Recent Advances in the Structural Studies on Cytosine Deaminase APOBEC3 Family Members and Their Nucleic Acid Complexes
- Corresponding author: Xu Bin, xubin@t.shu.edu.cn Cao Chunyang, ccao@mail.sioc.ac.cn
Citation: Jin Jiaoyu, Yan Xiaoxuan, Liu Yaping, Lan Wenxian, Wang Chunxi, Xu Bin, Cao Chunyang. Recent Advances in the Structural Studies on Cytosine Deaminase APOBEC3 Family Members and Their Nucleic Acid Complexes[J]. Acta Chimica Sinica, ;2019, 77(11): 1089-1098. doi: 10.6023/A19080296
Goila-Gaur, R.; Strebel, K. Retrovirology 2008, 5, 51.
doi: 10.1186/1742-4690-5-51
Larue, R. S.; Andresdottir, V.; Blanchard, Y.; Conticello, S. G.; Derse, D.; Emerman, M.; Greene, W. C.; Jonsson, S. R.; Landau, N. R.; Lochelt, M.; Malik, H. S.; Malim, M. H.; Munk, C.; O'Brien, S. J.; Pathak, V. K.; Strebel, K.; Wain-Hobson, S.; Yu, X. F.; Yuhki, N.; Harris, R. S. J. Virol. 2009, 83, 494.
doi: 10.1128/JVI.01976-08
Wedekind, J. E. Trends Genet. 2003, 19, 207.
doi: 10.1016/S0168-9525(03)00054-4
Harris, R. S.; Liddament, M. T. Nat. Rev. Immunol. 2004, 4, 868.
doi: 10.1038/nri1489
Kitamura, S.; Ode, H.; Nakashima, M. Nat. Struct. Mol. Biol. 2012, 19, 1005.
doi: 10.1038/nsmb.2378
Mitra, M.; Hercik, K.; Byeon, I. J. L. Nucleic Acids Res. 2014, 42, 1095.
doi: 10.1093/nar/gkt945
Chen, K. M.; Harjes, E.; Gross, P. J.; Fahmy, A.; Lu, Y.; Shindo, K. Seibutsu Butsuri 2008, 48, 116.
Burns, M. B.; Lackey, L.; Carpenter, M. A.; Rathore, A.; Land, A. M.; Leonard, B. Nature 2013, 494, 366.
doi: 10.1038/nature11881
Shi, K.; Carpenter, M. A.; Kurahashi, K.; Harris, R. S.; Aihara, H. J. Biol. Chem. 2015, 290, 28120.
doi: 10.1074/jbc.M115.679951
Xiao, X.; Yang, H.; Arutiunian, V.; Fang, Y.; Chen, X. S. Nucleic Acids Res. 2017, 45, 7494.
doi: 10.1093/nar/gkx362
Nathans, R.; Cao, H.; Sharova, N.; Ali, A.; Sharkey, M.; Stranska, R. Nat. Biotechnol. 2008, 26, 1187.
doi: 10.1038/nbt.1496
Dang, Y.; Wang, X.; Esselman, W. J.; Zheng, Y. H. J. Virol. 2006, 80, 10522.
doi: 10.1128/JVI.01123-06
Stanley, B. J.; Ehrlich, E. S.; Short, L.; Yu, Y.; Xiong, Y. J. Virol. 2008, 82, 8656.
doi: 10.1128/JVI.00767-08
Seplyarskiy, V. B.; Andrianova, M. A.; Bazykin, G. A. Genome Res. 2017, 27, 175.
doi: 10.1101/gr.210336.116
Zheng, Y. H.; Irwin, D.; Kurosu, T. J. Virol. 2004, 78, 6073.
doi: 10.1128/JVI.78.11.6073-6076.2004
Byeon, I. J. L.; Ahn, J.; Mitra, M.; Byeon, C. H.; Hercík, K.; Hritz, J. Nat. Commun. 2013, 4, 1890.
doi: 10.1038/ncomms2883
Chelico, L.; Prochnow, C.; Erie, D. A. J. Biol. Chem. 2010, 283, 16195.
