USC.edu

Myron Goodman

Professor of Biological Sciences and Chemistry
Myron Goodman
Email mgoodman@usc.edu Office RRI 119C Office Phone (213) 740-5190

Research & Practice Areas

DNA replication

Video

Education

  • Ph.D. Electrical Engineering, Johns Hopkins University, 1/1968
  • B.S. Electrical Engineering, Columbia University, 1/1966
  • B.S. , Queens College, New York, 1/1961

  • Summary Statement of Research Interests

    Professor Goodman’s primary research goal is to understand the molecular basis of mutagenesis.

    Currently, his work focuses on three major projects. In the first, Goodman’s team is investigating biochemical and physical-chemical mechanisms governing DNA replication fidelity. He has developed a simple polyacrylamide gel electrophoresis assay to measure DNA synthesis fidelity at any DNA template site, and is analyzing how fidelity depends on DNA polymerases, DNA sequences, and on protein components of the replication complex. His second research project examines the biochemical basis of SOS-induced error prone repair in E. coli. Professor Goodman’s third project identifies and studies normal and damage-induced DNA replication, repair, and nucleotide metabolisms enzymes using neuron and astrocyte primary and transformed cell cultures.

  • Journal Article

    • Ojha, D., Jaszczur, M. M., Sikand, A., McDonald, J. P., Robinson, A., van, A. M., Mak, C. H., Pinaud, F., Cox, M. M., Woodgate, R., Goodman, M. F. (2022). Host cell RecA activates a mobile element-encoded mutagenic DNA polymerase. Nucleic acids research. Vol. 50 (12), pp. 6854-6869. PubMed Web Address
    • Pham, P., Shao, Y., Cox, M. M., Goodman, M. F. (2022). Genomic landscape of single-stranded DNA gapped intermediates in Escherichia coli. Nucleic acids research. Vol. 50 (2), pp. 937-951. PubMed Web Address
    • Sikand, A., Jaszczur, M., Bloom, L. B., Woodgate, R., Cox, M. M., Goodman, M. F. (2021). The SOS Error-Prone DNA Polymerase V Mutasome and β-Sliding Clamp Acting in Concert on Undamaged DNA and during Translesion Synthesis. Cells. Vol. 10 (5) PubMed Web Address
    • Reha-Krantz, L. J., Goodman, M. F. (2020). John W. (Jan) Drake: A Biochemical View of a Geneticist Par Excellence. Genetics. Vol. 216 (4), pp. 827-836. PubMed Web Address
    • Henrikus, S. S., Henry, C., McGrath, A. E., Jergic, S., McDonald, J. P., Hellmich, Y., Bruckbauer, S. T., Ritger, M. L., Cherry, M. E., Wood, E. A., Pham, P. T., Goodman, M. F., Woodgate, R., Cox, M. M., van, A. M., Ghodke, H., Robinson, A. (2020). Single-molecule live-cell imaging reveals RecB-dependent function of DNA polymerase IV in double strand break repair. Nucleic acids research. Vol. 48 (15), pp. 8490-8508. PubMed Web Address
    • Batra, V. K., Alnajjar, K. S., Sweasy, J. B., McKenna, C. E., Goodman, M. F., Wilson, S. H. (2020). Revealing an Internal Stabilization Deficiency in the DNA Polymerase β K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry. Vol. 59 (8), pp. 955-963. PubMed Web Address
    • Alnajjar, K. S., Krylov, I. S., Negahbani, A., Haratipour, P., Kashemirov, B. A., Huang, J., Mahmoud, M., McKenna, C. E., Goodman, M. F., Sweasy, J. B. (2019). A pre-catalytic non-covalent step governs DNA polymerase β fidelity. Nucleic acids research. Vol. 47 (22), pp. 11839-11849. PubMed Web Address
