Analysis of the interaction of the novel RNA polymerase II (pol II) subunit hsRPB4 with its partner hsRPB7 and with pol II

Molecular and Cellular Biology

Volumn 18, Issue 4, 1998, Pages 1935-1945

  Khazak, Vladimir ^a,c   Estojak, Joanne ^a   Cho, Helen ^b   Majors, Jenifer ^a   Sonoda, Gonosuke ^a   Testa, Joseph R ^a   Golemis, Erica A ^a  

^a FOX CHASE CANCER CENTER   (United States)

^b RUTGERS ROBERT WOOD JOHNSON MEDICAL SCHOOL   (United States)

^c Small Molecule Therapeutics   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

RNA POLYMERASE II;

ANIMAL CELL; ARTICLE; CONTROLLED STUDY; EUKARYOTIC CELL; FUNGUS GROWTH; HUMAN; HUMAN CELL; MOLECULAR CLONING; MOLECULAR INTERACTION; NONHUMAN; PRIORITY JOURNAL; PROKARYOSIS; PROTEIN PROTEIN INTERACTION; RIBOSOME SUBUNIT; RNA TRANSCRIPTION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; STRESS; TRANSCRIPTION REGULATION;

ANIMALIA; EUKARYOTA; FUNGI; MAMMALIA; PROKARYOTA; SACCHAROMYCES CEREVISIAE;

EID: 0031924677     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.18.4.1935     Document Type: Article

References (75)

