Transcriptional regulation by pol II(G) involving mediator and competitive interactions of gdown1 and tfiif with pol II

Molecular Cell

Volumn 45, Issue 1, 2012, Pages 51-63

  Jishage, Miki ^a   Malik, Sohail ^a   Wagner, Ulrich ^b   Uberheide, Beatrix ^a   Ishihama, Yasushi ^c   Hu, Xiaopeng ^d,e   Chait, Brian T ^a   Gnatt, Averell ^d   Ren, Bing ^b   Roeder, Robert G ^a  

^a ROCKEFELLER UNIVERSITY   (United States)

^b LUDWIG INSTITUTE FOR CANCER RESEARCH   (United States)

^c KEIO UNIVERSITY   (Japan)

^d UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

^e SUN YAT SEN UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

GDOWN1 POLYPEPTIDE; GENERAL TRANSCRIPTION FACTOR; POL II(G) PROTEIN; POL PROTEIN; POLYPEPTIDE; TFIIF; UNCLASSIFIED DRUG;

ARTICLE; BINDING AFFINITY; BINDING KINETICS; GENE EXPRESSION; GENETIC TRANSCRIPTION; HUMAN; IN VITRO STUDY; NUCLEOTIDE SEQUENCE; PROMOTER REGION; PROTEIN ASSEMBLY; RNA ANALYSIS; TRANSCRIPTION REGULATION;

BINDING, COMPETITIVE; DNA-DIRECTED RNA POLYMERASES; GENE EXPRESSION REGULATION; HELA CELLS; HUMANS; MEDIATOR COMPLEX; RNA POLYMERASE II; TRANSCRIPTION FACTORS, TFII; TRANSCRIPTION, GENETIC;

EID: 84862908533     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2011.12.014     Document Type: Article

References (28)