    • Walsh, E., Henrikus, S. S., Vaisman, A., Makiela-Dzbenska, K., Armstrong, T. J., Lazowski, K., McDonald, J. P., Goodman, M. F., van, A. M., Jonczyk, P., Fijalkowska, I. J., Robinson, A., Woodgate, R. (2019). Role of RNase H enzymes in maintaining genome stability in Escherichia coli expressing a steric-gate mutant of pol V(ICE391). DNA repair. Vol. 84, pp. 102685. PubMed Web Address
    • Pham, P., Malik, S., Mak, C., Calabrese, P. C., Roeder, R. G., Goodman, M. F. (2019). AID-RNA polymerase II transcription-dependent deamination of IgV DNA. Nucleic acids research. Vol. 47 (20), pp. 10815-10829. PubMed Web Address
    • Mak, C. H., Pham, P., Goodman, M. F. (2019). Random Walk Enzymes: Information Theory, Quantum Isomorphism, and Entropy Dispersion. The journal of physical chemistry. A. Vol. 123 (13), pp. 3030-3037. PubMed Web Address
    • Oertell, K., Florián, J., Haratipour, P., Crans, D. C., Kashemirov, B. A., Wilson, S. H., McKenna, C. E., Goodman, M. F. (2019). A Transition-State Perspective on Y-Family DNA Polymerase η Fidelity in Comparison with X-Family DNA Polymerases λ and β. Biochemistry. Vol. 58 (13), pp. 1764-1773. PubMed Web Address
    • Oertell, K., Kashemirov, B. A., Negahbani, A., Minard, C., Haratipour, P., Alnajjar, K. S., Sweasy, J. B., Batra, V. K., Beard, W. A., Wilson, S. H., McKenna, C. E., Goodman, M. F. (2018). Probing DNA Base-Dependent Leaving Group Kinetic Effects on the DNA Polymerase Transition State. Biochemistry. Vol. 57 (26), pp. 3925-3933. PubMed Web Address
    • Batra, V. K., Oertell, K., Beard, W. A., Kashemirov, B. A., McKenna, C. E., Goodman, M. F., Wilson, S. H. (2018). Mapping Functional Substrate-Enzyme Interactions in the pol β Active Site through Chemical Biology: Structural Responses to Acidity Modification of Incoming dNTPs. Biochemistry. Vol. 57 (26), pp. 3934-3944. PubMed Web Address
    • Goodman, M. F. (2018). Smoking gun for a rare mutation mechanism. Nature. Vol. 554 (7691), pp. 180-181. PubMed Web Address
    • Goodman, M. F. (2018). Smoking gun for a rare mutation mechanism. Nature. Vol. 554 (7691), pp. 180-181. PubMed Web Address
    • Alnajjar, K. S., Negahbani, A., Nakhjiri, M., Krylov, I. S., Kashemirov, B. A., McKenna, C. E., Goodman, M. F., Sweasy, J. B. (2017). DNA Polymerase β Cancer-Associated Variant I260M Exhibits Nonspecific Selectivity toward the β-γ Bridging Group of the Incoming dNTP. Biochemistry. Vol. 56 (40), pp. 5449-5456. PubMed Web Address
    • Petruska, J., Goodman, M. F. (2017). Relating DNA base-pairing in aqueous media to DNA polymerase fidelity. Nature reviews. Chemistry. Vol. 1 (9) PubMed Web Address
    • Pham, P., Afif, S. A., Shimoda, M., Maeda, K., Sakaguchi, N., Pedersen, L. C., Goodman, M. F. (2017). Activation-induced deoxycytidine deaminase: Structural basis for favoring WRC hot motif specificities unique among APOBEC family members. DNA repair. Vol. 54, pp. 8-12. PubMed Web Address
    • Alnajjar, K. S., Garcia-Barboza, B., Negahbani, A., Nakhjiri, M., Kashemirov, B., McKenna, C., Goodman, M. F., Sweasy, J. B. (2017). A Change in the Rate-Determining Step of Polymerization by the K289M DNA Polymerase β Cancer-Associated Variant. Biochemistry. Vol. 56 (15), pp. 2096-2105. PubMed Web Address
