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

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue 38, 2011, Pages 15786-15791

  Čabart, Pavel ^a,b   Újvári, Andrea ^a,c   Pal, Mahadeb ^a,d   Luse, Donal S ^a,d  

^a LERNER RESEARCH INSTITUTE   (United States)

^b TEXAS A AND M UNIVERSITY   (United States)

^c Thermo Fisher Scientific   (United States)

^d BOSE INSTITUTE   (India)

Author keywords

General transcription factors; Transcript initiation

Indexed keywords

CASEIN KINASE II; ELONGATION COMPLEX; ELONGATION FACTOR; RNA POLYMERASE II; TRANSCRIPTION FACTOR II; TRANSCRIPTION FACTOR IIB; TRANSCRIPTION FACTOR TFIIF; UNCLASSIFIED DRUG;

ARTICLE; CLEARANCE; PREINITIATION COMPLEX ASSEMBLY; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN ASSEMBLY; PROTEIN PHOSPHORYLATION;

BASE SEQUENCE; CASEIN KINASE II; HELA CELLS; HUMANS; IMMUNOBLOTTING; PHOSPHORYLATION; PROMOTER REGIONS, GENETIC; RNA POLYMERASE II; TEMPLATES, GENETIC; TRANSCRIPTION FACTOR TFIIB; TRANSCRIPTION FACTORS, TFII; TRANSCRIPTION INITIATION SITE; TRANSCRIPTION, GENETIC;

EID: 80053148610     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1104591108     Document Type: Article

References (47)

