-
1
-
-
0023701018
-
Cloning and sequencing of a cDNA encoding DNA methyltransferase of mouse cells. The carboxyl-terminal domain of the mammalian enzymes is related to bacterial restriction methyltransferases
-
Bestor, T., Laudano, A., Mattaliano, R. and Ingram, V. (1988) Cloning and sequencing of a cDNA encoding DNA methyltransferase of mouse cells. The carboxyl-terminal domain of the mammalian enzymes is related to bacterial restriction methyltransferases. J. Mol. Biol., 203, 971-983.
-
(1988)
J. Mol. Biol.
, vol.203
, pp. 971-983
-
-
Bestor, T.1
Laudano, A.2
Mattaliano, R.3
Ingram, V.4
-
2
-
-
0031860739
-
Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases
-
Okano, M., Xie, S. and Li, E. (1998) Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases. Nat. Genet., 19, 219-220.
-
(1998)
Nat. Genet.
, vol.19
, pp. 219-220
-
-
Okano, M.1
Xie, S.2
Li, E.3
-
3
-
-
0033615717
-
DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development
-
Okano, M., Bell, D.W., Haber, D.A. and Li, E. (1999) DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell, 99, 247-257.
-
(1999)
Cell
, vol.99
, pp. 247-257
-
-
Okano, M.1
Bell, D.W.2
Haber, D.A.3
Li, E.4
-
4
-
-
0035933337
-
Enzymatic properties of recombinant Dnmt3a DNA methyltransferase from mouse: The enzyme modifies DNA in a non-processive manner and also methylates non-CpG [correction of non-CpA] sites
-
Gowher, H. and Jeltsch, A. (2001) Enzymatic properties of recombinant Dnmt3a DNA methyltransferase from mouse: the enzyme modifies DNA in a non-processive manner and also methylates non-CpG [correction of non-CpA] sites. J. Mol. Biol., 309, 1201-1208.
-
(2001)
J. Mol. Biol.
, vol.309
, pp. 1201-1208
-
-
Gowher, H.1
Jeltsch, A.2
-
5
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
Tahiliani, M., Koh, K.P., Shen, Y., Pastor, W.A., Bandukwala, H., Brudno, Y., Agarwal, S., Iyer, L.M., Liu, D.R., Aravind, L. et al. (2009) Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science, 324, 930-935.
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
Koh, K.P.2
Shen, Y.3
Pastor, W.A.4
Bandukwala, H.5
Brudno, Y.6
Agarwal, S.7
Iyer, L.M.8
Liu, D.R.9
Aravind, L.10
-
6
-
-
80052461558
-
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
-
Ito, S., Shen, L., Dai, Q., Wu, S.C., Collins, L.B., Swenberg, J.A., He, C. and Zhang, Y. (2011) Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science, 333, 1300-1303.
-
(2011)
Science
, vol.333
, pp. 1300-1303
-
-
Ito, S.1
Shen, L.2
Dai, Q.3
Wu, S.C.4
Collins, L.B.5
Swenberg, J.A.6
He, C.7
Zhang, Y.8
-
7
-
-
80052495940
-
Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
-
He, Y.F., Li, B.Z., Li, Z., Liu, P., Wang, Y., Tang, Q., Ding, J., Jia, Y., Chen, Z., Li, L. et al. (2011) Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science, 333, 1303-1307.
-
(2011)
Science
, vol.333
, pp. 1303-1307
-
-
He, Y.F.1
Li, B.Z.2
Li, Z.3
Liu, P.4
Wang, Y.5
Tang, Q.6
Ding, J.7
Jia, Y.8
Chen, Z.9
Li, L.10
-
8
-
-
84894257068
-
Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA
-
Hashimoto, H., Pais, J.E., Zhang, X., Saleh, L., Fu, Z.Q., Dai, N., Correa, I.R. Jr, Zheng, Y. and Cheng, X. (2014) Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA. Nature, 506, 391-395.
-
(2014)
Nature
, vol.506
, pp. 391-395
-
-
Hashimoto, H.1
Pais, J.E.2
Zhang, X.3
Saleh, L.4
Fu, Z.Q.5
Dai, N.6
Correa, I.R.7
Zheng, Y.8
Cheng, X.9
-
9
-
-
84897523964
-
A TET homologue protein from Coprinopsis cinerea (CcTET) that biochemically converts 5-methylcytosine to 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine
-
Zhang, L., Chen, W., Iyer, L.M., Hu, J., Wang, G., Fu, Y., Yu, M., Dai, Q., Aravind, L. and He, C. (2014) A TET homologue protein from Coprinopsis cinerea (CcTET) that biochemically converts 5-methylcytosine to 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine. J. Am. Chem. Soc., 136, 4801-4804.