    • Pham, P., Afif, S. A., Shimoda, M., Maeda, K., Sakaguchi, N., Pedersen, L. C., Goodman, M. F. (2016). Structural analysis of the activation-induced deoxycytidine deaminase required in immunoglobulin diversification. DNA repair. Vol. 43, pp. 48-56. PubMed Web Address
    • Senavirathne, G., Bertram, J. G., Jaszczur, M., Chaurasiya, K. R., Pham, P., Mak, C. H., Goodman, M. F., Rueda, D. (2015). Activation-induced deoxycytidine deaminase (AID) co-transcriptional scanning at single-molecule resolution. Nature communications. Vol. 6, pp. 10209. PubMed Web Address
    • Robinson, A., McDonald, J. P., Caldas, V. E., Patel, M., Wood, E. A., Punter, C. M., Ghodke, H., Cox, M. M., Woodgate, R., Goodman, M. F., van, A. M. (2015). Regulation of Mutagenic DNA Polymerase V Activation in Space and Time. PLoS genetics. Vol. 11 (8), pp. e1005482. PubMed Web Address
    • Kadina, A. P., Kashemirov, B. A., Oertell, K., Batra, V. K., Wilson, S. H., Goodman, M. F., McKenna, C. E. (2015). Two Scaffolds from Two Flips: (α,β)/(β,γ) CH2/NH “Met-Im” Analogues of dTTP. Organic letters. Vol. 17 (11), pp. 2586-9. PubMed Web Address
    • Wei, L., Chahwan, R., Wang, S., Wang, X., Pham, P. T., Goodman, M. F., Bergman, A., Scharff, M. D., MacCarthy, T. (2015). Overlapping hotspots in CDRs are critical sites for V region diversification. Proceedings of the National Academy of Sciences of the United States of America. Vol. 112 (7), pp. E728-37. PubMed Web Address
    • Shakhmin, A., Jones, J. P., Bychinskaya, I., Zibinsky, M., Oertell, K., Goodman, M. F., Prakash, G. K. (2014). Preparation of fluorinated RNA nucleotide analogs potentially stable to enzymatic hydrolysis in RNA and DNA polymerase assays. Journal of fluorine chemistry. Vol. 167, pp. 226-230. PubMed Web Address
    • Oertell, K., Chamberlain, B. T., Wu, Y., Ferri, E., Kashemirov, B. A., Beard, W. A., Wilson, S. H., McKenna, C. E., Goodman, M. F. (2014). Transition state in DNA polymerase β catalysis: rate-limiting chemistry altered by base-pair configuration. Biochemistry. Vol. 53 (11), pp. 1842-8. PubMed Web Address
    • Donigan, K. A., McLenigan, M. P., Yang, W., Goodman, M. F., Woodgate, R. (2014). The steric gate of DNA polymerase ι regulates ribonucleotide incorporation and deoxyribonucleotide fidelity. The Journal of biological chemistry. Vol. 289 (13), pp. 9136-45. PubMed Web Address
    • Vaisman, A., McDonald, J. P., Noll, S., Huston, D., Loeb, G., Goodman, M. F., Woodgate, R. (2014). Investigating the mechanisms of ribonucleotide excision repair in Escherichia coli. Mutation research. Vol. 761, pp. 21-33. PubMed Web Address
    • Reha-Krantz, L. J., Woodgate, S., Goodman, M. F. (2014). Engineering processive DNA polymerases with maximum benefit at minimum cost. Frontiers in microbiology. Vol. 5, pp. 380. PubMed Web Address
    • Mak, C. H., Pham, P., Afif, S. A., Goodman, M. F. (2013). A mathematical model for scanning and catalysis on single-stranded DNA, illustrated with activation-induced deoxycytidine deaminase. The Journal of biological chemistry. Vol. 288 (41), pp. 29786-95. PubMed Web Address
