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat. J. Biomol. Struct. Dyn., 16, 845-862.
-
(1999)
J. Biomol. Struct. Dyn.
, vol.16
, pp. 845-862
-
-
Cheatham III, T.E.1
Cieplak, P.2
Kollman, P.A.3
-
52
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen,W.L., Chandrasekhar,J., Madura,J. and Klein,M.L. (1983) Comparison of simple potential functions for simulating liquid water. J. Chem. Phys., 79, 926-935.
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.3
Klein, M.L.4
-
53
-
-
33846823909
-
Particle mesh Ewald: An Nxlog(N) method for Ewald sums in large systems
-
Darden,T., York,D. and Pedersen,L. (1993) Particle mesh Ewald: An Nxlog(N) method for Ewald sums in large systems. J. Chem. Phys., 98, 10089-10092.
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
54
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann,U., Perera,L., Berkowitz,M.L., Darden,T., Lee,H. and Pedersen,L.G. (1995) A smooth particle mesh Ewald method. J. Chem. Phys., 103, 8577-8593.
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577-8593
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
55
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert,J.-P., Ciccotti,G. and Berendsen,H.J.C. (1977) Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes. J. Comput. Phys., 23, 327-341.
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
56
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen,H.J.C., Postma,J.P.M., van Gunsteren,W.F., DiNola,A. and Haak,J.R. (1984) Molecular dynamics with coupling to an external bath. J. Chem. Phys., 81, 3684-3690.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
van Gunsteren, W.F.3
DiNola, A.4
Haak, J.R.5
-
57
-
-
0001430231
-
The flying ice cube: Velocity rescaling in molecular dynamics leads to violation of energy equipartition
-
Harvey,S.C., Tan,R.K.Z. and Cheatham,T.E.,III (1998) The flying ice cube: Velocity rescaling in molecular dynamics leads to violation of energy equipartition. J. Comput. Chem., 19, 726-740.
-
(1998)
J. Comput. Chem.
, vol.19
, pp. 726-740
-
-
Harvey, S.C.1
Tan, R.K.Z.2
Cheatham III, T.E.3
-
58
-
-
3042524904
-
A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges - The RESP model
-
Bayly,C.I., Cieplak,P., Cornell,W.D. and Kollman,P.A. (1993) A well-behaved electrostatic potential based method using charge restraints for deriving atomic charges - the RESP model. J. Phys. Chem., 97, 10269-10280.
-
(1993)
J. Phys. Chem.
, vol.97
, pp. 10269-10280
-
-
Bayly, C.I.1
Cieplak, P.2
Cornell, W.D.3
Kollman, P.A.4
-
59
-
-
0001398008
-
How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?
-
Wang,J.M., Cieplak,P. and Kollman,P.A. (2000) How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? J. Comp. Chem., 21, 1049-1074.
-
(2000)
J. Comp. Chem.
, vol.21
, pp. 1049-1074
-
-
Wang, J.M.1
Cieplak, P.2
Kollman, P.A.3
-
60
-
-
0035366319
-
Evading the proofreading machinery of a replicative DNA polymerase: Induction of a mutation by an environmental carcinogen
-
Perlow,R.A. and Broyde,S. (2001) Evading the proofreading machinery of a replicative DNA polymerase: Induction of a mutation by an environmental carcinogen. J. Mol. Biol., 309, 519-536.
-
(2001)
J. Mol. Biol.
, vol.309
, pp. 519-536
-
-
Perlow, R.A.1
Broyde, S.2
-
61
-
-
0036382913
-
Toward understanding the mutagenicity of an environmental carcinogen: Structural insights into nucleotide incorporation preferences
-
Perlow,R.A. and Broyde,S. (2002) Toward understanding the mutagenicity of an environmental carcinogen: Structural insights into nucleotide incorporation preferences. J. Mol. Biol., 322, 291-309.
-
(2002)
J. Mol. Biol.
, vol.322
, pp. 291-309
-
-
Perlow, R.A.1
Broyde, S.2
-
62
-
-
0015511563
-
Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation
-
Altona,C. and Sundaralingam,M. (1972) Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation. J. Am. Chem. Soc., 94, 8205-8212.
-
(1972)
J. Am. Chem. Soc.
, vol.94
, pp. 8205-8212
-
-
Altona, C.1
Sundaralingam, M.2
-
63
-
-
0026742978
-
The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids
-
Berman,H.M., Olson,W.K., Beveridge,D.L., Westbrook,J., Gelbin,A., Demeny,T., Hsieh,S.H., Srinivasan,A.R. and Schneider,B. (1992) The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids. Biophys. J., 63, 751-759.
-
(1992)
Biophys. J.