1. An W., Kim J., Roeder R.G. Ordered cooperative functions of PRMT1, p300, and CARM1 in transcriptional activation by p53. Cell 2004, 117:735-748.
2. Aygün O., Svejstrup J., Liu Y. A RECQ5-RNA polymerase II association identified by targeted proteomic analysis of human chromatin. Proc. Natl. Acad. Sci. USA 2008, 105:8580-8584.
3. Baek H.J., Kang Y.K., Roeder R.G. Human Mediator enhances basal transcription by facilitating recruitment of transcription factor IIB during preinitiation complex assembly. J.Biol. Chem. 2006, 281:15172-15181.
4. Čabart P., Újvári A., Pal M., Luse D.S. Transcription factor TFIIF is not required for initiation by RNA polymerase II, but it is essential to stabilize transcription factor TFIIB in early elongation complexes. Proc. Natl. Acad. Sci. USA 2011, 108:15786-15791.
5. Chen Z.A., Jawhari A., Fischer L., Buchen C., Tahir S., Kamenski T., Rasmussen M., Lariviere L., Bukowski-Wills J.C., Nilges M., et al. Architecture of the RNA polymerase II-TFIIF complex revealed by cross-linking and mass spectrometry. EMBO J. 2010, 29:717-726.
6. Chung W.H., Craighead J.L., Chang W.H., Ezeokonkwo C., Bareket-Samish A., Kornberg R.D., Asturias F.J. RNA polymerase II/TFIIF structure and conserved organization of the initiation complex. Mol. Cell 2003, 12:1003-1013.
7. Core L.J., Waterfall J.J., Lis J.T. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 2008, 322:1845-1848.
8. Cramer P., Bushnell D.A., Kornberg R.D. Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution. Science 2001, 292:1863-1876.
9. Dephoure N., Zhou C., Villén J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. A quantitative atlas of mitotic phosphorylation. Proc. Natl. Acad. Sci. USA 2008, 105:10762-10767.
10. Eichner J., Chen H.T., Warfield L., Hahn S. Position of the general transcription factor TFIIF within the RNA polymerase II transcription preinitiation complex. EMBO J. 2010, 29:706-716.
11. Groft C.M., Uljon S.N., Wang R., Werner M.H. Structural homology between the Rap30 DNA-binding domain and linker histone H5: implications for preinitiation complex assembly. Proc. Natl. Acad. Sci. USA 1998, 95:9117-9122.
12. Guenther M.G., Levine S.S., Boyer L.A., Jaenisch R., Young R.A. A chromatin landmark and transcription initiation at most promoters in human cells. Cell 2007, 130:77-88.
13. Hu X., Malik S., Negroiu C.C., Hubbard K., Velalar C.N., Hampton B., Grosu D., Catalano J., Roeder R.G., Gnatt A. A Mediator-responsive form of metazoan RNA polymerase II. Proc. Natl. Acad. Sci. USA 2006, 103:9506-9511.
14. Jeronimo C., Langelier M.F., Zeghouf M., Cojocaru M., Bergeron D., Baali D., Forget D., Mnaimneh S., Davierwala A.P., Pootoolal J., et al. RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits. Mol. Cell. Biol. 2004, 24:7043-7058.
15. Kyono Y., Sugiyama N., Imami K., Tomita M., Ishihama Y. Successive and selective release of phosphorylated peptides captured by hydroxy acid-modified metal oxide chromatography. J. Proteome Res. 2008, 7:4585-4593.
16. Malik S., Roeder R.G. Isolation and functional characterization of the TRAP/mediator complex. Methods Enzymol. 2003, 364:257-284.
17. Malik S., Roeder R.G. The metazoan Mediator co-activator complex as an integrative hub for transcriptional regulation. Nat. Rev. Genet. 2010, 11:761-772.
18. Malik S., Guermah M., Roeder R.G. A dynamic model for PC4 coactivator function in RNA polymerase II transcription. Proc. Natl. Acad. Sci. USA 1998, 95:2192-2197.
19. Malik S., Barrero M.J., Jones T. Identification of a regulator of transcription elongation as an accessory factor for the human Mediator coactivator. Proc. Natl. Acad. Sci. USA 2007, 104:6182-6187.
20. Miyao T., Woychik N.A. RNA polymerase subunit RPB5 playsa role in transcriptional activation. Proc. Natl. Acad. Sci. USA 1998, 95:15281-15286.
21. Muse G.W., Gilchrist D.A., Nechaev S., Shah R., Parker J.S., Grissom S.F., Zeitlinger J., Adelman K. RNA polymerase is poised for activation across the genome. Nat. Genet. 2007, 39:1507-1511.
22. Saunders A., Core L.J., Lis J.T. Breaking barriers to transcription elongation. Nat. Rev. Mol. Cell Biol. 2006, 7:557-567.
23. Tan S., Garrett K.P., Conaway R.C., Conaway J.W. Cryptic DNA-binding domain in the C terminus of RNA polymerase II general transcription factor RAP30. Proc. Natl. Acad. Sci. USA 1994, 91:9808-9812.
24. Thomas M.C., Chiang C.M. The general transcription machinery and general cofactors. Crit. Rev. Biochem. Mol. Biol. 2006, 41:105-178.
25. Tyree C.M., George C.P., Lira-DeVito L.M., Wampler S.L., Dahmus M.E., Zawel L., Kadonaga J.T. Identification of a minimal set of proteins that is sufficient for accurate initiation of transcription by RNA polymerase II. Genes Dev. 1993, 7(7A):1254-1265.
26. Wei W., Dorjsuren D., Lin Y., Qin W., Nomura T., Hayashi N., Murakami S. Direct interaction between the subunit RAP30 of transcription factor IIF (TFIIF) and RNA polymerase subunit 5, which contributes to the association between TFIIF and RNA polymerase II. J.Biol. Chem. 2001, 276:12266-12273.
27. Zeitlinger J., Stark A., Kellis M., Hong J.W., Nechaev S., Adelman K., Levine M., Young R.A. RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat. Genet. 2007, 39:1512-1516.
28. Zhang Y., Liu T., Meyer C.A., Eeckhoute J., Johnson D.S., Bernstein B.E., Nusbaum C., Myers R.M., Brown M., Li W., Liu X.S. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008, 9:R137.