    • Pham, P., Landolph, A., Mendez, C., Li, N., Goodman, M. F. (2013). A biochemical analysis linking APOBEC3A to disparate HIV-1 restriction and skin cancer. The Journal of biological chemistry. Vol. 288 (41), pp. 29294-304. PubMed Web Address
    • Pomerantz, R. T., Goodman, M. F., O’Donnell, M. E. (2013). DNA polymerases are error-prone at RecA-mediated recombination intermediates. Cell cycle (Georgetown, Tex.). Vol. 12 (16), pp. 2558-63. PubMed Web Address
    • Pomerantz, R. T., Kurth, I., Goodman, M. F., O’Donnell, M. E. (2013). Preferential D-loop extension by a translesion DNA polymerase underlies error-prone recombination. Nature structural & molecular biology. Vol. 20 (6), pp. 748-55. PubMed Web Address
    • Indiani, C., Patel, M., Goodman, M. F., O’Donnell, M. E. (2013). RecA acts as a switch to regulate polymerase occupancy in a moving replication fork. Proceedings of the National Academy of Sciences of the United States of America. Vol. 110 (14), pp. 5410-5. PubMed Web Address
    • Singh, S. K., Maeda, K., Eid, M. M., Almofty, S. A., Ono, M., Pham, P., Goodman, M. F., Sakaguchi, N. (2013). GANP regulates recruitment of AID to immunoglobulin variable regions by modulating transcription and nucleosome occupancy. Nature communications. Vol. 4, pp. 1830. PubMed Web Address
    • Klvana, M., Murphy, D. L., Jerábek, P., Goodman, M. F., Warshel, A., Sweasy, J. B., Florián, J. (2012). Catalytic effects of mutations of distant protein residues in human DNA polymerase β: theory and experiment. Biochemistry. Vol. 51 (44), pp. 8829-43. PubMed Web Address
    • Oertell, K., Wu, Y., Zakharova, V. M., Kashemirov, B. A., Shock, D. D., Beard, W. A., Wilson, S. H., McKenna, C. E., Goodman, M. F. (2012). Effect of β,γ-CHF- and β,γ-CHCl-dGTP halogen atom stereochemistry on the transition state of DNA polymerase β. Biochemistry. Vol. 51 (43), pp. 8491-501. PubMed Web Address
    • Kuban, W., Vaisman, A., McDonald, J. P., Karata, K., Yang, W., Goodman, M. F., Woodgate, R. (2012). Escherichia coli UmuC active site mutants: effects on translesion DNA synthesis, mutagenesis and cell survival. DNA repair. Vol. 11 (9), pp. 726-32. PubMed Web Address
    • Vaisman, A., Kuban, W., McDonald, J. P., Karata, K., Yang, W., Goodman, M. F., Woodgate, R. (2012). Critical amino acids in Escherichia coli UmuC responsible for sugar discrimination and base-substitution fidelity. Nucleic acids research. Vol. 40 (13), pp. 6144-57. PubMed Web Address
    • Wu, Y., Zakharova, V. M., Kashemirov, B. A., Goodman, M. F., Batra, V. K., Wilson, S. H., McKenna, C. E. (2012). β,γ-CHF- and β,γ-CHCl-dGTP diastereomers: synthesis, discrete 31P NMR signatures, and absolute configurations of new stereochemical probes for DNA polymerases. Journal of the American Chemical Society. Vol. 134 (21), pp. 8734-7. PubMed Web Address
    • Senavirathne, G., Jaszczur, M., Auerbach, P. A., Upton, T. G., Chelico, L., Goodman, M. F., Rueda, D. (2012). Single-stranded DNA scanning and deamination by APOBEC3G cytidine deaminase at single molecule resolution. The Journal of biological chemistry. Vol. 287 (19), pp. 15826-35. PubMed Web Address
    • Karata, K., Vaisman, A., Goodman, M. F., Woodgate, R. (2012). Simple and efficient purification of Escherichia coli DNA polymerase V: cofactor requirements for optimal activity and processivity in vitro. DNA repair. Vol. 11 (4), pp. 431-40. PubMed Web Address