-
(2014)
J. Am. Chem. Soc.
, vol.136
, pp. 4801-4804
-
-
Zhang, L.1
Chen, W.2
Iyer, L.M.3
Hu, J.4
Wang, G.5
Fu, Y.6
Yu, M.7
Dai, Q.8
Aravind, L.9
He, C.10
-
10
-
-
84923566739
-
Insights into DNA hydroxymethylation in the honeybee from in-depth analyses of TET dioxygenase
-
Wojciechowski, M., Rafalski, D., Kucharski, R., Misztal, K., Maleszka, J., Bochtler, M. and Maleszka, R. (2014) Insights into DNA hydroxymethylation in the honeybee from in-depth analyses of TET dioxygenase. Open biology, 4.
-
(2014)
Open Biology
, vol.4
-
-
Wojciechowski, M.1
Rafalski, D.2
Kucharski, R.3
Misztal, K.4
Maleszka, J.5
Bochtler, M.6
Maleszka, R.7
-
11
-
-
84936157640
-
N(6)-methyladenine DNA modification in Drosophila
-
Zhang, G., Huang, H., Liu, D., Cheng, Y., Liu, X., Zhang, W., Yin, R., Zhang, D., Zhang, P., Liu, J. et al. (2015) N(6)-methyladenine DNA modification in Drosophila. Cell, 161, 893-906.
-
(2015)
Cell
, vol.161
, pp. 893-906
-
-
Zhang, G.1
Huang, H.2
Liu, D.3
Cheng, Y.4
Liu, X.5
Zhang, W.6
Yin, R.7
Zhang, D.8
Zhang, P.9
Liu, J.10
-
12
-
-
84964396022
-
2-Oxoglutarate-dependent oxygenases. RSC metallobiology series no. 3
-
Hausinger, R.P. and Schofield, C.J. (2015) 2-Oxoglutarate-dependent oxygenases. RSC metallobiology series no. 3. Roy. Soc. Chem.
-
(2015)
Roy. Soc. Chem
-
-
Hausinger, R.P.1
Schofield, C.J.2
-
13
-
-
0028010888
-
HhaI methyltransferase flips its target base out of the DNA helix
-
Klimasauskas, S., Kumar, S., Roberts, R.J. and Cheng, X. (1994) HhaI methyltransferase flips its target base out of the DNA helix. Cell, 76, 357-369.
-
(1994)
Cell
, vol.76
, pp. 357-369
-
-
Klimasauskas, S.1
Kumar, S.2
Roberts, R.J.3
Cheng, X.4
-
14
-
-
0023176797
-
Kinetic and catalytic mechanism of HhaI methyltransferase
-
Wu, J.C. and Santi, D.V. (1987) Kinetic and catalytic mechanism of HhaI methyltransferase. J. Biol. Chem., 262, 4778-4786.
-
(1987)
J. Biol. Chem.
, vol.262
, pp. 4778-4786
-
-
Wu, J.C.1
Santi, D.V.2
-
15
-
-
84911493925
-
5-Hydroxymethylcytosine is a predominantly stable DNA modification
-
Bachman, M., Uribe-Lewis, S., Yang, X., Williams, M., Murrell, A. and Balasubramanian, S. (2014) 5-Hydroxymethylcytosine is a predominantly stable DNA modification. Nat. Chem., 6, 1049-1055.
-
(2014)
Nat. Chem.
, vol.6
, pp. 1049-1055
-
-
Bachman, M.1
Uribe-Lewis, S.2
Yang, X.3
Williams, M.4
Murrell, A.5
Balasubramanian, S.6
-
16
-
-
84937736036
-
5-Formylcytosine can be a stable DNA modification in mammals
-
Bachman, M., Uribe-Lewis, S., Yang, X., Burgess, H.E., Iurlaro, M., Reik, W., Murrell, A. and Balasubramanian, S. (2015) 5-Formylcytosine can be a stable DNA modification in mammals. Nat. Chem. Biol., 11, 555-557.
-
(2015)
Nat. Chem. Biol.
, vol.11
, pp. 555-557
-
-
Bachman, M.1
Uribe-Lewis, S.2
Yang, X.3
Burgess, H.E.4
Iurlaro, M.5
Reik, W.6
Murrell, A.7
Balasubramanian, S.8
-
18
-
-
84894560490
-
Crystal structure of TET2-DNA complex: Insight into TET-mediated 5mC oxidation
-
Hu, L., Li, Z., Cheng, J., Rao, Q., Gong, W., Liu, M., Shi, Y.G., Zhu, J., Wang, P. and Xu, Y. (2013) Crystal structure of TET2-DNA complex: insight into TET-mediated 5mC oxidation. Cell, 155, 1545-1555.