1. Acker, J., M. Wintzerith, M. Vigneron, and C. Kedinger. 1992. Primary structure of the second largest subunit of human RNA polymerase II (or B). J. Mol. Biol. 226:1295-1299.
2. Acker, J., M. Wintzerith, M. Vigneron, and C. Kedinger. 1993. Structure of the gene encoding the 14.5 kDa subunit of human RNA polymerase II. Nucleic Acids Res. 21:5345-5350.
3. Acker, J., M. Wintzerith, M. Vigneron, and C. Kedinger. 1994. A 14.4 KDa acidic subunit of human RNA polymerase II with a putative leucine-zipper. DNA Sequence 4:329-331.
4. Acker, J., O. Murroni, M. G. Mattei, C. Kedinger, and M. Vigneron. 1996. The gene (POLR2L) encoding the hRPB7.6 subunit of human RNA polymerase. Genomics 32:86-90.
5. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipunan. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
6. Asturias, F. J., G. D. Meredith, C. L. Poglitsch, and R. D. Kornberg. 1997. Two conformations of RNA polymerase II revealed by electron crystallography. J. Mol. Biol. 272:536-540.
7. Ausubel, F. M., R. Brent, R. Kingston, D. Moore, J. Seidman, J. A. Smith, and K. Struhl. 1987. Current protocols in molecular biology. John Wiley & Sons, New York, N.Y.
8. Avruch, J., and D. Wallach. 1971. Preparation and properties of plasma membrane and endoplasmic reticulum fragments from isolated rat fat cells. Biochim. Biophys. Acta 233:334-347.
9. Awrey, D. E., R. G. Weilbaecher, S. A. Hemming, S. M. Orlicky, C. M. Kane, and A. M. Edwards. 1997. Transcriptional elongation through DNA arrest sites: a multistep process involving both RNA polymerase II subunit RPB9 and TFIIS*. J. Biol. Chem. 272:14747-14754.
10. Baskaran, R., M. E. Dahmus, and J. Y. J. Wang. 1993. Tyrosine phosphorylation of mammalian RNA polymerase II carboxy-terminal domain. Proc. Natl. Acad. Sci. USA 90:11167-11171.
11. Bell, D. W., T. Taguchi, N. A. Jenkins, D. J. Gilbert, N. G. Copeland, C. B. Gilks, P. Zweidler-McKay, H. L. Grimes, P. N. Tsichlis, and J. R. Testa. 1995. Chromosomal localization, in man and rodents, of a gene (GFl1) encoding a novel zinc finger protein reveals a new syntenic region between mouse and man. Cytogenet. Cell Genet. 70:263-267.
12. Bregman, D. B., L. Du, S. van der Zee, and S. L. Warren. 1995. Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains. J. Cell Biol. 129:287-298.
13. Brendel, V. and S. Karlin. 1994. Applications of statistical criteria in protein sequence analysis: case study of yeast RNA polymerase II subunits. Comput. Chcm. 18:251-253.
14. Brent, R., and M. Ptashne. 1980. The lexA gene product represses its own promoter. Proc. Natl. Acad. Sci. USA 77:1932-1936.
15. Buratowski, S. 1994. The basics of basal transcription by RNA polymerase II. Cell 77:1-3.
16. Choder, M. 1993. A growth rate-limiting process in the last growth phase of the yeast life cycle involves RPB4, a subunit of RNA polymerase II. J. Bacteriol. 175:6358-6363.
17. Choder, M., and R. A. Young. 1993. A portion of RNA polymerase II molecules has a component essential for stress responses and stress survival. Mol. Cell. Biol. 13:6984-6991.
18. Conaway, R. C., and J. W. Conaway. 1993. General initiation factors for RNA polymerase II. Annu. Rev. Biochem. 62:161-190.
19. Deutscher, M. P. 1990. Guide to protein purification. Methods Enzymol. 182:62-63.
20. Edwards, A. M., C. M. Kane, R. A. Young, and R. D. Kornberg. 1991. Two dissociable subunits of yeast RNA polymerase II stimulate the initiation of transcription at a promoter in vitro. J. Biol. Chem. 266:71-75.
21. Estojak, J., R. Brent, and E. A. Golemis. 1995. Correlation of two-hybrid affinity data with in vitro measurements. Mol. Cell. Biol. 15:5820-5829.
22. Fan, Y.-S., L. M. Davis, and T. B. Shows. 1990. Mapping small DNA sequences by fluorescence in situ hybridization directly on banded metaphase chromosomes. Proc. Natl. Acad. Sci. USA 87:6223-6227.
23. Fanciulli, M., T. Bruni, C. Cerboni, F. Bonetto, C. Iacobini, L. Frati, M. Piccoli, A. Floridi, A. Santoni, and A. Punturieri. 1996. Cloning of a novel human RNA polymerase II subunit downregulated by doxorubicin: new potential mechanisms of drug related toxicity. FEBS Lett. 384:48-52.