, vol.63
, pp. 751-759
-
-
Berman, H.M.1
Olson, W.K.2
Beveridge, D.L.3
Westbrook, J.4
Gelbin, A.5
Demeny, T.6
Hsieh, S.H.7
Srinivasan, A.R.8
Schneider, B.9
-
64
-
-
84962339749
-
Interaction and solvation energies of nonpolar DNA base analogues and their role in polymerase insertion fidelity
-
Barsky,D., Kool,E.T. and Colvin,M.E. (1999) Interaction and solvation energies of nonpolar DNA base analogues and their role in polymerase insertion fidelity. J. Biomol. Struct. Dyn., 16, 1119-1134.
-
(1999)
J. Biomol. Struct. Dyn.
, vol.16
, pp. 1119-1134
-
-
Barsky, D.1
Kool, E.T.2
Colvin, M.E.3
-
65
-
-
0035997351
-
Active site tightness and substrate fit in DNA replication
-
Kool,E.T. (2002) Active site tightness and substrate fit in DNA replication. Annu. Rev. Biochem., 71, 191-219.
-
(2002)
Annu. Rev. Biochem.
, vol.71
, pp. 191-219
-
-
Kool, E.T.1
-
66
-
-
0015908982
-
Lennard-Jones potential calculations of the barrier to rotation around the glycosidic C-N linkage in selected purine nucleosides and nucleotides. A direct comparison of the results of 6-12 potential calculations with results of semiempirical molecular orbital studies
-
Jordan,F. (1973) Lennard-Jones potential calculations of the barrier to rotation around the glycosidic C-N linkage in selected purine nucleosides and nucleotides. A direct comparison of the results of 6-12 potential calculations with results of semiempirical molecular orbital studies. J. Theor. Biol., 41, 375-395.
-
(1973)
J. Theor. Biol.
, vol.41
, pp. 375-395
-
-
Jordan, F.1
-
67
-
-
0032005866
-
Structural and functional insights provided by crystal structures of DNA polymerases and their substrate complexes
-
Brautigam,C.A. and Steitz,T.A. (1998) Structural and functional insights provided by crystal structures of DNA polymerases and their substrate complexes. Curr. Opin. Struct. Biol., 8, 54-63.
-
(1998)
Curr. Opin. Struct. Biol.
, vol.8
, pp. 54-63
-
-
Brautigam, C.A.1
Steitz, T.A.2
-
68
-
-
0031423949
-
Crystal studies of B-DNA: hTe answers and the questions
-
Berman,H.M. (1997) Crystal studies of B-DNA: The answers and the questions. Biopolymers, 44, 23-44.
-
(1997)
Biopolymers
, vol.44
, pp. 23-44
-
-
Berman, H.M.1
-
69
-
-
9244229513
-
Crystal structures of 2-acetylaminofluorene and 2-aminofluorene in complex with T7 DNA polymerase reveal mechanisms of mutagenesis
-
Dutta,S., Li,Y., Johnson,D., Dzantiev,L., Richardson,C.C., Romano,L.J. and Ellenberger,T. (2004) Crystal structures of 2-acetylaminofluorene and 2-aminofluorene in complex with T7 DNA polymerase reveal mechanisms of mutagenesis. Proc. Natl Acad. Sci. USA, 101, 16186-16191.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 16186-16191
-
-
Dutta, S.1
Li, Y.2
Johnson, D.3
Dzantiev, L.4
Richardson, C.C.5
Romano, L.J.6
Ellenberger, T.7
-
70
-
-
0037115955
-
How DNA lesions are turned into mutations within cells?
-
Pages,V. and Fuchs,R.P. (2002) How DNA lesions are turned into mutations within cells? Oncogene, 21, 8957-8966.
-
(2002)
Oncogene
, vol.21
, pp. 8957-8966
-
-
Pages, V.1
Fuchs, R.P.2
-
71
-
-
21244506437
-
Eukaryotic translesion synthesis DNA polymerases: Specificity of structure and function
-
Prakash,S., Johnson,R.E. and Prakash,L. (2005) Eukaryotic translesion synthesis DNA polymerases: Specificity of structure and function. Annu. Rev. Biochem., 74, 317-353.
-
(2005)
Annu. Rev. Biochem.
, vol.74
, pp. 317-353
-
-
Prakash, S.1
Johnson, R.E.2
Prakash, L.3
-
72
-
-
1642382214
-
Snapshots of replication through an abasic lesion; structural basis for base substitutions and frameshifts
-
Ling,H., Boudsocq,F., Woodgate,R. and Yang,W. (2004) Snapshots of replication through an abasic lesion; structural basis for base substitutions and frameshifts. Mol. Cell, 13, 751-762.