Guo, Y.; Dong, L.; Qiu, X.; Wang, Y.; Zhang, B.; Liu, H. Nature 2014, 505(7482), 229.
doi: 10.1038/nature12884
Bohn, M. F. Structure 2013, 21, 1042.
doi: 10.1016/j.str.2013.04.010
Siu, K. K.; Sultana, A.; Azimi, F. Nat. Commun. 2013, 4, 2593.
doi: 10.1038/ncomms3593
Matsui, M.; Shindo, K.; Izumi, T.; Io, K.; Shinohara, M.; Komano, J.; Kobayashi, M.; Kadowaki, N.; Harris, R. S.; Takaori-Kondo, A. Virol. J. 2014, 11, 122.
doi: 10.1186/1743-422X-11-122
Kouno, T.; Luengas, E. M.; Shigematsu, M. Nat. Struct. Mol. Biol. 2015, 22(6), 485.
doi: 10.1038/nsmb.3033
Klarmann, G. J. J. Biol. Chem. 2003, 278, 7902.
doi: 10.1074/jbc.M207223200
Furukawa, A.; Nagata, T.; Matsugami, A. Nucleic Acids Symp. Ser. 2009, 53, 87.
doi: 10.1093/nass/nrp044
Mangeat, B.; Turelli, P.; Caron, G.; Friedli, M.; Perrin, L.; Trono, D. Nature 2003, 4244, 99.
Peng, G. J. Exp. Med. 2006, 203, 41.
doi: 10.1084/jem.20051512
Chelico, L.; Pham, P.; Calabrese, P.; Goodman, M. F. Nat. Struct. Mol. Biol. 2006, 13, 392
doi: 10.1038/nsmb1086
Harjes, E.; Gross, P. J.; Chen, K. M.; Lu, Y.; Shindo, K. J. Mol. Biol. 2009, 389, 819.
doi: 10.1016/j.jmb.2009.04.031
Wichroski, M. J.; K. Ichiyama; T. M. Rana. J. Biol. Chem. 2005, 280, 8387.
Sheehy, A. M.; Gaddis, N. C.; Choi, J. D.; Malim, M. H. Nature 2002, 418, 646.
doi: 10.1038/nature00939
Bennett, R. P.; Presnyak, V.; Wedekind, J. E.; Smith, H. C. J. Biol. Chem. 2008, 283, 7320.
doi: 10.1074/jbc.M708567200
Lu, X.; Zhang, T. L.; Xu, Z. J. Biol. Chem. 2015, 290, 4010.
doi: 10.1074/jbc.M114.624262
Dang, Y.; Siew, L. M.; Wang, X. J.; Han, Y. X.; Lampen, R.; Zheng, Y. H. J. Biol. Chem. 2008, 283, 11606.
doi: 10.1074/jbc.M707586200
Jarmuz, A.; Chester, A.; Bayliss, J.; Gisbourne, J.; Dunham, I.; Scott, J. Genomics 2002, 79, 285.
doi: 10.1006/geno.2002.6718
Holden, L. G.; Prochnow, C.; Chang, Y. P. Nature 2008, 456, 121.
doi: 10.1038/nature07357
Olson, M. E.; Li, M.; Harris, R. S. Chem. Med. Chem. 2013, 8, 112.
doi: 10.1002/cmdc.201200411
Jager, S.; Kim, D. Y.; Hultquist, J. F.; Shindo, K.; Larue, R. S.; Kwon, E. Nature 2012, 481, 371.
doi: 10.1038/nature10693
Mehle, A.; Strack, B.; Ancuta, P.; Zhang, C.; Mcpike, M.; Gabuzda, D. J. Biol. Chem. 2004, 279, 7792.
doi: 10.1074/jbc.M313093200
Marcsisin, S. R.; Engen, J. R. J. Mol. Biol. 2010, 402, 892.
doi: 10.1016/j.jmb.2010.08.026
Bergeron, J. R.; Huthoff, H.; Veselkov, D. A.; Beavil, R. L.; Sanderson, M. R. PLoS Pathog. 2010, 6, e1000925.
doi: 10.1371/journal.ppat.1000925
Reingewertz, T. H.; Shalev, D. E.; Friedler, A. Protein Pept. Lett. 2010, 17, 988.
doi: 10.2174/092986610791498876
Liddament, M. T.; Brown, W. L.; Schumacher, A. J.; Harris, R. S. Curr. Biol. 2004, 14, 1385.