    • Chamberlain, B. T., Batra, V. K., Beard, W. A., Kadina, A. P., Shock, D. D., Kashemirov, B. A., McKenna, C. E., Goodman, M. F., Wilson, S. H. (2012). Stereospecific formation of a ternary complex of (S)-α,β-fluoromethylene-dATP with DNA pol β. Chembiochem : a European journal of chemical biology. Vol. 13 (4), pp. 528-30. PubMed Web Address
    • Wu, Y., Zakharova, V., Kashemirov, B., Goodman, M. F., Batra, V., Wilson, S. H., McKenna, C. E. (2012). beta,gamma-CHF- and CHCI-dGTP diastereomers: synthesis, discrete P NMR signatures and absolute configurations of new stereochemical probes for DNA polymerases.
    • McDonald, J. P., Vaisman, A., Kuban, W., Goodman, M. F., Woodgate, R. (2012). Mechanisms employed by Escherichia coli to prevent ribonucleotide incorporation into genomic DNA by Pol V. PLoS genetics. Vol. 8 (11), pp. e1003030. PubMed Web Address
    • Klvana, M., Jerábek, P., Goodman, M. F., Florián, J. (2011). An abridged transition state model to derive structure, dynamics, and energy components of DNA polymerase β fidelity. Biochemistry. Vol. 50 (32), pp. 7023-32. PubMed Web Address
    • Pham, P., Calabrese, P., Park, S. J., Goodman, M. F. (2011). Analysis of a single-stranded DNA-scanning process in which activation-induced deoxycytidine deaminase (AID) deaminates C to U haphazardly and inefficiently to ensure mutational diversity. The Journal of biological chemistry. Vol. 286 (28), pp. 24931-42. PubMed Web Address
    • Yamanaka, K., Minko, I. G., Finkel, S. E., Goodman, M. F., Lloyd, R. S. (2011). Role of high-fidelity Escherichia coli DNA polymerase I in replication bypass of a deoxyadenosine DNA-peptide cross-link. Journal of Bacteriology. Vol. 193, pp. 3815-3821.
    • Klvana, M., Jerabeek, P., Goodman, M. F., Florian, J. (2011). An abridged transition state model to derive structure, dynamics, and energy components of DNA polymerase beta fidelity. Biochemistry. Vol. 50, pp. 7023-7032.
    • Goodman, M. F. (2011). An Accidental Biochemist. DNA Repair.
    • Chamberlain, B. T., Batra, V. K., Beard, W. A., Kadina, A. P., Shock, D. D., Kashemirov, B. A., McKenna, C. E., Goodman, M. F., Wilson, S. H. (2011). Stereospecific Formation of a Ternary Complex of (S)-alpha,beta-fluoromethylene-dATP with DNA Pol beta. ChemBioChem.
    • Pham, P., Calabrese, P., Park, S. J., Goodman, M. F. (2011). Analysis of a single-stranded DNA scanning process in which activation-induced deoxycytidine deaminaase (AID) deaminates C to U haphazardly and inefficiently to ensure mutational diversity. Journal of Biological Chemistry. Vol. 286, pp. 24931-24942.
    • Senavirathne, G., Jaszczur, M., Auerbach, P. A., Upton, T. G., Chelico, L., Goodman, M. F., Rueda, D. (2011). Single-stranded DNA scanning and deamination by APOBEC3G.
    • Vaisman, A., Kuban, W., McDonald, J. P., Karata, K., Yang, W., Goodman, M. F., Woodgate, R. (2011). Critical amino acids in E. coli UmuC responsible for sugar discrimination and translesion synthesis.
    • Pomernatz, R., Kurth, I., Goodman, M. F., O’Donnell, M. A. (2011). A Dominant Role for an Error-Prone DNA Polymerase in Recombination Drives Evolution.