-
(2004)
Mol. Cell
, vol.13
, pp. 751-762
-
-
Ling, H.1
Boudsocq, F.2
Woodgate, R.3
Yang, W.4
-
73
-
-
31144460784
-
Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion
-
Rechkoblit,O., Malinina,L., Cheng,Y., Kuryavyi,V., Broyde,S., Geacintov,N.E. and Patel,D.J. (2006) Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion. PLoS Biol., 4, e11.
-
(2006)
PLoS Biol.
, vol.4
-
-
Rechkoblit, O.1
Malinina, L.2
Cheng, Y.3
Kuryavyi, V.4
Broyde, S.5
Geacintov, N.E.6
Patel, D.J.7
-
74
-
-
0022577219
-
The base substitution fidelity of eucaryotic DNA polymerases. Mispairing frequencies, site preferences, insertion preferences, and base substitution by dislocation
-
Kunkel,T.A. and Alexander,P.S. (1986) The base substitution fidelity of eucaryotic DNA polymerases. Mispairing frequencies, site preferences, insertion preferences, and base substitution by dislocation. J. Biol. Chem., 261, 160-166.
-
(1986)
J. Biol. Chem.
, vol.261
, pp. 160-166
-
-
Kunkel, T.A.1
Alexander, P.S.2
-
75
-
-
17144362544
-
Site-specific incorporation of N-(deoxyguanosin-8-yl) -2-acetylaminofluorene (dG-AAF) into oligonucleotides using modified 'ultra-mild' DNA synthesis
-
Gillet,L.C., Alzeer,J. and Scharer,O.D. (2005) Site-specific incorporation of N-(deoxyguanosin-8-yl)-2-acetylaminofluorene (dG-AAF) into oligonucleotides using modified 'ultra-mild' DNA synthesis. Nucleic Acids Res., 33, 1961-1969.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 1961-1969
-
-
Gillet, L.C.1
Alzeer, J.2
Scharer, O.D.3
-
76
-
-
0032499635
-
The B-DNA dodecamer at high resolution reveals a spine of water on sodium
-
Shui,X., McFail-Isom,L., Hu,G.G. and Williams,L.D. (1998) The B-DNA dodecamer at high resolution reveals a spine of water on sodium. Biochemistry, 37, 8341-8355.
-
(1998)
Biochemistry
, vol.37
, pp. 8341-8355
-
-
Shui, X.1
McFail-Isom, L.2
Hu, G.G.3
Williams, L.D.4
-
77
-
-
0036280690
-
Accurate representation of B-DNA double helical structure with implicit solvent and counterions
-
Wang,L., Hingerty,B.E., Srinivasan,A.R., Olson,W.K. and Broyde,S. (2002) Accurate representation of B-DNA double helical structure with implicit solvent and counterions. Biophys. J., 83, 382-406.
-
(2002)
Biophys. J.
, vol.83
, pp. 382-406
-
-
Wang, L.1
Hingerty, B.E.2
Srinivasan, A.R.3
Olson, W.K.4
Broyde, S.5
-
78
-
-
0030657472
-
Base pair conformation-dependent excision of benzo[a]pyrene diol epoxide-guanine adducts by human nucleotide excision repair enzymes
-
Hess,M.T., Gunz,D., Luneva,N., Geacintov,N.E. and Naegeli,H. (1997) Base pair conformation-dependent excision of benzo[a]pyrene diol epoxide-guanine adducts by human nucleotide excision repair enzymes. Mol. Cell. Biol., 17, 7069-7076.
-
(1997)
Mol. Cell. Biol.
, vol.17
, pp. 7069-7076
-
-
Hess, M.T.1
Gunz, D.2
Luneva, N.3
Geacintov, N.E.4
Naegeli, H.5
-
79
-
-
0032821162
-
Distinct roles for Rev1p and Rev7p during translesion synthesis in Saccharomyces cerevisiae
-
Baynton,K., Bresson-Roy,A. and Fuchs,R.P. (1999) Distinct roles for Rev1p and Rev7p during translesion synthesis in Saccharomyces cerevisiae. Mol. Microbiol., 34, 124-133.
-
(1999)
Mol. Microbiol.
, vol.34
, pp. 124-133
-
-
Baynton, K.1
Bresson-Roy, A.2
Fuchs, R.P.3
-
80
-
-
0003458038
-
Sugar puckering modes: The pseudorotation cycle
-
Cantor,C.R. (ed.), Springer-Verlag, NY
-
Saenger,W. (1984) Sugar puckering modes: The pseudorotation cycle. In Cantor,C.R. (ed.), Principles of Nucleic Acid Structure. Springer-Verlag, NY, pp. 17-21.
-
(1984)
Principles of Nucleic Acid Structure
, pp. 17-21
-
-
Saenger, W.1
|