Molecular modeling benzo[a]pyrene N2-dG adducts in the two overlapping active sites of the Y-family DNA polymerase Dpo4.

[1]  E. Loechler,et al.  Homology modeling of four Y-family, lesion-bypass DNA polymerases: the case that E. coli Pol IV and human Pol kappa are orthologs, and E. coli Pol V and human Pol eta are orthologs. , 2006, Journal of molecular graphics & modelling.

[2]  Jun Yin,et al.  Mirror image stereoisomers of the major benzo[a]pyrene N2-dG adduct are bypassed by different lesion-bypass DNA polymerases in E. coli. , 2006, DNA repair.

[3]  J. Essigmann,et al.  A single amino acid governs enhanced activity of DinB DNA polymerases on damaged templates , 2006, Nature.

[4]  Yuan Cheng,et al.  Stepwise Translocation of Dpo4 Polymerase during Error-Free Bypass of an oxoG Lesion , 2006, PLoS biology.

[5]  M. Egli,et al.  Efficient and High Fidelity Incorporation of dCTP Opposite 7,8-Dihydro-8-oxodeoxyguanosine by Sulfolobus solfataricus DNA Polymerase Dpo4* , 2005, Journal of Biological Chemistry.

[6]  A. Nagalingam,et al.  Mutagenesis studies with four stereoisomeric N2-dG benzo[a]pyrene adducts in the identical 5'-CGC sequence used in NMR studies: G->T mutations dominate in each case. , 2005, Mutagenesis.

[7]  R. Woodgate,et al.  Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis , 2005, The EMBO journal.

[8]  M. Egli,et al.  DNA Adduct Bypass Polymerization by Sulfolobus solfataricus DNA Polymerase Dpo4 , 2005, Journal of Biological Chemistry.

[9]  E. Loechler,et al.  Free-energy perturbation methods to study structure and energetics of DNA adducts: results for the major N2-dG adduct of benzo[a]pyrene in two conformations and different sequence contexts. , 2005, Chemical Research in Toxicology.

[10]  Z. Livneh,et al.  Quantitative Analysis of Translesion DNA Synthesis across a Benzo[a]pyrene-Guanine Adduct in Mammalian Cells , 2004, Journal of Biological Chemistry.

[11]  Robert E. Johnson,et al.  Crystal structure of the catalytic core of human DNA polymerase kappa. , 2004, Structure.

[12]  Satya Prakash,et al.  Replication by human DNA polymerase-ι occurs by Hoogsteen base-pairing , 2004, Nature.

[13]  R. Woodgate,et al.  Snapshots of replication through an abasic lesion; structural basis for base substitutions and frameshifts. , 2004, Molecular cell.

[14]  Jun Yin,et al.  A role for DNA polymerase V in G --> T mutations from the major benzo[a]pyrene N2-dG adduct when studied in a 5'-TGT sequence in E. coli. , 2004, DNA repair.

[15]  D. Jerina,et al.  Crystal structure of a benzo[a]pyrene diol epoxide adduct in a ternary complex with a DNA polymerase. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[16]  J. Strathern,et al.  Error-prone DNA polymerases: when making a mistake is the only way to get ahead. , 2003, Annual review of genetics.

[17]  R. Woodgate,et al.  Replication of a cis–syn thymine dimer at atomic resolution , 2003, Nature.

[18]  P. Hainaut,et al.  On the origin of G --> T transversions in lung cancer. , 2003, Mutation research.

[19]  Yanbin Zhang,et al.  Effects of base sequence context on translesion synthesis past a bulky (+)-trans-anti-B[a]P-N2-dG lesion catalyzed by the Y-family polymerase pol kappa. , 2003, Biochemistry.

[20]  Wei Yang Damage repair DNA polymerases Y. , 2003, Current opinion in structural biology.

[21]  Yanbin Zhang,et al.  Two-step error-prone bypass of the (+)- and (−)-trans-anti-BPDE-N2-dG adducts by human DNA polymerases η and κ , 2002 .

[22]  R. Fuchs,et al.  How DNA lesions are turned into mutations within cells? , 2002, Oncogene.

[23]  Y. Shinkai,et al.  Polκ protects mammalian cells against the lethal and mutagenic effects of benzo[a]pyrene , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[24]  Yanbin Zhang,et al.  trans-Lesion Synthesis Past Bulky Benzo[a]pyrene Diol Epoxide N 2-dG and N 6-dA Lesions Catalyzed by DNA Bypass Polymerases* , 2002, The Journal of Biological Chemistry.