    • Karata, K., Vaisman, A., Goodman, M. F., Woodgate, R. (2011). Simple and efficient purification of E. coli DNA polymerase V: cofactor requirements for optimal activity and processivity in vitro.
    • Surya, G. K., Zibinsky, M., Upton, T. G., Kashemirov, B. A., McKenna, C. E., Oertell, K., Goodman, M. F., Batra, V. K., Pedersen, L. C., Beard, W. A., Shock, D. D., Wilson, S. H., Olah, G. A. (2010). Synthesis and biological evaluation of fluorinated deoxynucleotide analogs based on bis-(difluoromethylene)triphosphoric acid. Proceedings of the National Academy of Sciences of the United States of America. Vol. 107 (36), pp. 15693-8. PubMed Web Address
    • Maeda, K., Singh, S. K., Eda, K., Kitabatake, M., Pham, P., Goodman, M. F., Sakaguchi, N. (2010). GANP-mediated recruitment of activation-induced cytidine deaminase to cell nuclei and to immunoglobulin variable region DNA. The Journal of biological chemistry. Vol. 285 (31), pp. 23945-53. PubMed Web Address
    • Batra, V. K., Pedersen, L. C., Beard, W. A., Wilson, S. H., Kashemirov, B. A., Upton, T. G., Goodman, M. F., McKenna, C. E. (2010). Halogenated beta,gamma-methylene- and ethylidene-dGTP-DNA ternary complexes with DNA polymerase beta: structural evidence for stereospecific binding of the fluoromethylene analogues. Journal of the American Chemical Society. Vol. 132 (22), pp. 7617-25. PubMed Web Address
    • Bertram, J. G., Oertell, K., Petruska, J., Goodman, M. F. DNA polymerase fidelity: comparing direct competition of right and wrong dNTP substrates with steady state and pre-steady state kinetics. Biochemistry. Vol. 49. 2010 2010:20-28
    • McKenna, C. E., Kashemirov, B. A., Peterson, L. W., Goodman, M. F. Modifications to the dNTP triphosphate moiety: from mechanistic probes for DNA polymerases to antiviral and anti-cancer drug design. Biochim Biophys Acta. Vol. 1804. 2010:1223-1230
    • Chelico, L., Prochnow, C., Erie, D. A., Chen, X. S., Goodman, M. F. A structural model for deoxycytidine deamination mechanisms of the HIV-1 inactivation enzyme APOBEC3G. J Biol. Chem. Vol. 285. 2010:16195-16205
    • Batra, V., Pedersen, L. C., Beard, W. A., Wilson, S. H., Kashemirov, B. A., Upton, T. G., Goodman, M. F., McKenna, C. E. Halogenated beta,gamma methylene- and ethylidene-dGTP-DNA ternary complexes with DNA polymerase beta: structural evidence for stereospecific binding of the fluoromethylene analogues. J AM. Chem.. Vol. 132. 2010:7617-7625
    • Patel, M., Jiang, Q., Woodgate, R., Cox, M. M., Goodman, M. F. A new model for SOS-induced mutagenesis: how RecA protein activates DNA polymerase V. Crit Rev. Biochem, Molec. Biol.. Vol. 45. 2010:171-184
    • Maeda, K., Singh, S. K., Eda, K., Kitabatake, M., Pham, P., Goodman, M. F., Sakaguchi, N. GANP-mediated Recruitment of Activation-induced Cytidine Deaminase to Cell Nuclei and Immunoglobulin Variable Region DNA. J Biol. Chem.. Vol. 285. 2010:23945-23953
    • Prakash, G. S., Zibinsky, M., Upton, T., Kashemirov, B. A., McKenna, C. E., Oertell, K., Goodman, M. F., Batra, V. K., Pedersen, L. C., Beard, W. A., Shock, D. D., Wilson, S. H., Olah, G. A. Synthesis and biological evaluation of evaluation of fluorinated deoxynucleotide analogs based on bis(difluoremethylene)triphosphoric acid. Proc. Natl. Acad. Sci. Vol. Synthesis. 107 2010:15693-15698