24. Feaver, W. J., J. W. Svejstrup, N. L. Henry, and R. D. Kornberg. 1994. Relationship of CDK-activating kinase and RNA polymerase II CTD kinase TFIIH/TFIIK. Cell 79:1103-1109.
25. Frangioni, J. V., P. H. Beahm, V. Shifrin, C. A. Jost, and B. G. Neel. 1992. The non-transmembrane tyrosine phosphatase FTP-1B localizes to the endoplasmic reticulum via its 35 amino acid C-terminal sequence. Cell 68: 545-560.
26. Freund, E., and P. M. McGuire. 1986. Characterization of RNA polymerase type II from human term placenta. J. Cell. Physiol. 127:432-438.
27. Golemis, E. A., and R. Brent. 1992. Fused protein domains inhibit DNA binding by LexA. Mol. Cell. Biol. 12:3006-3014.
28. Golemis, E. A., J. Gyuris, and R. Brent. 1996. Interaction trap/two-hybrid system to identify interacting proteins, p. 20.1.1-20.1.28. In F. M. Ausubel, R. Brent, R. Kingston, et al. (eds.). Current protocols in molecular biology. John Wiley and Sons, New York, N.Y.
29. Gyuris, J., E. A. Golemis, H. Chertkov, and R. Brent. 1993. Cdi1, a human G1 and S phase protein phosphatase that associates with Cdk2. Cell 75: 791-803.
30. Harlow, E., and D. Lane. 1988. Antibodies: a laboratory manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
31. Hengge-Aronis, R. 1993. Survival of hunger and stress: the role of rpoS in early stationary phase gene regulation in E. coli. Cell 72:165-168.
32. Hodo, H. G., III, and S. P. Blatti. 1977. Purification using polyethylenimine precipitation and low molecular weight subunit analyses of calf thymus and wheat germ DNA-dependent RNA polymerase II. Biochemistry 16:2334-2343.
33. Hull, M. W., K. McKune, and N. A. Woychik. 1995. RNA polymerase II subunit RPB9 is required for accurate start site selection. Genes Dev. 99: 481-490.
34. Institute for Genomic Research Consortium. 1995. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. Nature 377:3-174.
35. Jensen, G. J., G. Meredith, D. A. Bushnell, and R. D. Kornberg. Structure of wild type yeast RNA polymerase II and location of Rph4 and Rph7. Submitted for publication.
36. Karlin, S., and V. Brendel. 1992. Chance and statistical significance in protein and DNA sequence analysis. Science 257:39-49.
37. Kedinger, C., F. Gissinger, and P. Chambon. 1974. Animal DNA-dependent RNA polymerases. Eur. J. Biochem. 44:421-436.
38. Khazak, V., N. Woychik, P. Sadhale, R. Brent, and E. A. Golemis. 1995. Human RNA polymerase II subunit hsRPB7 functions in yeast and influences yeast cell morphology and stress survival. Mol. Biol. Cell 6:759-775.
39. Khazak, V., and E. A. Golemis. Unpublished data.
40. Koleske, A. J., and R. A. Young. 1995. The RNA polymerase II holoenzyme and its implications for gene regulation. Trends Biochem. Sci. 20:113-116.
41. Kovar, H. Personal communication.
42. Labarca, C., and K. Paigen. 1980. A simple, rapid, and sensitive DNA assay procedure. Anal. Biochem. 102:344-352.
43. cas-like docking protein, associates with focal adhesion kinase and induces pseudohyphal growth in Saccharomyces cerevisiae. Mol. Cell. Biol. 16:3327-3337.
44. Liao, S.-M., J. Zhang, D. A. JeBery, A. J. Koleske, C. M. Thompson, D. M. Chao, M. Viljoen, H. J. J. van Vuuren, and R. A. Young. 1995. A kinase-cyclin pair in the RNA polymerase II holoenzyme. Nature 374:193-196.
45. Lu, H., O. Glores, R. Weinman, and D. Reinberg. 1991. The nonphosphorylated form of RNA polymerase II preferentially associates with the preinitiation complex. Proc. Natl. Acad. Sci. USA 88:10004-10008.
46. Makalowski, W., J. Zhang, and M. S. Boguski. 1996. Comparative analysis of 1196 orthologous mouse and human full-length mRNA and protein sequences. Genome Res. 6:846-857.
47. Maldonado, E., R. Drapkin, and D. Reinberg. 1996. Purification of human RNA polymerase II and general transcription factors. Methods Enzymol. 274:72-100.
48. Maldonado, E., R. Shiekhattar, M. Sheldon, H. Cho, R. Drapkin, P. Rickert, E. Lees, C. W. Anderson, S. Linn, and D. Reinberg. 1996. A human RNA polymerase II complex associated with SRB and DNA-repair proteins. Nature 381:86-89.
49. McKune, K., P. A. Moore, M. W. Hull, and N. A. Woychik. 1995. Six human RNA polymerase subunits functionally substitute for their yeast counterparts. Mol. Cell. Biol. 15:6895-6900.