[25]  Yanbin Zhang,et al.  Activities of human DNA polymerase kappa in response to the major benzo[a]pyrene DNA adduct: error-free lesion bypass and extension synthesis from opposite the lesion. , 2002, DNA repair.

[26]  H. Berman,et al.  Electronic Reprint Biological Crystallography the Protein Data Bank Biological Crystallography the Protein Data Bank , 2022 .

[27]  M. Radman,et al.  Specialized DNA Polymerases, Cellular Survival, and the Genesis of Mutations , 2002, Science.

[28]  R. Woodgate,et al.  Structure-based interpretation of missense mutations in Y-family DNA polymerases and their implications for polymerase function and lesion bypass. , 2002, DNA repair.

[29]  A. Grollman,et al.  Translesion synthesis by human DNA polymerase kappa on a DNA template containing a single stereoisomer of dG-(+)- or dG-(-)-anti-N(2)-BPDE (7,8-dihydroxy-anti-9,10-epoxy-7,8,9,10-tetrahydrobenzo[a]pyrene). , 2002, Biochemistry.

[30]  D. Jerina,et al.  Preferential Misincorporation of Purine Nucleotides by Human DNA Polymerase η Opposite Benzo[a]pyrene 7,8-Diol 9,10-Epoxide Deoxyguanosine Adducts* , 2002, The Journal of Biological Chemistry.

[31]  J. Wagner,et al.  Genetics of mutagenesis in E. coli: various combinations of translesion polymerases (Pol II, IV and V) deal with lesion/sequence context diversity. , 2002, DNA repair.

[32]  B. Strauss The "A" rule revisited: polymerases as determinants of mutational specificity. , 2002, DNA repair.

[33]  E. Koonin,et al.  Eukaryotic DNA Polymerases: Proposal for a Revised Nomenclature* , 2001, The Journal of Biological Chemistry.

[34]  R. Woodgate,et al.  Crystal Structure of a Y-Family DNA Polymerase in Action A Mechanism for Error-Prone and Lesion-Bypass Replication , 2001, Cell.

[35]  T. Steitz,et al.  Crystal structure of a DinB lesion bypass DNA polymerase catalytic fragment reveals a classic polymerase catalytic domain. , 2001, Molecular cell.

[36]  Robert E. Johnson,et al.  Structure of the catalytic core of S. cerevisiae DNA polymerase eta: implications for translesion DNA synthesis. , 2001, Molecular cell.

[37]  Z. Wang Translesion synthesis by the UmuC family of DNA polymerases. , 2001, Mutation research.

[38]  T. Kunkel,et al.  The Y-family of DNA polymerases. , 2001, Molecular cell.

[39]  Yanbin Zhang,et al.  Error-prone lesion bypass by human DNA polymerase eta. , 2000, Nucleic acids research.

[40]  J. Wagner,et al.  All three SOS‐inducible DNA polymerases (Pol II, Pol IV and Pol V) are involved in induced mutagenesis , 2000, The EMBO journal.

[41]  R. Fuchs,et al.  The processing of a Benzo(a)pyrene adduct into a frameshift or a base substitution mutation requires a different set of genes in Escherichia coli , 2000, Molecular microbiology.

[42]  Robert E. Johnson,et al.  Accuracy of thymine-thymine dimer bypass by Saccharomyces cerevisiae DNA polymerase eta. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[43]  Satya Prakash,et al.  Fidelity of Human DNA Polymerase η* , 2000, The Journal of Biological Chemistry.

[44]  Robert E. Johnson,et al.  Fidelity and Processivity of Saccharomyces cerevisiae DNA Polymerase η* , 1999, The Journal of Biological Chemistry.

[45]  D. Jerina,et al.  Characterization of the mutational profile of (+)-7R,8S-dihydroxy-9S, 10R-epoxy-7,8,9,10-tetrahydrobenzo[a]pyrene at the hypoxanthine (guanine) phosphoribosyltransferase gene in repair-deficient Chinese hamster V-H1 cells. , 1999, Carcinogenesis.

[46]  Robert E. Johnson,et al.  Bridging the gap: a family of novel DNA polymerases that replicate faulty DNA. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[47]  Robert E. Johnson,et al.  hRAD30 mutations in the variant form of xeroderma pigmentosum. , 1999, Science.

[48]  Chikahide Masutani,et al.  The XPV (xeroderma pigmentosum variant) gene encodes human DNA polymerase η , 1999, Nature.