-
(2013)
Cell
, vol.155
, pp. 1545-1555
-
-
Hu, L.1
Li, Z.2
Cheng, J.3
Rao, Q.4
Gong, W.5
Liu, M.6
Shi, Y.G.7
Zhu, J.8
Wang, P.9
Xu, Y.10
-
20
-
-
0038414570
-
Multiparametric scaling of diffraction intensities
-
Otwinowski, Z., Borek, D., Majewski, W. and Minor, W. (2003) Multiparametric scaling of diffraction intensities. Acta Crystallogr. A, 59, 228-234.
-
(2003)
Acta Crystallogr. A
, vol.59
, pp. 228-234
-
-
Otwinowski, Z.1
Borek, D.2
Majewski, W.3
Minor, W.4
-
21
-
-
76449098262
-
PHENIX: A comprehensive Python-based system for macromolecular structure solution
-
Adams, P.D., Afonine, P.V., Bunkoczi, G., Chen, V.B., Davis, I.W., Echols, N., Headd, J.J., Hung, L.W., Kapral, G.J., Grosse-Kunstleve, R.W. et al. (2010) PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr. D Biol. Crystallogr., 66, 213-221.
-
(2010)
Acta Crystallogr. D Biol. Crystallogr.
, vol.66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkoczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
Headd, J.J.7
Hung, L.W.8
Kapral, G.J.9
Grosse-Kunstleve, R.W.10
-
22
-
-
14244272868
-
PHENIX: Building new software for automated crystallographic structure determination
-
Adams, P.D., Grosse-Kunstleve, R.W., Hung, L.W., Ioerger, T.R., McCoy, A.J., Moriarty, N.W., Read, R.J., Sacchettini, J.C., Sauter, N.K. and Terwilliger, T.C. (2002) PHENIX: building new software for automated crystallographic structure determination. Acta Crystallogr. D Biol. Crystallogr., 58, 1948-1954.
-
(2002)
Acta Crystallogr. D Biol. Crystallogr.
, vol.58
, pp. 1948-1954
-
-
Adams, P.D.1
Grosse-Kunstleve, R.W.2
Hung, L.W.3
Ioerger, T.R.4
McCoy, A.J.5
Moriarty, N.W.6
Read, R.J.7
Sacchettini, J.C.8
Sauter, N.K.9
Terwilliger, T.C.10
-
23
-
-
84929484734
-
Biochemical characterization of a Naegleria TET-like oxygenase and its application in single molecule sequencing of 5-methylcytosine
-
Pais, J.E., Dai, N., Tamanaha, E., Vaisvila, R., Fomenkov, A.I., Bitinaite, J., Sun, Z., Guan, S., Correa, I.R. Jr, Noren, C.J. et al. (2015) Biochemical characterization of a Naegleria TET-like oxygenase and its application in single molecule sequencing of 5-methylcytosine. Proc. Natl. Acad. Sci. U.S.A., 112, 4316-4321.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A.
, vol.112
, pp. 4316-4321
-
-
Pais, J.E.1
Dai, N.2
Tamanaha, E.3
Vaisvila, R.4
Fomenkov, A.I.5
Bitinaite, J.6
Sun, Z.7
Guan, S.8
Correa, I.R.9
Noren, C.J.10
-
24
-
-
84902831568
-
Tet oxidizes thymine to 5-hydroxymethyluracil in mouse embryonic stem cell DNA
-
Pfaffeneder, T., Spada, F., Wagner, M., Brandmayr, C., Laube, S.K., Eisen, D., Truss, M., Steinbacher, J., Hackner, B., Kotljarova, O. et al. (2014) Tet oxidizes thymine to 5-hydroxymethyluracil in mouse embryonic stem cell DNA. Nat. Chem. Biol., 10, 574-581.
-
(2014)
Nat. Chem. Biol.
, vol.10
, pp. 574-581
-
-
Pfaffeneder, T.1
Spada, F.2
Wagner, M.3
Brandmayr, C.4
Laube, S.K.5
Eisen, D.6
Truss, M.7
Steinbacher, J.8
Hackner, B.9
Kotljarova, O.10
-
25
-
-
0026680632
-
Mutation of asparagine 229 to aspartate in thymidylate synthase converts the enzyme to a deoxycytidylate methylase
-
Liu, L. and Santi, D.V. (1992) Mutation of asparagine 229 to aspartate in thymidylate synthase converts the enzyme to a deoxycytidylate methylase. Biochemistry, 31, 5100-5104.