doi: 10.1016/j.cub.2004.06.050
Lu, Z.; Bergeron, J. R. C.; AtkinsLu, Z.; Bergeron, J. R. C.; Atkinson, R. A.; Schaller, T.; Veselkov, D. A.; Oregioni, A. Open. Biol. 2013, 3, 130100.
doi: 10.1098/rsob.130100
Luo, K.; Xiao, Z.; Ehrlich, E.; Yu, Y.; Liu, B.; Zheng, S. Proc. Natl. Acad. Sci. U. S. A. 2005, 102, 11444.
doi: 10.1073/pnas.0502440102
Stenglein, M. D.; Burns, M. B.; Li, M.; Lengyel, J.; Harris, R. S. Nat. Struct. Mol. Biol. 2010, 17, 222.
doi: 10.1038/nsmb.1744
Chelico, L.; Pham, P.; Calabrese, P.; Goodman, M. F. Nat. Struct. Mol. Biol. 2006, 13, 392.
doi: 10.1038/nsmb1086
Ronsard, L.; Raja, R.; Panwar, V.; Saini, S.; Mohankumar, K.; Sridharan, S. Sci. Rep. 2015, 5, 15438.
doi: 10.1038/srep15438
Yamanaka, S.; Balestra, M. E.; Ferrell, L. D. Proc. Nat. Acad. Sci. U. S. A. 1995, 92, 8483.
doi: 10.1073/pnas.92.18.8483
Navarro, F.; Bollman, B.; Chen, H. Virology 2005, 333, 374.
doi: 10.1016/j.virol.2005.01.011
Kouno, T.; Silvas, T. V.; Hilbert, B. J.; Shandilya, S. M. D.; Bohn, M. F.; Kelch, B. A.; Royer, W. E.; Somasundaran, M.; Kurt Yilmaz, N.; Matsuo, H.; Schiffer, C. A. Nat. Commun. 2017, 8, 15024.
doi: 10.1038/ncomms15024
Shi, K.; Carpenter, M. A.; Banerjee, S.; Shaban, N. M.; Kurahashi, K.; Salamango, D. J.; McCann, J. L.; Starrett, G. J.; Duffy, J. V.; Demir, O.; Amaro, R. E.; Harki, D. A.; Harris, R. S.; Aihara, H. Nat. Struct Mol. Biol. 2017, 24, 131.
doi: 10.1038/nsmb.3344
Fang, Y.; Xiao, X.; Li, S.; Wolfe, A.; Chen, X. S. J. Mol. Biol. 2018, 430, 87.
doi: 10.1016/j.jmb.2017.11.007
Cheng, C.; Zhang, T.; Wang, C. X.; Lan, W.; Ding, J.; Cao, C. Y. Chin. J. Chem. 2018, 36, 1241.
doi: 10.1002/cjoc.201800508
Xiao, X.; Li, S. X.; Yang, H.; Chen, X. S. Nat. Commun. 2016, 7, 12193.
doi: 10.1038/ncomms12193
Maiti, A.; Myint, W.; Kanai, T.; Delviks-Frankenberry, K.; Sierra Rodriguez, C.; Pathak, V. K.; Schiffer, C. A.; Matsuo, H. Nat. Commun. 2018, 9, 2460.
doi: 10.1038/s41467-018-04872-8
Yan, X. X.; Lan, W. X.; Wang, C. X.; Cao, C. Y. Chem. Asian J. 2019, 14, 2235.
doi: 10.1002/asia.201900480
Bohn, J. A.; Thummar, K.; York, A.; Raymond, A.; Brown, W. C.; Bieniasz, P. D.; Hatziioannou, T.; Smith, J. L. Nat. Commun. 2017, 8, 1021.
doi: 10.1038/s41467-017-01309-6
Nadine, M. S.; Shi, K.; Lauer, K. V.; Brown, W. L.; Aihara, H.; Harris, R. S. Mol. Cell 2018, 69, 75.
doi: 10.1016/j.molcel.2017.12.010
Matsuoka, T.; Nagae, T.; Ode, H.; Awazu, H.; Kurosawa, T.; Hamano, A.; Matsuoka, K.; Hachiya, A.; Imahashi, M.; Yokomaku, Y.; Watanabe, N.; Iwatani, Y. Nucleic Acids Res. 2018, 46, 10368.
doi: 10.1093/nar/gky676
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