[49]  D. Jerina,et al.  The ratio of deoxyadenosine to deoxyguanosine adducts formed by (+)-(7R,8S,9S,10R)-7,8-dihydroxy-9,10-epoxy-7,8,9,10- tetrahydrobenzo[a]pyrene in purified calf thymus DNA and DNA in V-79 cells is independent of dose. , 1999, International journal of oncology.

[50]  Robert E. Johnson,et al.  Efficient bypass of a thymine-thymine dimer by yeast DNA polymerase, Poleta. , 1999, Science.

[51]  E. Cavalieri,et al.  Expanded analysis of benzo[a]pyrene-DNA adducts formed in vitro and in mouse skin: their significance in tumor initiation. , 1996, Chemical research in toxicology.

[52]  J. Pelling,et al.  Relating aromatic hydrocarbon-induced DNA adducts and c-H-ras mutations in mouse skin papillomas: the role of apurinic sites. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[53]  T. Krugh,et al.  Structural characterization of a (+)-trans-anti-benzo[a]pyrene-DNA adduct using NMR, restrained energy minimization, and molecular dynamics. , 1995, Biochemistry.

[54]  S. Y. Zhang,et al.  Murine squamous cell carcinoma cell lines produced by a complete carcinogenesis protocol with benzo[a]pyrene exhibit characteristic p53 mutations and the absence of H-ras and cyl 1/cyclin D1 abnormalities. , 1994, Carcinogenesis.

[55]  E. Loechler,et al.  Mutational specificity of the (+)-anti-diol epoxide of benzo[a]pyrene in a supF gene of an Escherichia coli plasmid: DNA sequence context influences hotspots, mutagenic specificity and the extent of SOS enhancement of mutagenesis. , 1993, Carcinogenesis.

[56]  E. Loechler,et al.  Mutagenesis by the (+)-anti-diol epoxide of benzo[a]pyrene: what controls mutagenic specificity? , 1993, Biochemistry.

[57]  D. Patel,et al.  Influence of benzo[a]pyrene diol epoxide chirality on solution conformations of DNA covalent adducts: the (-)-trans-anti-[BP]G.C adduct structure and comparison with the (+)-trans-anti-[BP]G.C enantiomer. , 1992, Biochemistry.

[58]  D. Patel,et al.  Solution conformation of the major adduct between the carcinogen (+)-anti-benzo[a]pyrene diol epoxide and DNA. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[59]  Lennart Nilsson,et al.  Empirical energy functions for energy minimization and dynamics of nucleic acids , 1986 .

[60]  D. Grunberger,et al.  Molecular Biology of Mutagens and Carcinogens , 1983, Springer US.

[61]  D. Phillips Fifty years of benzo(a)pyrene , 1983, Nature.

[62]  A. Conney,et al.  Induction of microsomal enzymes by foreign chemicals and carcinogenesis by polycyclic aromatic hydrocarbons: G. H. A. Clowes Memorial Lecture. , 1982, Cancer research.

[63]  W. Haseltine,et al.  UV-induced mutation hotspots occur at DNA damage hotspots , 1982, Nature.

[64]  R. Niessner,et al.  polynuclear aromatic hydrocarbons , 2017 .

[65]  T. Kunkel,et al.  Functions of DNA polymerases. , 2004, Advances in protein chemistry.

[66]  Robert E. Johnson,et al.  Dpo4 is hindered in extending a G·T mismatch by a reverse wobble , 2004, Nature Structural &Molecular Biology.

[67]  G. Maga,et al.  Eukaryotic DNA polymerases. , 2002, Annual review of biochemistry.

[68]  M. Goodman Error-prone repair DNA polymerases in prokaryotes and eukaryotes. , 2002, Annual review of biochemistry.

[69]  E. Friedberg Why do cells have multiple error‐prone DNA polymerases? , 2001, Environmental and molecular mutagenesis.

[70]  Alexander D. MacKerell,et al.  Development and current status of the CHARMM force field for nucleic acids , 2000, Biopolymers.

[71]  C. Cooper,et al.  Chemical Carcinogenesis and Mutagenesis I , 1990, Handbook of Experimental Pharmacology.

[72]  A. Dipple,et al.  Polycyclic aromatic hydrocarbon carcinogens. , 1990, Progress in clinical and biological research.

[73]  A. Balmain,et al.  Oncogene activation in chemical carcinogenesis. , 1988, Advances in cancer research.

[74]  P. Grasso Carcinogens in Food , 1983 .