    • Jiang, Q., Karata, K., Woodgate, R., Cox, M. M., Goodman, M. F. (2009). The active form of DNA polymerase V is UmuD'(2)C-RecA-ATP. Nature. Vol. 460 (7253), pp. 359-63. PubMed Web Address
    • MacCarthy, T., Kalis, S. L., Roa, S., Pham, P., Goodman, M. F., Scharff, M. D., Bergman, A. (2009). V-region mutation in vitro, in vivo, and in silico reveal the importance of the enzymatic properties of AID and the sequence environment. Proceedings of the National Academy of Sciences of the United States of America. Vol. 106 (21), pp. 8629-34. PubMed Web Address
    • Chelico, L., Pham, P., Goodman, M. F. (2009). Mechanisms of APOBEC3G-catalyzed processive deamination of deoxycytidine on single-stranded DNA. Nature structural & molecular biology. Vol. 16 (5), pp. 454-5; author reply 455-6. PubMed Web Address
    • Upton, T. G., Kashemirov, B. A., McKenna, C. E., Goodman, M. F., Prakash, G. K., Kultyshev, R., Batra, V. K., Shock, D. D., Pedersen, L. C., Beard, W. A., Wilson, S. H. (2009). Alpha,beta-difluoromethylene deoxynucleoside 5′-triphosphates: a convenient synthesis of useful probes for DNA polymerase beta structure and function. Organic letters. Vol. 11 (9), pp. 1883-6. PubMed Web Address
    • Rausch, J. W., Chelico, L., Goodman, M. F., Le Grice, S. F. Dissecting APOBEC3G Substrate Specificity by Nucleoside Analog Interference. J. Biol. Chem.. Vol. 284. 2009:7047-7058
    • Prochnow, C., Bransteitter, R., Goodman, M. F., Chen, X. S. The prospect of APOBEC3G for the future of HIV therapy. Editorial HIV Ther. Vol. 3. 2009:7-10
    • Indiani, C., Langston, L. D., Yurieva, O., Goodman, M. F., and O’Donnell, M. Translesion DNA polymerases remodel the replisome and alter the speed of the replicative helicase. Proc Natl Acad. Vol. 106. 2009:6031-6038
    • Upton, T. G., Kashemirov, B. S., McKenna, C. E., Goodman, M. F., Prakash, G. K., Kultyshev, R., Batra, V. K., Shock, D. D., Pedersen, L. C., Beard, W. A., Wilson, S. H. Alpha,beta-difluoromethylene deoxynucleoside 5’-triphosphates: a convenient synthesis of useful probes for DNA polymerase beta structura and function. Org Lett. Vol. 11. 2009:1883-1886
    • Kamerlin, S. C., McKenna, C., Goodman, M. F., Warshel, A. A Computational Study of the Hydrolysis of dGTP Analogues with Halomethylene Modified Leaving Groups in Solution: Implications for the Mechanism of DNA Polymerases. Biochemistry(2009): 5963-5971.
    • Chelico, L., Pham, P., Goodman, M. F. Mechanisms of APOBEC3G-catalyzed proessive deamination of deoxycytidine on single-stranded DNA. Nat Struct Mol. Vol. 16. 2009:454-455
    • Maccarthy, T., Kalis, S. L., Roa, S., Pham, P., Goodman, M. F., Scharff, M. D., Bergman, A. V-region mutation in vitro, in vivo and in silico reveal the importance of the enzymatic properties of AID and the sequence environment. Proc Natl Acad. Vol. 106. 2009:8629-8634
    • Goodman, M. F., Madia, F., Wei, M. Y., Hu, v., J., G., Pham, C., P., G., F., M. F., and Longo, V. D. Oncogene homologue Sch9 promotes age-dependent mutations by a superoxide and Rev1/Pol Zeta-dependent mechanism. J Cell Biol. Vol. 186. 2009:509-523