-
(1992)
Biochemistry
, vol.31
, pp. 5100-5104
-
-
Liu, L.1
Santi, D.V.2
-
26
-
-
84908093905
-
Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence
-
Hashimoto, H., Olanrewaju, Y.O., Zheng, Y., Wilson, G.G., Zhang, X. and Cheng, X. (2014) Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence. Genes Dev., 28, 2304-2313.
-
(2014)
Genes Dev.
, vol.28
, pp. 2304-2313
-
-
Hashimoto, H.1
Olanrewaju, Y.O.2
Zheng, Y.3
Wilson, G.G.4
Zhang, X.5
Cheng, X.6
-
27
-
-
84871083428
-
Carbon-oxygen hydrogen bonding in biological structure and function
-
Horowitz, S. and Trievel, R.C. (2012) Carbon-oxygen hydrogen bonding in biological structure and function. J. Biol. Chem., 287, 41576-41582.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 41576-41582
-
-
Horowitz, S.1
Trievel, R.C.2
-
28
-
-
84922538222
-
Frequent side chain methyl carbon-oxygen hydrogen bonding in proteins revealed by computational and stereochemical analysis of neutron structures
-
Yesselman, J.D., Horowitz, S., Brooks, C.L. 3rd and Trievel, R.C. (2015) Frequent side chain methyl carbon-oxygen hydrogen bonding in proteins revealed by computational and stereochemical analysis of neutron structures. Proteins, 83, 403-410.
-
(2015)
Proteins
, vol.83
, pp. 403-410
-
-
Yesselman, J.D.1
Horowitz, S.2
Brooks, C.L.3
Trievel, R.C.4
-
29
-
-
84866545609
-
Direct observation of hydrogen atom dynamics and interactions by ultrahigh resolution neutron protein crystallography
-
Chen, J.C., Hanson, B.L., Fisher, S.Z., Langan, P. and Kovalevsky, A.Y. (2012) Direct observation of hydrogen atom dynamics and interactions by ultrahigh resolution neutron protein crystallography. Proc. Natl. Acad. Sci. U.S.A., 109, 15301-15306.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 15301-15306
-
-
Chen, J.C.1
Hanson, B.L.2
Fisher, S.Z.3
Langan, P.4
Kovalevsky, A.Y.5
-
30
-
-
0042164227
-
Structural basis for the product specificity of histone lysine methyltransferases
-
Zhang, X., Yang, Z., Khan, S.I., Horton, J.R., Tamaru, H., Selker, E.U. and Cheng, X. (2003) Structural basis for the product specificity of histone lysine methyltransferases. Mol. Cell, 12, 177-185.
-
(2003)
Mol. Cell
, vol.12
, pp. 177-185
-
-
Zhang, X.1
Yang, Z.2
Khan, S.I.3
Horton, J.R.4
Tamaru, H.5
Selker, E.U.6
Cheng, X.7
-
31
-
-
14044256546
-
In vitro and in vivo analyses of a Phe/Tyr switch controlling product specificity of histone lysine methyltransferases
-
Collins, R.E., Tachibana, M., Tamaru, H., Smith, K.M., Jia, D., Zhang, X., Selker, E.U., Shinkai, Y. and Cheng, X. (2005) In vitro and in vivo analyses of a Phe/Tyr switch controlling product specificity of histone lysine methyltransferases. J. Biol. Chem., 280, 5563-5570.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 5563-5570
-
-
Collins, R.E.1
Tachibana, M.2
Tamaru, H.3
Smith, K.M.4
Jia, D.5
Zhang, X.6
Selker, E.U.7
Shinkai, Y.8
Cheng, X.9
-
32
-
-
58549112187
-
Structural origins for the product specificity of SET domain protein methyltransferases
-
Couture, J.F., Dirk, L.M., Brunzelle, J.S., Houtz, R.L. and Trievel, R.C. (2008) Structural origins for the product specificity of SET domain protein methyltransferases. Proc. Natl. Acad. Sci. U.S.A., 105, 20659-20664.
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 20659-20664
-
-
Couture, J.F.1
Dirk, L.M.2
Brunzelle, J.S.3
Houtz, R.L.4
Trievel, R.C.5
-
33
-
-
84893740377
-
Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain
-
Guo, J.U., Su, Y., Shin, J.H., Shin, J., Li, H., Xie, B., Zhong, C., Hu, S., Le, T., Fan, G. et al. (2014) Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain. Nat. Neurosci., 17, 215-222.