1. Pinto I, Wu W-H, Na JG, Hampsey M (1994) Characterization of sua7 mutations defines a domain of TFIIB involved in transcription start site selection in yeast. J Biol Chem 269:30569-30573. (Pubitemid 24376541)
2. Pardee TS, Bangur CS, Ponticelli AS (1998) The N-terminal region of yeast TFIIB contains two adjacent functional domains involved in stable RNA polymerase II binding and transcription start site selection. J Biol Chem 273:17859-17864. (Pubitemid 28355132)
3. Hawkes NA, Roberts SG (1999) The role of human TFIIB in transcription start site selection in vitro and in vivo. J Biol Chem 274:14337-14343.
4. Cho EJ, Buratowski S (1999) Evidence that transcription factor IIB is required for a post-assembly step in transcription initiation. J Biol Chem 274:25807-25813.
5. Sun Z-W, Hampsey M (1995) Identification of the gene (SSU71/TFG1) encoding the largest subunit of transcription factor TFIIF as a suppressor of a TFIIB mutation in Saccharomyces cerevisiae. Proc Natl Acad Sci USA 92:3127-3131.
6. Ghazy MA, Brodie SA, Ammerman ML, Ziegler LM, Ponticelli AS (2004) Amino acid substitutions in yeast TFIIF confer upstream shifts in transcription initiation and altered interaction with RNA polymerase II. Mol Cell Biol 24:10975-10985. (Pubitemid 39603151)
7. Freire-Picos MA, Krishnamurthy S, Sun ZW, Hampsey M (2005) Evidence that the Tfg1/Tfg2 dimer interface of TFIIF lies near the active center of the RNA polymerase II initiation complex. Nucleic Acids Res 33:5045-5052. (Pubitemid 41487812)
8. Khaperskyy DA, Ammerman ML, Majovski RC, Ponticelli AS (2008) Functions of Saccharomyces cerevisiae TFIIF during transcription start site utilization. Mol Cell Biol 28:3757-3766. (Pubitemid 351732910)
9. Liu X, Bushnell DA, Wang D, Calero G, Kornberg RD (2010) Structure of an RNA polymerase II-TFIIB complex and the transcription initiation mechanism. Science 327:206-209.
10. Kostrewa D, et al. (2009) RNA polymerase II-TFIIB structure and mechanism of transcription initiation. Nature 462:323-330.
11. Majovski RC, Khaperskyy DA, Ghazy MA, Ponticelli AS (2005) A functional role for the switch 2 region of yeast RNA polymerase II in transcription start site utilization and abortive initiation. J Biol Chem 280:34917-34923. (Pubitemid 41504626)
12. Eichner J, Chen HT, Warfield L, Hahn S (2010) Position of the general transcription factor TFIIF within the RNA polymerase II transcription preinitiation complex. EMBO J 29:706-716.
13. Tran K, Gralla JD (2008) Control of the timing of promoter escape and RNA catalysis by the transcription factor IIB fingertip. J Biol Chem 283:15665-15671.
14. Luse DS, Spangler LC, Újvári A (2011) Efficient and rapid nucleosome traversal by RNA polymerase II depends on a combination of transcript elongation factors. J Biol Chem 286:6040-6048.
15. Cheng B, Price DH (2007) Properties of RNA polymerase II elongation complexes before and after the P-TEFb-mediated transition into productive elongation. J Biol Chem 282:21901-21912. (Pubitemid 47195731)
16. Zawel L, Kumar KP, Reinberg D (1995) Recycling of the general transcription factors during RNA polymerase II transcription. Genes Dev 9:1479-1490.
17. Pan G, Greenblatt J (1994) Initiation of transcription by RNA polymerase II is limited by melting of the promoter DNA in the region immediately upstream of the initiation site. J Biol Chem 269:30101-30104. (Pubitemid 24376470)
18. Pal M, Ponticelli AS, Luse DS (2005) The role of the transcription bubble and TFIIB in promoter clearance by RNA polymerase II. Mol Cell 19:101-110. (Pubitemid 40884661)
19. Újvári A, Pal M, Luse DS (2011) The functions of TFIIF during initiation and transcript elongation are differentially affected by phosphorylation by casein kinase 2. J Biol Chem 286:23160-23167.
20. Újvári A, Luse DS (2006) RNA emerging from the active site of RNA polymerase II interacts with the Rpb7 subunit. Nat Struct Mol Biol 13:49-54. (Pubitemid 43049402)
21. Kim TK, Ebright RH, Reinberg D (2000) Mechanism of ATP-dependent promoter melting by transcription factor IIH. Science 288:1418-1421. (Pubitemid 30366327)
22. Luse DS, Jacob GA (1987) Abortive initiation by RNA polymerase II in vitro at the Adenovirus 2 major late promoter. J Biol Chem 262:14990-14997.
23. Yan Q, Moreland RJ, Conaway JW, Conaway RC (1999) Dual roles for transcription factor IIF in promoter escape by RNA polymerase II. J Biol Chem 274:35668-35675. (Pubitemid 129512867)
24. Chang C, Kostrub CF, Burton ZF (1993) RAP30/74 (transcription factor IIF) is required for promoter escape by RNA polymerase II. J Biol Chem 268:20482-20489. (Pubitemid 23278959)
25. Bushnell DA, Westover KD, Davis RE, Kornberg RD (2004) Structural basis of transcription: An RNA polymerase II-TFIIB cocrystal at 4.5 angstroms. Science 303:983-988. (Pubitemid 38209696)
26. Fiedler U, Timmers HTM (2001) Analysis of the open region of RNA polymerase II transcription complexes in the early phase of elongation. Nucleic Acids Res 29:2706-2714. (Pubitemid 32685033)
27. Hahn S (2004) Structure and mechanism of the RNA polymerase II transcription machinery. Nat Struct Mol Biol 11:394-403.
28. Roeder RG (1996) The role of general initiation factors in transcription by RNA polymerase II. Trends Biochem Sci 21:327-335.
29. Thompson NE, Glaser BT, Foley KM, Burton ZF, Burgess RR (2009) Minimal promoter systems reveal the importance of conserved residues in the B-finger of human transcription factor IIB. J Biol Chem 284:24754-24766.
30. Chen HT, Hahn S (2004) Mapping the location of TFIIB within the RNA polymerase II transcription preinitiation complex: A model for the structure of PIC. Cell 119:169-180.
31. Geiger SR, et al. (2010) RNA polymerase I contains a TFIIF-related DNA-binding subcomplex. Mol Cell 39:583-594.
32. Kassavetis GA, Prakash P, Shim E (2010) The C53/C37 subcomplex of RNA polymerase III lies near the active site and participates in promoter opening. J Biol Chem 285:2695-2706.
33. Werner F, Weinzierl ROJ (2005) Direct modulation of RNA polymerase core functions by basal transcription factors. Mol Cell Biol 25:8344-8355. (Pubitemid 41263022)
34. Ponjavic J, et al. (2006) Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters. Genome Biol 7:R78.
35. Pal M, Luse DS (2003) The initiation-elongation transition: Lateral mobility of RNA in RNA polymerase II complexes is greatly reduced at +8/+9 and absent by +23. Proc Natl Acad Sci USA 100:5700-5705. (Pubitemid 36576871)
36. Sopta M, Carthew RW, Greenblatt J (1985) Isolation of three proteins that bind to mammalian RNA polymerase II. J Biol Chem 260:10353-10360. (Pubitemid 16246577)
37. Kitajima S, Chibazakura T, Yonaha M, Yasukochi Y (1994) Regulation of the human general transcription initiation factor TFIIF by phosphorylation. J Biol Chem 269:29970-29977. (Pubitemid 24365167)
38. Rossignol M, Keriel A, Staub A, Egly JM (1999) Kinase activity and phosphorylation of the largest subunit of TFIIF transcription factor. J Biol Chem 274:22387-22392.
39. Lewis BA, Sims RJ, Lane WS, Reinberg D (2005) Functional characterization of core promoter elements: DPE-specific transcription requires the protein kinase CK2 and the PC4 coactivator. Mol Cell 18:471-481. (Pubitemid 40704761)
40. Egyházi E, Ossoinak A, Filhol-Cochet O, Cochet C, Pigon A (1999) The binding of the α subunit of protein kinase CK2 and RAP74 subunit of TFIIF to protein-coding genes in living cells is DRB sensitive. Mol Cell Biochem 191:149-159. (Pubitemid 29092722)
41. Core LJ, Lis JT (2008) Transcription regulation through promoter-proximal pausing of RNA polymerase II. Science 319:1791-1792. (Pubitemid 351451556)
42. Price DH (2008) Poised polymerases: On your mark...get set...go! Mol Cell 30:7-10.
43. Nechaev S, Adelman K (2008) Promoter-proximal pol II: When stalling speeds things up. Cell Cycle 7:1539-1544. (Pubitemid 351881317)
44. Margaritis T, Holstege FCP (2008) Poised RNA polymerase II gives pause for thought. Cell 133:581-584. (Pubitemid 351636308)
45. Gilmour DS (2009) Promoter proximal pausing on genes in metazoans. Chromosoma 118:1-10.
46. Tran K, Gralla JD (2010) The TFIIB tip domain couples transcription initiation to events involved in RNA processing. J Biol Chem 285:39580-39587.
47. Singh BN, Hampsey M (2007) A transcription-independent role for TFIIB in gene looping. Mol Cell 27:806-816. (Pubitemid 47333227)