    • Goodman, M. F., Chelico, L., Pham, P., Petruska, J., and Goodman, M. F. Biochemical basis of immunological and retroviral responses to DNA-targeted cytosine deamination by AID and APOBEC3G, J. J. Biol. Chem. MiniReview. Vol. 284. 2009:27761-27765
    • Jiang, Q., Karata, K., Woodgate, R., Cox., M. M., Goodman, M. F. The active form of DNA polymerase V is UmuD’2C-RecA-ATP. Nature. Vol. 460. 2009:359-363
    • Pham, P., Zhang, K., Goodman, M. F. (2008). Hypermutation at A/T sites during G.U mismatch repair in vitro by human B-cell lysates. The Journal of biological chemistry. Vol. 283 (46), pp. 31754-62. PubMed Web Address
    • Pham, P., Smolka, M. B., Calabrese, P., Landolph, A., Zhang, K., Zhou, H., Goodman, M. F. (2008). Impact of phosphorylation and phosphorylation-null mutants on the activity and deamination specificity of activation-induced cytidine deaminase. The Journal of biological chemistry. Vol. 283 (25), pp. 17428-39. PubMed Web Address
    • Furukohri, A., Goodman, M. F., Maki, H. (2008). A dynamic polymerase exchange with Escherichia coli DNA polymerase IV replacing DNA polymerase III on the sliding clamp. The Journal of biological chemistry. Vol. 283 (17), pp. 11260-9. PubMed Web Address
    • Sucato, C. A., Upton, T. G., Kashemirov, B. A., Osuna, J., Oertell, K., Beard, W. A., Wilson, S. H., Florián, J., Warshel, A., McKenna, C. E., Goodman, M. F. (2008). DNA polymerase beta fidelity: halomethylene-modified leaving groups in pre-steady-state kinetic analysis reveal differences at the chemical transition state. Biochemistry. Vol. 47 (3), pp. 870-9. PubMed Web Address
    • Xiang, Y., Goodman, M. F., Beard, W. A., Wilson, S. H., Warshel, A. (2008). Exploring the role of large conformational changes in the fidelity of DNA polymerase beta. Proteins. Vol. 70 (1), pp. 231-47. PubMed Web Address
    • Xiang, Y., Goodman, M. F., Beard, W. A., Wilson, S. H., Warshel, A. (2008). Exploring the Role of Large Confomrational Changes in the Fidelity of DNA Polymerase Beta. Proteins.Vol. 70,pp. 231-247.
    • Sucato, C. A., Upton, T. G., Kashemirov, B. A., Osuna, J., Oertell, K., Beard, W. A., Wilson, S. H., Florian, J., Warshel, A., McKenna, C. E., Goodman, M. F. (2008). DNA Polymerase beta Fidelity: Halomethylene-Modified Groups in Pre-Steady-State Kinetic Analysis Reveal Differences at the Chemical Transition State. Biochemistry.Vol. 47,pp. 870-879.
    • Peled, J. U., Kuang, F. L., Iglesias-Ussel, M. D., Roa, S., Kalis, S. L., Goodman, M. F., Scharff, M. D. (2008). The Biochemistry of Somatic Hypermutation. Annu Rev Immunol.Vol. 26,pp. 481-511.
    • Furukohri, A., Goodman, M. F., Maki, H. (2008). A Dynamic Polymerase Exchange With Escherichia coli pol IV Replacing Pol III on the Sliding Clamp. J Biol Chemistry.Vol. 283,pp. 11260-11269.
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    Other

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    • USC Associates Award For Creativity In Research And Scholarship, , 2001

  • Editorships and Editorial Boards

    • Member of Editorial Board, Journal of DNA Repair, 2007-2008

    Professional Offices

    • consultant representing Hoffman-La Roche. Riche Molecular Systems and Roche Diagnostics, Washington, DC, Arnold & Porter, 2007-2008