-
(2014)
Nat. Neurosci.
, vol.17
, pp. 215-222
-
-
Guo, J.U.1
Su, Y.2
Shin, J.H.3
Shin, J.4
Li, H.5
Xie, B.6
Zhong, C.7
Hu Le S, T.8
Fan, G.9
-
34
-
-
84928533445
-
Disruption of DNA-methylation-dependent long gene repression in Rett syndrome
-
Gabel, H.W., Kinde, B., Stroud, H., Gilbert, C.S., Harmin, D.A., Kastan, N.R., Hemberg, M., Ebert, D.H. and Greenberg, M.E. (2015) Disruption of DNA-methylation-dependent long gene repression in Rett syndrome. Nature, 522, 89-93.
-
(2015)
Nature
, vol.522
, pp. 89-93
-
-
Gabel, H.W.1
Kinde, B.2
Stroud, H.3
Gilbert, C.S.4
Harmin, D.A.5
Kastan, N.R.6
Hemberg, M.7
Ebert, D.H.8
Greenberg, M.E.9
-
35
-
-
84901950311
-
Structural basis for hydroxymethylcytosine recognition by the SRA domain of UHRF2
-
Zhou, T., Xiong, J., Wang, M., Yang, N., Wong, J., Zhu, B. and Xu, R.M. (2014) Structural basis for hydroxymethylcytosine recognition by the SRA domain of UHRF2. Mol. Cell, 54, 879-886.
-
(2014)
Mol. Cell
, vol.54
, pp. 879-886
-
-
Zhou, T.1
Xiong, J.2
Wang, M.3
Yang, N.4
Wong, J.5
Zhu, B.6
Xu, R.M.7
-
36
-
-
84915789576
-
DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia
-
Rampal, R., Alkalin, A., Madzo, J., Vasanthakumar, A., Pronier, E., Patel, J., Li, Y., Ahn, J., Abdel-Wahab, O., Shih, A. et al. (2014) DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia. Cell Rep., 9, 1841-1855.
-
(2014)
Cell Rep.
, vol.9
, pp. 1841-1855
-
-
Rampal, R.1
Alkalin, A.2
Madzo, J.3
Vasanthakumar, A.4
Pronier, E.5
Patel, J.6
Li, Y.7
Ahn, J.8
Abdel-Wahab, O.9
Shih, A.10
-
37
-
-
84923847396
-
WT1 recruits TET2 to regulate its target gene expression and suppress leukemia cell proliferation
-
Wang, Y., Xiao, M., Chen, X., Chen, L., Xu, Y., Lv, L., Wang, P., Yang, H., Ma, S., Lin, H. et al. (2015) WT1 recruits TET2 to regulate its target gene expression and suppress leukemia cell proliferation. Mol. Cell, 57, 662-673.
-
(2015)
Mol. Cell
, vol.57
, pp. 662-673
-
-
Wang, Y.1
Xiao, M.2
Chen, X.3
Chen, L.4
Xu, Y.5
Lv, L.6
Wang, P.7
Yang, H.8
Ma, S.9
Lin, H.10
-
38
-
-
84902082299
-
Carboxylation of cytosine (5caC) in the CG dinucleotide in the E-box motif (CGCAG|GTG) increases binding of the Tcf3|Ascl1 helix-loop-helix heterodimer 10-fold
-
Golla, J.P., Zhao, J., Mann, I.K., Sayeed, S.K., Mandal, A., Rose, R.B. and Vinson, C. (2014) Carboxylation of cytosine (5caC) in the CG dinucleotide in the E-box motif (CGCAG|GTG) increases binding of the Tcf3|Ascl1 helix-loop-helix heterodimer 10-fold. Biochem. Biophys. Res. Commun., 449, 248-255.
-
(2014)
Biochem. Biophys. Res. Commun.
, vol.449
, pp. 248-255
-
-
Golla, J.P.1
Zhao, J.2
Mann, I.K.3
Sayeed, S.K.4
Mandal, A.5
Rose, R.B.6
Vinson, C.7
-
39
-
-
84938411464
-
Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex
-
Wang, L., Zhou, Y., Xu, L., Xiao, R., Lu, X., Chen, L., Chong, J., Li, H., He, C., Fu, X.D. et al. (2015) Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex. Nature, 523, 621-625.
-
(2015)
Nature
, vol.523
, pp. 621-625
-
-
Wang, L.1
Zhou, Y.2
Xu, L.3
Xiao, R.4
Lu, X.5
Chen, L.6
Chong, J.7
Li, H.8
He, C.9
Fu, X.D.10
|