Structural basis for human PHF2 Jumonji domain interaction with metal ions

Journal of Molecular Biology

Volumn 406, Issue 1, 2011, Pages 1-8

  Horton, John R ^a   Upadhyay, Anup K ^a   Hashimoto, Hideharu ^a   Zhang, Xing ^a   Cheng, Xiaodong ^a  

^a EMORY UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Epe1; epigenetics; histone lysine demethylation; methyl lysine binding; PHF2

Indexed keywords

2 OXOGLUTARIC ACID; HISTIDINE; HISTONE DEMETHYLASE; HYDROXYL GROUP; IRON; METAL ION; N OXALYLGLYCINE; NICKEL; NUCLEAR PROTEIN; OXYGEN; PEPTIDE DERIVATIVE; PROTEIN H3K4ME3; PROTEIN JUMONJI; PROTEIN PHF2; TYROSINE; UNCLASSIFIED DRUG;

ARTICLE; CHEMICAL INTERACTION; CONCENTRATION (PARAMETERS); CRYSTAL STRUCTURE; ENZYME ACTIVITY; HETEROCHROMATIN; HUMAN; METAL BINDING; MUTATIONAL ANALYSIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE; SCHIZOSACCHAROMYCES POMBE; SEQUENCE HOMOLOGY;

SCHIZOSACCHAROMYCES POMBE;

EID: 79151477106     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2010.12.013     Document Type: Article

References (26)

1. Hasenpusch-Theil K., Chadwick B.P., Theil T., Heath S.K., Wilkinson D.G., and Frischauf A.M. PHF2, a novel PHD finger gene located on human chromosome 9q22 Mamm. Genome 10 1999 294 298
2. Sinha S., Singh R.K., Alam N., Roy A., Roychoudhury S., and Panda C.K. Alterations in candidate genes PHF2, FANCC, PTCH1 and XPA at chromosomal 9q22.3 region: pathological significance in early- and late-onset breast carcinoma Mol. Cancer 7 2008 84
3. Klose R.J., Kallin E.M., and Zhang Y. JmjC-domain-containing proteins and histone demethylation Nat. Rev. Genet. 7 2006 715 727
4. Horton J.R., Upadhyay A.K., Qi H.H., Zhang X., Shi Y., and Cheng X. Enzymatic and structural insights for substrate specificity of a family of jumonji histone lysine demethylases Nat. Struct. Mol. Biol. 17 2010 38 43
5. Fortschegger K., de Graaf P., Outchkourov N.S., van Schaik F.M., Timmers H.T., and Shiekhattar R. PHF8 targets histone methylation and RNA polymerase II to activate transcription Mol. Cell Biol. 30 2010 3286 3298
6. Kleine-Kohlbrecher D., Christensen J., Vandamme J., Abarrategui I., Bak M., and Tommerup N. A functional link between the histone demethylase PHF8 and the transcription factor ZNF711 in X-linked mental retardation Mol. Cell 38 2010 165 178
7. Feng W., Yonezawa M., Ye J., Jenuwein T., and Grummt I. PHF8 activates transcription of rRNA genes through H3K4me3 binding and H3K9me1/2 demethylation Nat. Struct. Mol. Biol. 17 2010 445 450
8. Yokoyama A., Okuno Y., Chikanishi T., Hashiba W., Sekine H., Fujiki R., and Kato S. KIAA1718 is a histone demethylase that erases repressive histone methyl marks Genes Cells 15 2010 867 873
9. Huang C., Xiang Y., Wang Y., Li X., Xu L., and Zhu Z. Dual-specificity histone demethylase KIAA1718 (KDM7A) regulates neural differentiation through FGF4 Cell Res. 20 2010 154 165
10. Liu W., Tanasa B., Tyurina O.V., Zhou T.Y., Gassmann R., and Liu W.T. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression Nature 466 2010 508 512
11. Qi H.H., Sarkissian M., Hu G.Q., Wang Z., Bhattacharjee A., and Gordon D.B. Histone H4K20/H3K9 demethylase PHF8 regulates zebrafish brain and craniofacial development Nature 466 2010 503 507
12. Wen H., Li J., Song T., Lu M., Kan P.Y., and Lee M.G. Recognition of histone H3K4 trimethylation by the plant homeodomain of PHF2 modulates histone demethylation J. Biol. Chem. 285 2010 9322 9326
13. Ayoub N., Noma K., Isaac S., Kahan T., Grewal S.I., and Cohen A. A novel jmjC domain protein modulates heterochromatization in fission yeast Mol. Cell Biol. 23 2003 4356 4370
14. Trewick S.C., McLaughlin P.J., and Allshire R.C. Methylation: lost in hydroxylation? EMBO Rep. 6 2005 315 320
15. Elkins J.M., Hewitson K.S., McNeill L.A., Seibel J.F., Schlemminger I., and Pugh C.W. Structure of factor-inhibiting hypoxia-inducible factor (HIF) reveals mechanism of oxidative modification of HIF-1α J. Biol. Chem. 278 2003 1802 1806
16. Tsukada Y., Fang J., Erdjument-Bromage H., Warren M.E., Borchers C.H., Tempst P., and Zhang Y. Histone demethylation by a family of JmjC domain-containing proteins Nature 439 2006 811 816
17. Tahiliani M., Mei P., Fang R., Leonor T., Rutenberg M., and Shimizu F. The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation Nature 447 2007 601 605
18. Iwase S., Lan F., Bayliss P., L. de la Torre-Ubieta, M. Huarte, and H.H. Qi The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases Cell 128 2007 1077 1088
19. Han Z., Liu P., Gu L., Zhang Y., Li H., Chen S., and Chai J. Structural basis for histone demethylation by JHDM1 Frontier Sci. 1 2007 52 67
20. Feng, W. (2009). The Jumonji domain containing proteins PHF2 and PHF8 act in concert to stimulate transcription of rRNA genes. Dissertation (under Prof. Dr. Ingrid Grummt), University Heidelberg, Germany (http://www.ub.uni- heidelberg.de/archiv/9945 ).
21. Frescas D., Guardavaccaro D., Bassermann F., Koyama-Nasu R., and Pagano M. JHDM1B/FBXL10 is a nucleolar protein that represses transcription of ribosomal RNA genes Nature 450 2007 309 313
22. Li F., Huarte M., Zaratiegui M., Vaughn M.W., Shi Y., Martienssen R., and Cande W.Z. Lid2 is required for coordinating H3K4 and H3K9 methylation of heterochromatin and euchromatin Cell 135 2008 272 283
23. Chang B., Chen Y., Zhao Y., and Bruick R.K. JMJD6 is a histone arginine demethylase Science 318 2007 444 447
24. Webby C.J., Wolf A., Gromak N., Dreger M., Kramer H., and Kessler B. Jmjd6 catalyses lysyl-hydroxylation of U2AF65, a protein associated with RNA splicing Science 325 2009 90 93
25. Mantri M., Krojer T., Bagg E.A., Webby C.J., Butler D.S., and Kochan G. Crystal structure of the 2-oxoglutarate- and Fe(II)-dependent lysyl hydroxylase JMJD6 J. Mol. Biol. 401 2010 211 222
26. Hong X., Zang J., White J., Wang C., Pan C.H., and Zhao R. Interaction of JMJD6 with single-stranded RNA Proc. Natl Acad. Sci. USA 107 2010 14568 14572