50. McKune, K., and N. A. Woychik. 1994. Functional substitution of an essential yeast RNA polymerase subunit by a highly conserved mammalian counterpart. Mol. Cell. Biol. 14:4155-4159.
51. Miller, J. H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
52. Mortillaro, M. J., B. J. Blencowe, X. Wei, H. Nakayasu, L. Du, S. L. Warren, P. A. Sharp, and R. Berezney. 1996. A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrix. Proc. Natl. Acad. Sci. USA 93:8253-8257.
53. Pati, U. K., and S. M. Weissman. 1989. Isolation and molecular characterization of a cDNA encoding the 23 kDa subunit of human RNA polymerase II. J. Biol. Chem. 264:13114-13121.
54. Pati, U. K., and S. M. Weissman. 1990. The amino acid sequence of the human RNA polymerase II 33 kDa subunit hRPB 33 is highly conserved among eukaryotes. J. Biol. Chem. 265:8400-8403.
55. Ptashne, M., and A. Gann. 1997. Transcriptional activation by recruitment. Nature 386:569-577.
56. Pusch, C., Z. Wang, B. Roe, and N. Blin. 1996. Genomic structure of the RNA polymerase II small subunit (hRPB14.4) locus (POLRF) and mapping to 22q13.1 by sequence identity. Genomics 34:440-442.
57. Rasmussen, E. B., and J. T. Lis. 1995. Short transcripts of the ternary complex provide insight into RNA polymerase II elongational pausing. J. Mol. Biol. 252:522-535.
58. Reinberg, D., and R. G. Roeder. 1987. Factors involved in specific transcription by mammalian RNA polymerase II: purification and functional analysis of initiation factors IIB and IIE*. J. Biol. Chem. 262:3310-3321.
59. Sawadogo, M. and A. Sentenac. 1990. RNA polymerase B (II) and general transcription factors. Annu. Rev. Biochem. 59:711-754.
60. Schiestl, R. H., and R. D. Gietz. 1989. High efficiency transformation of intact yeast cells using single stranded nucleic acids as a carrier. Curr. Genet. 16:339-346.
61. Sentenac, A. 1985. Eukaryotic RNA polymerases. Crit. Rev. Biochem. 18: 31-91.
62. Serebriiskii, I., J. Estojak, G. Sonoda, J. R. Testa, and E. A. Golemis. 1997. Association of Krev-1/rapla with Krit1, a novel ankyrin repeat-containing protein encoded by a gene mapping to 7q21-22. Oncogene 15:1043-1049.
63. Shapiro, L. 1993. Protein localization and asymmetry in the bacterial cell. Cell 73:841-855.
64. Shemshedini, L. Submitted for publication.
65. Shpakovski, G. V., J. Acker, M. Wintzerith, J.-F. Lacroix, P. Thuriaux, and M. Vigneron. 1995. Four subunits that are shared by the three classes of RNA polymerase are functionally interchangeable between Homo sapiens and Saccharomyces cererisiae. Mol. Cell. Biol. 15:4702-4710.
66. Sottocasa, G. L., B. Kuylenstierna, L. Ernster, and A. Bergstrand. 1967. An electron-transport system associated with the outer membrane of liver mitochondria. J. Cell Biol. 32:415-438.
67. Tanaka, K., Y. Takayanagi, N. Fujita, A. Ishihama, and H. Takahashi. 1993. Heterogeneity of the principal σ factor in Escherichia coli: the rpoS gene product σ38 is a second principal σ factor of RNA polymerase in stationary-phase Escherichia coli. Proc. Natl. Acad. Sci. USA 90:3511-3515.
68. Tjian, R., and T. Maniatis. 1994. Transcriptional activation: a complex puzzle with few easy pieces. Cell 77:5-8.
69. Treich, I., C. Carles, M. Riva, and A. Sentenac. 1992. RPC10 encodes a new mini subunit shared by yeast nuclear RNA polymerases. Gene Expr. 2:31-37.
70. Warren, S. L., A. S. Landolfi, C. Curtis, and J. S. Morrow. 1992. Cytostellin: a novel, highly conserved protein that undergoes continuous redistribution during the cell cycle. J. Cell Sci. 103:381-388.
71. Wintzerith, M., J. Acker, S. Vicaire, M. Vigneron, and C. Kedinger. 1992. Complete sequence of the human RNA polymerase II largest subunit. Nucleic Acids Res. 20:910.
72. Woychik, N. A., W. S. Lane, and R. A. Young. 1991. Yeast RNA polymerase II subunit RPB9 is essential for growth at temperature extremes. J. Biol. Chem. 266:19053-19055.
73. Woychik, N. A., and R. A. Young. 1989. RNA polymerase II subunit RPB4 is essential for high- and low-temperature yeast cell growth. Mol. Cell. Biol. 9: 2854-2859.
74. Woychik, N. A., and R. A. Young. 1990. RNA polymerase II: subunit structure and function. Trends Biochem. Sci. 15:347-351.
75. Young, R. A. 1991. RNA polymerase II. Annu. Rev. Biochem. 60:689-715.